Daily Papers

This paper introduces AgriIR, a configurable retrieval augmented generation (RAG) framework designed to deliver grounded, domain-specific answers while maintaining flexibility and low computational cost. Instead of relying on large, monolithic models, AgriIR decomposes the information access process into declarative modular stages -- query refinement, sub-query planning, retrieval, synthesis, and evaluation. This design allows practitioners to adapt the framework to new knowledge verticals without modifying the architecture. Our reference implementation targets Indian agricultural information access, integrating 1B-parameter language models with adaptive retrievers and domain-aware agent catalogues. The system enforces deterministic citation, integrates telemetry for transparency, and includes automated deployment assets to ensure auditable, reproducible operation. By emphasizing architectural design and modular control, AgriIR demonstrates that well-engineered pipelines can achieve domain-accurate, trustworthy retrieval even under constrained resources. We argue that this approach exemplifies ``AI for Agriculture'' by promoting accessibility, sustainability, and accountability in retrieval-augmented generation systems.

Large language models (LLMs) can answer religious knowledge queries fluently, yet they often hallucinate and misattribute sources, which is especially consequential in Islamic settings where users expect grounding in canonical texts (Qur'an and Hadith) and jurisprudential (fiqh) nuance. Retrieval-augmented generation (RAG) reduces some of these limitations by grounding generation in external evidence. However, a single ``retrieve-then-generate'' pipeline is limited to deal with the diversity of Islamic queries. Users may request verbatim scripture, fatwa-style guidance with citations or rule-constrained computations such as zakat and inheritance that require strict arithmetic and legal invariants. In this work, we present a bilingual (Arabic/English) multi-agent Islamic assistant, called Fanar-Sadiq, which is a core component of the Fanar AI platform. Fanar-Sadiq routes Islamic-related queries to specialized modules within an agentic, tool-using architecture. The system supports intent-aware routing, retrieval-grounded fiqh answers with deterministic citation normalization and verification traces, exact verse lookup with quotation validation, and deterministic calculators for Sunni zakat and inheritance with madhhab-sensitive branching. We evaluate the complete end-to-end system on public Islamic QA benchmarks and demonstrate effectiveness and efficiency. Our system is currently publicly and freely accessible through API and a Web application, and has been accessed approx1.9M times in less than a year.

Biomedical researchers increasingly use AI-generated analyses and reports to interpret protein-level signals, but static outputs are often insufficient for research decision-making, where users need to inspect evidence, assess uncertainty, compare mechanisms, and refine hypotheses. We present BioInsight, a multi-agent system that moves from static biomedical report generation to interactive evidence-centered interactive interface generation. Given a disease name, a protein association table, and optional cohort metadata, BioInsight organizes disease-specific evidence through typed intermediate artifacts, including ranked pathways, literature evidence packets, protein-level reasoning notes, citation-grounded reports, dashboard schemas, and rendered interactive interfaces. The system decomposes evidence retrieval from mechanistic reasoning, normalizes citations through deterministic components, and converts the same structured evidence used in the report into an interactive interface. We evaluate BioInsight on standardized biomedical QA, challenging protein-function reasoning, and end-to-end biomedical evidence synthesis. Results show that BioInsight achieves best, and suggest that biomedical AI systems should move beyond text-only and static reports toward provenance-preserving, interactive evidence artifacts.

Large language models are increasingly used in scientific writing, yet they can fabricate citation-shaped references that appear plausible but fail bibliographic verification. Existing detectors often reduce verification to binary found/not-found decisions and rely on brittle parsing or incomplete retrieval, offering little field-level signal to auditors. We reframe citation hallucination detection as taxonomy-aligned field-level adjudication and introduce a 12-code taxonomy spanning Real, Potential, and Hallucinated citations. Based on this taxonomy, we build CiteTracer, a cascading multi-agent detector that extracts structured citations from PDF and BibTeX, retrieves evidence through cache lookup, URL fetch, scholar connectors, and web search, applies deterministic field matching, and routes ambiguous cases to class-specialist judgers. We release a benchmark of 2,450 synthetic citations built from real seeds with controlled LLM mutations, paired with 957 real-world fabricated citations drawn from ICLR 2026 and an anonymous conference desk-rejected submissions. CiteTracer reaches 97.1% accuracy on the synthetic benchmark, with class-level F1 scores of 97.0, 95.8, and 98.5 for Real, Potential, and Hallucinated, respectively, and detects 97.1% of fabrications on the real-world set without abstaining. Code: https://github.com/aaFrostnova/CiteTracer.

Financial institutions deploy Large Language Models (LLMs) for reconciliations, regulatory reporting, and client communications, but nondeterministic outputs (output drift) undermine auditability and trust. We quantify drift across five model architectures (7B-120B parameters) on regulated financial tasks, revealing a stark inverse relationship: smaller models (Granite-3-8B, Qwen2.5-7B) achieve 100% output consistency at T=0.0, while GPT-OSS-120B exhibits only 12.5% consistency (95% CI: 3.5-36.0%) regardless of configuration (p<0.0001, Fisher's exact test). This finding challenges conventional assumptions that larger models are universally superior for production deployment. Our contributions include: (i) a finance-calibrated deterministic test harness combining greedy decoding (T=0.0), fixed seeds, and SEC 10-K structure-aware retrieval ordering; (ii) task-specific invariant checking for RAG, JSON, and SQL outputs using finance-calibrated materiality thresholds (plus or minus 5%) and SEC citation validation; (iii) a three-tier model classification system enabling risk-appropriate deployment decisions; and (iv) an audit-ready attestation system with dual-provider validation. We evaluated five models (Qwen2.5-7B via Ollama, Granite-3-8B via IBM watsonx.ai, Llama-3.3-70B, Mistral-Medium-2505, and GPT-OSS-120B) across three regulated financial tasks. Across 480 runs (n=16 per condition), structured tasks (SQL) remain stable even at T=0.2, while RAG tasks show drift (25-75%), revealing task-dependent sensitivity. Cross-provider validation confirms deterministic behavior transfers between local and cloud deployments. We map our framework to Financial Stability Board (FSB), Bank for International Settlements (BIS), and Commodity Futures Trading Commission (CFTC) requirements, demonstrating practical pathways for compliance-ready AI deployments.

Deterministic inference is a comforting ideal in classical software: the same program on the same input should always produce the same output. As large language models move into real-world deployment, this ideal has been imported wholesale into inference stacks. Recent work from the Thinking Machines Lab has presented a detailed analysis of nondeterminism in LLM inference, showing how batch-invariant kernels and deterministic attention can enforce bitwise-identical outputs, positioning deterministic inference as a prerequisite for reproducibility and enterprise reliability. In this paper, we take the opposite stance. We argue that, for LLMs, deterministic inference kills. It kills the ability to model uncertainty, suppresses emergent abilities, collapses reasoning into a single brittle path, and weakens safety alignment by hiding tail risks. LLMs implement conditional distributions over outputs, not fixed functions. Collapsing these distributions to a single canonical completion may appear reassuring, but it systematically conceals properties central to artificial cognition. We instead advocate Stochastic CHAOS, treating distributional variability as a signal to be measured and controlled. Empirically, we show that deterministic inference is systematically misleading. Single-sample deterministic evaluation underestimates both capability and fragility, masking failure probability under paraphrases and noise. Phase-like transitions associated with emergent abilities disappear under greedy decoding. Multi-path reasoning degrades when forced onto deterministic backbones, reducing accuracy and diagnostic insight. Finally, deterministic evaluation underestimates safety risk by hiding rare but dangerous behaviors that appear only under multi-sample evaluation.

LLM agents struggle with regulatory audit replay: when asked to reproduce a flagged transaction decision with identical inputs, many deployments fail to return consistent results. We introduce the Determinism-Faithfulness Assurance Harness (DFAH), a framework for measuring trajectory determinism, decision determinism, and evidence-conditioned faithfulness in tool-using agents deployed in financial services. Across 4,700+ agentic runs (7 models, 4 providers, 3 financial benchmarks with 50 cases each at T=0.0), we find that decision determinism and task accuracy are not detectably correlated (r = -0.11, 95% CI [-0.49, 0.31], p = 0.63, n = 21 configurations): models can be deterministic without being accurate, and accurate without being deterministic. Because neither metric predicts the other in our sample, both must be measured independently, which is precisely what DFAH provides. Small models (7-20B) achieve near-perfect determinism through rigid pattern matching at the cost of accuracy (20-42%), while frontier models show moderate determinism (50-96%) with variable accuracy. No model achieves both perfect determinism and high accuracy, supporting DFAH's multi-dimensional measurement approach. We provide three financial benchmarks (compliance triage, portfolio constraints, and DataOps exceptions; 50 cases each) together with an open-source stress-test harness. Across these benchmarks and DFAH evaluation settings, Tier 1 models with schema-first architectures achieved determinism levels consistent with audit replay requirements.

The adoption of Large Language Models (LLMs) in scientific writing promises efficiency but risks introducing informational entropy. While "hallucinated papers" are a known artifact, the systematic degradation of valid citation chains remains unquantified. We conducted a forensic audit of 50 recent survey papers in Artificial Intelligence (N=5,514 citations) published between September 2024 and January 2026. We utilized a hybrid verification pipeline combining DOI resolution, Crossref metadata analysis, Semantic Scholar queries, and fuzzy text matching to distinguish between formatting errors ("Sloppiness") and verifiable non-existence ("Phantoms). We detect a persistent 17.0% Phantom Rate -- citations that cannot be resolved to any digital object despite aggressive forensic recovery. Diagnostic categorization reveals three distinct failure modes: pure hallucinations (5.1%), hallucinated identifiers with valid titles (16.4%), and parsing-induced matching failures (78.5%). Longitudinal analysis reveals a flat trend (+0.07 pp/month), suggesting that high-entropy citation practices have stabilized as an endemic feature of the field. The scientific citation graph in AI survey literature exhibits "link rot" at scale. This suggests a mechanism where AI tools act as "lazy research assistants," retrieving correct titles but hallucinating metadata, thereby severing the digital chain of custody required for reproducible science.

Many modern AI question-answering systems convert text into vectors and retrieve the closest matches to a user question. While effective for topical similarity, similarity scores alone do not explain why some retrieved text can serve as evidence while other equally similar text cannot. When many candidates receive similar scores, systems may select sentences that are redundant, incomplete, or address different conditions than the question requires. This paper presents a deterministic evidence selection framework for retrieval-augmented question answering. The approach introduces Meaning-Utility Estimation (MUE) and Diversity-Utility Estimation (DUE), fixed scoring and redundancy-control procedures that determine evidence admissibility prior to answer generation. Each sentence or record is evaluated independently using explicit signals for semantic relatedness, term coverage, conceptual distinctiveness, and redundancy. No training or fine-tuning is required. In the prototype, a unit is accepted only if it explicitly states the fact, rule, or condition required by the task. Units are not merged or expanded. If no unit independently satisfies the requirement, the system returns no answer. This deterministic gating produces compact, auditable evidence sets and establishes a clear boundary between relevant text and usable evidence.

Modern AI systems rely on vector embeddings stored and searched using floating-point arithmetic. While effective for approximate similarity search, this design introduces fundamental non-determinism: identical models, inputs, and code can produce different memory states and retrieval results across hardware architectures (e.g., x86 vs. ARM). This prevents replayability and safe deployment, leading to silent data divergence that prevents post-hoc verification and compromises audit trails in regulated sectors. We present Valori, a deterministic AI memory substrate that replaces floating-point memory operations with fixed-point arithmetic (Q16.16) and models memory as a replayable state machine. Valori guarantees bit-identical memory states, snapshots, and search results across platforms. We demonstrate that non-determinism arises before indexing or retrieval and show how Valori enforces determinism at the memory boundary. Our results suggest that deterministic memory is a necessary primitive for trustworthy AI systems. The reference implementation is open-source and available at https://github.com/varshith-Git/Valori-Kernel (archived at https://zenodo.org/records/18022660).

Scientific research relies on accurate citation for attribution and integrity, yet large language models (LLMs) introduce a new risk: fabricated references that appear plausible but correspond to no real publications. Such hallucinated citations have already been observed in submissions and accepted papers at major machine learning venues, exposing vulnerabilities in peer review. Meanwhile, rapidly growing reference lists make manual verification impractical, and existing automated tools remain fragile to noisy and heterogeneous citation formats and lack standardized evaluation. We present the first comprehensive benchmark and detection framework for hallucinated citations in scientific writing. Our multi-agent verification pipeline decomposes citation checking into claim extraction, evidence retrieval, passage matching, reasoning, and calibrated judgment to assess whether a cited source truly supports its claim. We construct a large-scale human-validated dataset across domains and define unified metrics for citation faithfulness and evidence alignment. Experiments with state-of-the-art LLMs reveal substantial citation errors and show that our framework significantly outperforms prior methods in both accuracy and interpretability. This work provides the first scalable infrastructure for auditing citations in the LLM era and practical tools to improve the trustworthiness of scientific references.

In LLM inference, the same prompt may yield different outputs across different runs. At the system level, this non-determinism arises from floating-point non-associativity combined with dynamic batching and GPU kernels whose reduction orders vary with batch size. A straightforward way to eliminate non-determinism is to disable dynamic batching during inference, but doing so severely degrades throughput. Another approach is to make kernels batch-invariant; however, this tightly couples determinism to kernel design, requiring new implementations. This coupling also imposes fixed runtime overheads, regardless of how much of the workload actually requires determinism. Inspired by ideas from speculative decoding, we present LLM-42, a scheduling-based approach to enable determinism in LLM inference. Our key observation is that if a sequence is in a consistent state, the next emitted token is likely to be consistent even with dynamic batching. Moreover, most GPU kernels use shape-consistent reductions. Leveraging these insights, LLM-42 decodes tokens using a non-deterministic fast path and enforces determinism via a lightweight verify-rollback loop. The verifier replays candidate tokens under a fixed-shape reduction schedule, commits those that are guaranteed to be consistent across runs, and rolls back those violating determinism. LLM-42 mostly re-uses existing kernels unchanged and incurs overhead only in proportion to the traffic that requires determinism.

Can we learn more from data than existed in the generating process itself? Can new and useful information be constructed from merely applying deterministic transformations to existing data? Can the learnable content in data be evaluated without considering a downstream task? On these questions, Shannon information and Kolmogorov complexity come up nearly empty-handed, in part because they assume observers with unlimited computational capacity and fail to target the useful information content. In this work, we identify and exemplify three seeming paradoxes in information theory: (1) information cannot be increased by deterministic transformations; (2) information is independent of the order of data; (3) likelihood modeling is merely distribution matching. To shed light on the tension between these results and modern practice, and to quantify the value of data, we introduce epiplexity, a formalization of information capturing what computationally bounded observers can learn from data. Epiplexity captures the structural content in data while excluding time-bounded entropy, the random unpredictable content exemplified by pseudorandom number generators and chaotic dynamical systems. With these concepts, we demonstrate how information can be created with computation, how it depends on the ordering of the data, and how likelihood modeling can produce more complex programs than present in the data generating process itself. We also present practical procedures to estimate epiplexity which we show capture differences across data sources, track with downstream performance, and highlight dataset interventions that improve out-of-distribution generalization. In contrast to principles of model selection, epiplexity provides a theoretical foundation for data selection, guiding how to select, generate, or transform data for learning systems.

Retrieval-Augmented Generation equips large language models with the capability to retrieve external knowledge, thereby mitigating hallucinations by incorporating information beyond the model's intrinsic abilities. However, most prior works have focused on invoking retrieval deterministically, which makes it unsuitable for tasks such as long-form question answering. Instead, dynamically performing retrieval by invoking it only when the underlying LLM lacks the required knowledge can be more efficient. In this context, we delve deeper into the question, "To Retrieve or Not to Retrieve?" by exploring multiple uncertainty detection methods. We evaluate these methods for the task of long-form question answering, employing dynamic retrieval, and present our comparisons. Our findings suggest that uncertainty detection metrics, such as Degree Matrix Jaccard and Eccentricity, can reduce the number of retrieval calls by almost half, with only a slight reduction in question-answering accuracy.

Academic citations are widely used for evaluating research and tracing knowledge flows. Such uses typically rely on raw citation counts and neglect variability in citation types. In particular, citations can vary in their fidelity as original knowledge from cited studies may be paraphrased, summarized, or reinterpreted, possibly wrongly, leading to variation in how much information changes from cited to citing paper. In this study, we introduce a computational pipeline to quantify citation fidelity at scale. Using full texts of papers, the pipeline identifies citations in citing papers and the corresponding claims in cited papers, and applies supervised models to measure fidelity at the sentence level. Analyzing a large-scale multi-disciplinary dataset of approximately 13 million citation sentence pairs, we find that citation fidelity is higher when authors cite papers that are 1) more recent and intellectually close, 2) more accessible, and 3) the first author has a lower H-index and the author team is medium-sized. Using a quasi-experiment, we establish the "telephone effect" - when citing papers have low fidelity to the original claim, future papers that cite the citing paper and the original have lower fidelity to the original. Our work reveals systematic differences in citation fidelity, underscoring the limitations of analyses that rely on citation quantity alone and the potential for distortion of evidence.

The scholarly publishing ecosystem faces a dual crisis of unmanageable submission volumes and unregulated AI, creating an urgent need for new governance models to safeguard scientific integrity. The traditional human-only peer review regime lacks a scalable, objective benchmark, making editorial processes opaque and difficult to audit. Here we investigate a deterministic simulation framework that provides the first stable, evidence-based standard for evaluating AI-generated peer review reports. Analyzing 352 peer-review simulation reports, we identify consistent system state indicators that demonstrate its reliability. First, the system is able to simulate calibrated editorial judgment, with 'Revise' decisions consistently forming the majority outcome (>50%) across all disciplines, while 'Reject' rates dynamically adapt to field-specific norms, rising to 45% in Health Sciences. Second, it maintains unwavering procedural integrity, enforcing a stable 29% evidence-anchoring compliance rate that remains invariant across diverse review tasks and scientific domains. These findings demonstrate a system that is predictably rule-bound, mitigating the stochasticity of generative AI. For the scientific community, this provides a transparent tool to ensure fairness; for publishing strategists, it offers a scalable instrument for auditing workflows, managing integrity risks, and implementing evidence-based governance. The framework repositions AI as an essential component of institutional accountability, providing the critical infrastructure to maintain trust in scholarly communication.

The Korean criminal justice system utilizes summary proceedings (guyaksik) to expedite high-volume minor infractions, such as simple driving under the influence (DUI), unlicensed driving, and minor traffic casualties. Although this mechanism improves judicial throughput, processing these cases creates a substantial administrative burden for prosecutors, driving the need for automated systems that can precisely translate unstructured legal text into deterministic statutory outcomes. While recent Large Language Models (LLMs) excel at semantic extraction, their probabilistic nature inherently limits their reliability in Legal Judgment Prediction tasks. Specifically, when confronted with the arithmetic constraints of legal statutes, LLMs can produce hallucinations. Given that legal accountability permits virtually no tolerance for stochastic errors, purely neural architectures remain limited in their direct judicial applications. To address these limitations, we propose a Neuro-Symbolic framework that bridges unstructured legal facts with formal verification. Our architecture restricts the LLM exclusively to semantic extraction, while offloading statutory fine calculations to a Satisfiability Modulo Theories solver. This division of labor reduces hallucination risks during computation. Furthermore, we incorporate a Human-in-the-Loop verification scheme to preserve professional legal oversight. We formalize the 2026 Sentencing Guidelines for Traffic Offenses within this pipeline, demonstrating a deterministic approach to supporting summary indictments.

Where an LLM sits in an agent memory pipeline -- between the recall plane that retrieves stored facts (extensively benchmarked) and the control plane that mutates them via supersede, release, purge (largely untested) -- shapes which forgetting failure modes the system recovers. Comparing thirteen system configurations on a 385-case adversarial surface, we observe three placement regimes with partly complementary coverage: deterministic primitives suffice for lexical/temporal categories but fail canonicalization (5% on identifier-obfuscation, 0% on cross-lingual); inscribe-time LLM recovers canonicalization (100%) but cannot help intent-aware deletion (0% on prefix-collision and compound-fact); a mutation-time hook recovers intent-aware deletion (78-85%) and brightens nearly all categories simultaneously (91.7-93.2% overall, $0.17 per 385-case run, 2.3s/case mutation latency vs. 64-191ms/case deterministic, recall path unchanged). We expose the trade-off via ForgetEval, a 1000-case templated suite plus a 385-case adversarial layer (132 hand-crafted + 253 LLM-drafted oracle-validated) scored by deterministic substring match, paired with a six-method Adapter Protocol with honest N/A scoring that lets heterogeneous memory stores enter in 130 lines. Admission is corroborated by 10-annotator IAA (Fleiss' kappa = 0.958) and a 77-case external-authored subset (four blind contributors) that replicates the canonicalization asymmetry and amplifies the joint-placement lift (+27.8 pt). Production failures are predominantly forgetting failures rather than recall failures, yet existing benchmarks measure only recall. ForgetEval and all adapters are released under MIT.

Co-citation structure is widely assumed to provide stable retrieval signal in legal information systems. We test this assumption longitudinally by constructing UA-StatuteRetrieval, a benchmark that measures co-citation predictability across 20 annual snapshots (2007-2026) of 396 million codex citations from 101 million Ukrainian court decisions. Using a leave-one-out protocol over the full bipartite citation graph, we find that Adamic-Adar MRR declines 33% on a fixed set of articles (from 0.43 to 0.29) and 47% under a train/test temporal split (from 0.51 to 0.27) confirming genuine temporal decay rather than compositional shift or evaluation artifact. The decay is non-uniform: criminal procedure maintains stable co-citation patterns (MRR ~0.40), while civil law degrades from 0.35 to 0.15, coinciding with the 2017 judicial reform. Hub articles (>100K citations) resist decay, but mid-frequency articles (1K-10K) -- the practical retrieval frontier lose half their predictability. A BM25 text baseline decays even faster (31%), and embedding drift analysis with E5-large reveals a 4.3% semantic shift in how articles are cited, providing a mechanistic explanation for the observed decay. The benchmark is released at https://huggingface.co/datasets/overthelex/ua-statute-retrieval.

As the open-weight AI landscape continues to proliferate-with model development, significant investment, and user interest-it becomes increasingly important to predict which models will ultimately drive innovation and shape AI ecosystems. Building on parallels with citation dynamics in scientific literature, we propose a framework to quantify how an open-weight model's influence evolves. Specifically, we adapt the model introduced by Wang et al. for scientific citations, using three key parameters-immediacy, longevity, and relative fitness-to track the cumulative number of fine-tuned models of an open-weight model. Our findings reveal that this citation-style approach can effectively capture the diverse trajectories of open-weight model adoption, with most models fitting well and outliers indicating unique patterns or abrupt jumps in usage.

Citations are essential building blocks in scientific writing. The scientific community is longing for support in their generation. Citation generation involves two complementary subtasks: Determining the citation worthiness of a context and, if it's worth it, proposing the best candidate papers for the citation placeholder. The latter subtask is called local citation recommendation (LCR). This paper proposes CiteBART, a custom BART pre-training based on citation token masking to generate citations to achieve LCR. In the base scheme, we mask the citation token in the local citation context to make the citation prediction. In the global one, we concatenate the citing paper's title and abstract to the local citation context to learn to reconstruct the citation token. CiteBART outperforms state-of-the-art approaches on the citation recommendation benchmarks except for the smallest FullTextPeerRead dataset. The effect is significant in the larger benchmarks, e.g., Refseer and ArXiv. We present a qualitative analysis and an ablation study to provide insights into the workings of CiteBART. Our analyses confirm that its generative nature brings about a zero-shot capability.

Randomized controlled trials are susceptible to imbalance on covariates predictive of the outcome. Rerandomization and deterministic treatment assignment are two proposed solutions. This paper explores the relationship between rerandomization and deterministic assignment, showing how deterministic assignment is an extreme case of rerandomization. The paper argues that in small experiments, both fully randomized and fully deterministic assignment have limitations. Instead, the researcher should consider setting the rerandomization acceptance probability based on an analysis of covariates and assumptions about the data structure to achieve an optimal alignment between randomness and balance. This allows for the calculation of minimum p-values along with valid permutation tests and fiducial intervals. The paper also introduces tools, including a new, open-source R package named fastrerandomize, to implement rerandomization and explore options for optimal rerandomization acceptance thresholds.

Citations are the bedrock of scientific authority, yet their integrity is compromised by widespread miscitations: ranging from nuanced distortions to fabricated references. Systematic citation verification is currently unfeasible; manual review cannot scale to modern publishing volumes, while existing automated tools are restricted by abstract-only analysis or small-scale, domain-specific datasets in part due to the "paywall barrier" of full-text access. We introduce BibAgent, a scalable, end-to-end agentic framework for automated citation verification. BibAgent integrates retrieval, reasoning, and adaptive evidence aggregation, applying distinct strategies for accessible and paywalled sources. For paywalled references, it leverages a novel Evidence Committee mechanism that infers citation validity via downstream citation consensus. To support systematic evaluation, we contribute a 5-category Miscitation Taxonomy and MisciteBench, a massive cross-disciplinary benchmark comprising 6,350 miscitation samples spanning 254 fields. Our results demonstrate that BibAgent outperforms state-of-the-art Large Language Model (LLM) baselines in citation verification accuracy and interpretability, providing scalable, transparent detection of citation misalignments across the scientific literature.

With the rapid growth of Web-based academic publications, more and more papers are being published annually, making it increasingly difficult to find relevant prior work. Citation prediction aims to automatically suggest appropriate references, helping scholars navigate the expanding scientific literature. Here we present CiteRAG, the first comprehensive retrieval-augmented generation (RAG)-integrated benchmark for evaluating large language models on academic citation prediction, featuring a multi-level retrieval strategy, specialized retrievers, and generators. Our benchmark makes four core contributions: (1) We establish two instances of the citation prediction task with different granularity. Task 1 focuses on coarse-grained list-specific citation prediction, while Task 2 targets fine-grained position-specific citation prediction. To enhance these two tasks, we build a dataset containing 7,267 instances for Task 1 and 8,541 instances for Task 2, enabling comprehensive evaluation of both retrieval and generation. (2) We construct a three-level large-scale corpus with 554k papers spanning many major subfields, using an incremental pipeline. (3) We propose a multi-level hybrid RAG approach for citation prediction, fine-tuning embedding models with contrastive learning to capture complex citation relationships, paired with specialized generation models. (4) We conduct extensive experiments across state-of-the-art language models, including closed-source APIs, open-source models, and our fine-tuned generators, demonstrating the effectiveness of our framework. Our open-source toolkit enables reproducible evaluation and focuses on academic literature, providing the first comprehensive evaluation framework for citation prediction and serving as a methodological template for other scientific domains. Our source code and data are released at https://github.com/LQgdwind/CiteRAG.

We introduce the concept of the self-referencing causal cycle (abbreviated RECALL) - a mechanism that enables large language models (LLMs) to bypass the limitations of unidirectional causality, which underlies a phenomenon known as the reversal curse. When an LLM is prompted with sequential data, it often fails to recall preceding context. For example, when we ask an LLM to recall the line preceding "O say does that star-spangled banner yet wave" in the U.S. National Anthem, it often fails to correctly return "Gave proof through the night that our flag was still there" - this is due to the reversal curse. It occurs because language models such as ChatGPT and Llama generate text based on preceding tokens, requiring facts to be learned and reproduced in a consistent token order. While the reversal curse is often viewed as a limitation, we offer evidence of an alternative view: it is not always an obstacle in practice. We find that RECALL is driven by what we designate as cycle tokens - sequences that connect different parts of the training data, enabling recall of preceding tokens from succeeding ones. Through rigorous probabilistic formalization and controlled experiments, we demonstrate how the cycles they induce influence a model's ability to reproduce information. To facilitate reproducibility, we provide our code and experimental details at https://anonymous.4open.science/r/remember-B0B8/.

Predicting highly-cited papers is a long-standing challenge due to the complex interactions of research content, scholarly communities, and temporal dynamics. Recent advances in large language models (LLMs) raise the question of whether early-stage textual information can provide useful signals of long-term scientific impact. Focusing on statistical publications, we propose a flexible, text-centered framework that leverages LLMs and structured prompt design to predict highly cited papers. Specifically, we utilize information available at the time of publication, including titles, abstracts, keywords, and limited bibliographic metadata. Using a large corpus of statistical papers, we evaluate predictive performance across multiple publication periods and alternative definitions of highly cited papers. The proposed approach achieves stable and competitive performance relative to existing methods and demonstrates strong generalization over time. Textual analysis further reveals that papers predicted as highly cited concentrate on recurring topics such as causal inference and deep learning. To facilitate practical use of the proposed approach, we further develop a WeChat mini program, Stat Highly Cited Papers, which provides an accessible interface for early-stage citation impact assessment. Overall, our results provide empirical evidence that LLMs can capture meaningful early signals of long-term citation impact, while also highlighting their limitations as tools for research impact assessment.

Trustworthy Large Language Models (LLMs) must cite human-verifiable sources in high-stakes domains such as healthcare, law, academia, and finance, where even small errors can have severe consequences. Practitioners and researchers face a choice: let models generate citations during decoding, or let models draft answers first and then attach appropriate citations. To clarify this choice, we introduce two paradigms: Generation-Time Citation (G-Cite), which produces the answer and citations in one pass, and Post-hoc Citation (P-Cite), which adds or verifies citations after drafting. We conduct a comprehensive evaluation from zero-shot to advanced retrieval-augmented methods across four popular attribution datasets and provide evidence-based recommendations that weigh trade-offs across use cases. Our results show a consistent trade-off between coverage and citation correctness, with retrieval as the main driver of attribution quality in both paradigms. P-Cite methods achieve high coverage with competitive correctness and moderate latency, whereas G-Cite methods prioritize precision at the cost of coverage and speed. We recommend a retrieval-centric, P-Cite-first approach for high-stakes applications, reserving G-Cite for precision-critical settings such as strict claim verification. Our codes and human evaluation results are available at https://anonymous.4open.science/r/Citation_Paradigms-BBB5/

Tool-using LLM agents can violate the very policies they are deployed to enforce while appearing to complete the task successfully. In policy-permissive environments, a tool may execute any well-formed call even when the corresponding state transition is forbidden by domain policy. The result is a silent wrong state (a booking cancelled, a passenger count changed, a claim acted on without verification) that neither the tool nor the agent's self-report exposes. We study this failure mode in the τ^2-bench airline domain. On a budget agent, 78% of observed failures are silent wrong-state failures with no tool error, and the aggregate failure rate is reproducible across disjoint seeds, not sampling noise. We then evaluate a lightweight intervention: deterministic, read-only pre-execution gates that inspect the proposed call and current state before allowing a write. A four-gate suite raises full-benchmark success from 29.6% to 42.0% on gpt-4o-mini (+12.4pp; paired task-level bootstrap P=0.0012), and the lift reproduces on a disjoint 15-seed set (+12.3pp; P=0.0008). The effect is concentrated where the gates fire: on the 26/50 firing tasks, success rises by +19.2pp, while movement on the 24 non-firing tasks does not exclude zero. Two negative controls (a self-enforcing retail domain and BFCL) bound the mechanism: gates help when tools are policy-permissive and add little where tools already self-enforce. As suggestive evidence, not a central claim, the same failure mode persists at the frontier: gpt-5.2 at default reasoning still attempts policy-violating writes, and the same suite improves success from 61.2% to 71.6% (+10.4pp; P=0.020; n=5, no replication). The contribution is a bounded evaluation and reliability result: deterministic gates do not guarantee task success, but they can deterministically prevent a known class of silent policy-violating writes at the action boundary.

Quantifying similarity between neural representations -- e.g. hidden layer activation vectors -- is a perennial problem in deep learning and neuroscience research. Existing methods compare deterministic responses (e.g. artificial networks that lack stochastic layers) or averaged responses (e.g., trial-averaged firing rates in biological data). However, these measures of _deterministic_ representational similarity ignore the scale and geometric structure of noise, both of which play important roles in neural computation. To rectify this, we generalize previously proposed shape metrics (Williams et al. 2021) to quantify differences in _stochastic_ representations. These new distances satisfy the triangle inequality, and thus can be used as a rigorous basis for many supervised and unsupervised analyses. Leveraging this novel framework, we find that the stochastic geometries of neurobiological representations of oriented visual gratings and naturalistic scenes respectively resemble untrained and trained deep network representations. Further, we are able to more accurately predict certain network attributes (e.g. training hyperparameters) from its position in stochastic (versus deterministic) shape space.

In recent years, the non-deterministic properties of language models have garnered considerable attention and have shown a significant influence on real-world applications. However, such properties remain under-explored in machine translation (MT), a complex, non-deterministic NLP task. In this study, we systematically evaluate modern MT systems and identify temperature-constrained Non-Deterministic MT (ND-MT) as a distinct phenomenon. Additionally, we demonstrate that ND-MT exhibits significant potential in addressing the multi-modality issue that has long challenged MT research and provides higher-quality candidates than Deterministic MT (D-MT) under temperature constraints. However, ND-MT introduces new challenges in evaluating system performance. Specifically, the evaluation framework designed for D-MT fails to yield consistent evaluation results when applied to ND-MT. We further investigate this emerging challenge by evaluating five state-of-the-art ND-MT systems across three open datasets using both lexical-based and semantic-based metrics at varying sampling sizes. The results reveal a Buckets effect across these systems: the lowest-quality candidate generated by ND-MT consistently determines the overall system ranking across different sampling sizes for all reasonable metrics. Furthermore, we propose the ExpectoSample strategy to automatically assess the reliability of evaluation metrics for selecting robust ND-MT.

While hallucinations of large language models could been alleviated through retrieval-augmented generation and citation generation, how the model utilizes internal knowledge is still opaque, and the trustworthiness of its generated answers remains questionable. In this work, we introduce Context-Prior Augmented Citation Generation task, requiring models to generate citations considering both external and internal knowledge while providing trustworthy references, with 5 evaluation metrics focusing on 3 aspects: answer helpfulness, citation faithfulness, and trustworthiness. We introduce RAEL, the paradigm for our task, and also design INTRALIGN, an integrated method containing customary data generation and an alignment algorithm. Our experimental results show that our method achieves a better cross-scenario performance with regard to other baselines. Our extended experiments further reveal that retrieval quality, question types, and model knowledge have considerable influence on the trustworthiness in citation generation.

How should future neural reasoning systems implement extended computation? Recursive Reasoning Models (RRMs) offer a promising alternative to autoregressive sequence extension by performing iterative latent-state refinement with shared transition functions. Yet existing RRMs are largely deterministic, following a single latent trajectory and converging to a single prediction. We introduce Generative Recursive reAsoning Models (GRAM), a framework that turns recursive latent reasoning into probabilistic multi-trajectory computation. GRAM models reasoning as a stochastic latent trajectory, enabling multiple hypotheses, alternative solution strategies, and inference-time scaling through both recursive depth and parallel trajectory sampling. This yields a latent-variable generative model supporting conditional reasoning via p_θ(y mid x) and, with fixed or absent inputs, unconditional generation via p_θ(x). Trained with amortized variational inference, GRAM improves over deterministic recurrent and recursive baselines on structured reasoning and multi-solution constraint satisfaction tasks, while demonstrating an unconditional generation capability. https://ahn-ml.github.io/gram-website

We introduce Minary, a computational framework designed as a candidate for the first formally provable autopoietic primitive. Minary represents interacting probabilistic events as multi-dimensional vectors and combines them via linear superposition rather than multiplicative scalar operations, thereby preserving uncertainty and enabling constructive and destructive interference in the range [-1,1]. A fixed set of ``perspectives'' evaluates ``semantic dimensions'' according to hidden competencies, and their interactions drive two discrete-time stochastic processes. We model this system as an iterated random affine map and use the theory of iterated random functions to prove that it converges in distribution to a unique stationary law; we moreover obtain an explicit closed form for the limiting expectation in terms of row, column, and global averages of the competency matrix. We then derive exact formulas for the mean and variance of the normalized consensus conditioned on the activation of a given semantic dimension, revealing how consensus depends on competency structure rather than raw input signals. Finally, we argue that Minary is organizationally closed yet operationally open in the sense of Maturana and Varela, and we discuss implications for building self-maintaining, distributed, and parallelizable computational systems that house a uniquely subjective notion of identity.

This paper is an extended and reworked version of a short course given by the author at ''Uzbekistan-Ukrainian readings in stochastic processes'', Tashkent-Kyiv, 2022, and was prepared for a special issue of ''Theory of stochastic processes'', devoted to publishing lecture notes from the aforementioned workshop. The survey is devoted to operator splitting methods in the abstract formulation and their applications in probability. While the survey is focused on multiplicative methods, the BCH formula is used to discuss exponential splitting methods and a short informal introduction to additive splitting is presented. We introduce frameworks and available deterministic and probabilistic results and concentrate on constructing a wide picture of the field of operator splitting methods, providing a rigorous description in the setting of abstract Cauchy problems and an informal discussion for further and parallel advances. Some limitations and common difficulties are listed, as well as examples of works that provide solutions or hints. No new results are given. The bibliography contains illustrative deterministic examples and a selection of probability-related works.

We derive a minimalist but powerful deterministic denoising-diffusion model. While denoising diffusion has shown great success in many domains, its underlying theory remains largely inaccessible to non-expert users. Indeed, an understanding of graduate-level concepts such as Langevin dynamics or score matching appears to be required to grasp how it works. We propose an alternative approach that requires no more than undergrad calculus and probability. We consider two densities and observe what happens when random samples from these densities are blended (linearly interpolated). We show that iteratively blending and deblending samples produces random paths between the two densities that converge toward a deterministic mapping. This mapping can be evaluated with a neural network trained to deblend samples. We obtain a model that behaves like deterministic denoising diffusion: it iteratively maps samples from one density (e.g., Gaussian noise) to another (e.g., cat images). However, compared to the state-of-the-art alternative, our model is simpler to derive, simpler to implement, more numerically stable, achieves higher quality results in our experiments, and has interesting connections to computer graphics.

Half a billion citation edges extracted from 100.7 million Ukrainian court decisions reveal that judicial citation structure encodes legal domain boundaries without supervision and predicts future legislative importance with near-perfect accuracy. We construct the first large-scale citation graph from the complete EDRSR registry (99.5 million full texts, 1.1 TB), extracting 502 million citation links across six types via regex on commodity hardware in approximately 5 hours, with precision of 1.00 on a 200-decision validation sample (95% Wilson CI: [0.982, 1.000]). Three principal findings emerge. (1) The degree distribution follows a power law (alpha = 1.57 +/- 0.008), placing the Ukrainian court network near the EU Court of Justice and below the US Supreme Court, with hub articles cited by millions of decisions. (2) Louvain community detection on the co-citation projection recovers legal domain boundaries (civil, criminal, administrative, commercial) with modularity Q = 0.44-0.55 and temporal stability (NMI = 0.83-0.86 across periods), constituting an automatically constructed legal ontology grounded in judicial practice. (3) Citation features predict top-1000 articles with AUC = 0.9984, substantially outperforming a naive frequency baseline (P@1000 = 0.655); temporal dynamics detect legislative regime changes as phase transitions and the 2022 invasion as a citation entropy spike (H: 11.02 -> 13.49) with emergent wartime legislation nodes. The citation-derived ontology is operationalized as the domain layer of a workflow memory system for LLM-assisted legal analysis, connecting to the ontology-controlled paradigm. The extraction pipeline, analysis code, and aggregated statistics are released as open data.

Long-context models (LCMs) have made remarkable strides in recent years, offering users great convenience for handling tasks that involve long context, such as document summarization. As the community increasingly prioritizes the faithfulness of generated results, merely ensuring the accuracy of LCM outputs is insufficient, as it is quite challenging for humans to verify the results from the extremely lengthy context. Yet, although some efforts have been made to assess whether LCMs respond truly based on the context, these works either are limited to specific tasks or heavily rely on external evaluation resources like GPT-4.In this work, we introduce L-CiteEval, a comprehensive multi-task benchmark for long-context understanding with citations, aiming to evaluate both the understanding capability and faithfulness of LCMs. L-CiteEval covers 11 tasks from diverse domains, spanning context lengths from 8K to 48K, and provides a fully automated evaluation suite. Through testing with 11 cutting-edge closed-source and open-source LCMs, we find that although these models show minor differences in their generated results, open-source models substantially trail behind their closed-source counterparts in terms of citation accuracy and recall. This suggests that current open-source LCMs are prone to responding based on their inherent knowledge rather than the given context, posing a significant risk to the user experience in practical applications. We also evaluate the RAG approach and observe that RAG can significantly improve the faithfulness of LCMs, albeit with a slight decrease in the generation quality. Furthermore, we discover a correlation between the attention mechanisms of LCMs and the citation generation process.

Event Causality Identification (ECI) aims at determining whether there is a causal relation between two event mentions. Conventional prompt learning designs a prompt template to first predict an answer word and then maps it to the final decision. Unlike conventional prompts, we argue that predicting an answer word may not be a necessary prerequisite for the ECI task. Instead, we can first make a deterministic assumption on the existence of causal relation between two events and then evaluate its rationality to either accept or reject the assumption. The design motivation is to try the most utilization of the encyclopedia-like knowledge embedded in a pre-trained language model. In light of such considerations, we propose a deterministic assumption prompt learning model, called DAPrompt, for the ECI task. In particular, we design a simple deterministic assumption template concatenating with the input event pair, which includes two masks as predicted events' tokens. We use the probabilities of predicted events to evaluate the assumption rationality for the final event causality decision. Experiments on the EventStoryLine corpus and Causal-TimeBank corpus validate our design objective in terms of significant performance improvements over the state-of-the-art algorithms.

Large language models (LLMs) have demonstrated significant utility in real-world applications, exhibiting impressive capabilities in natural language processing and understanding. Benchmark evaluations are crucial for assessing the capabilities of LLMs as they can provide a comprehensive assessment of their strengths and weaknesses. However, current evaluation methods often overlook the inherent randomness of LLMs by employing deterministic generation strategies or relying on a single random sample, resulting in unaccounted sampling variance and unreliable benchmark score estimates. In this paper, we propose a hierarchical statistical model that provides a more comprehensive representation of the benchmarking process by incorporating both benchmark characteristics and LLM randomness. We show that leveraging multiple generations improves the accuracy of estimating the benchmark score and reduces variance. Multiple generations also allow us to define mathbb Pleft(correctright), a prompt-level difficulty score based on correct ratios, providing fine-grained insights into individual prompts. Additionally, we create a data map that visualizes difficulty and semantics of prompts, enabling error detection and quality control in benchmark construction.

Large Language Models (LLMs) have emerged as promising assistants for scientific writing. However, there have been concerns regarding the quality and reliability of the generated text, one of which is the citation accuracy and faithfulness. While most recent work relies on methods such as LLM-as-a-Judge, the reliability of LLM-as-a-Judge alone is also in doubt. In this work, we reframe citation evaluation as a problem of citation attribution alignment, which is assessing whether LLM-generated citations match those a human author would include for the same text. We propose CiteGuard, a retrieval-aware agent framework designed to provide more faithful grounding for citation validation. CiteGuard improves the prior baseline by 12.3%, and achieves up to 65.4% accuracy on the CiteME benchmark, on par with human-level performance (69.7%). It also enables the identification of alternative but valid citations.

Effective scientific communication depends on accurate citations that validate sources and guide readers to supporting evidence. Yet academic literature faces mounting challenges: semantic citation errors that misrepresent sources, AI-generated hallucinated references, and traditional citation formats that point to entire papers without indicating which sections substantiate specific claims. We introduce SemanticCite, an AI-powered system that verifies citation accuracy through full-text source analysis while providing rich contextual information via detailed reasoning and relevant text snippets. Our approach combines multiple retrieval methods with a four-class classification system (Supported, Partially Supported, Unsupported, Uncertain) that captures nuanced claim-source relationships and enables appropriate remedial actions for different error types. Our experiments show that fine-tuned lightweight language models achieve performance comparable to large commercial systems with significantly lower computational requirements, making large-scale citation verification practically feasible. The system provides transparent, evidence-based explanations that support user understanding and trust. We contribute a comprehensive dataset of over 1,000 citations with detailed alignments, functional classifications, semantic annotations, and bibliometric metadata across eight disciplines, alongside fine-tuned models and the complete verification framework as open-source software. SemanticCite addresses critical challenges in research integrity through scalable citation verification, streamlined peer review, and quality control for AI-generated content, providing an open-source foundation for maintaining citation accuracy at scale.

Markov categories are a novel framework to describe and treat problems in probability and information theory. In this work we combine the categorical formalism with the traditional quantitative notions of entropy, mutual information, and data processing inequalities. We show that several quantitative aspects of information theory can be captured by an enriched version of Markov categories, where the spaces of morphisms are equipped with a divergence or even a metric. As it is customary in information theory, mutual information can be defined as a measure of how far a joint source is from displaying independence of its components. More strikingly, Markov categories give a notion of determinism for sources and channels, and we can define entropy exactly by measuring how far a source or channel is from being deterministic. This recovers Shannon and R\'enyi entropies, as well as the Gini-Simpson index used in ecology to quantify diversity, and it can be used to give a conceptual definition of generalized entropy.

Enabling Large Language Models (LLMs) to generate citations in Question-Answering (QA) tasks is an emerging paradigm aimed at enhancing the verifiability of their responses when LLMs are utilizing external references to generate an answer. However, there is currently no unified framework to standardize and fairly compare different citation generation methods, leading to difficulties in reproducing different methods and a comprehensive assessment. To cope with the problems above, we introduce \name, an open-source and modular toolkit designed to facilitate the implementation and evaluation of existing citation generation methods, while also fostering the development of new approaches to improve citation quality in LLM outputs. This tool is highly extensible, allowing users to utilize 4 main modules and 14 components to construct a pipeline, evaluating an existing method or innovative designs. Our experiments with two state-of-the-art LLMs and 11 citation generation baselines demonstrate varying strengths of different modules in answer accuracy and citation quality improvement, as well as the challenge of enhancing granularity. Based on our analysis of the effectiveness of components, we propose a new method, self-RAG \snippet, obtaining a balanced answer accuracy and citation quality. Citekit is released at https://github.com/SjJ1017/Citekit.

We develop a framework for non-asymptotic analysis of deterministic samplers used for diffusion generative modeling. Several recent works have analyzed stochastic samplers using tools like Girsanov's theorem and a chain rule variant of the interpolation argument. Unfortunately, these techniques give vacuous bounds when applied to deterministic samplers. We give a new operational interpretation for deterministic sampling by showing that one step along the probability flow ODE can be expressed as two steps: 1) a restoration step that runs gradient ascent on the conditional log-likelihood at some infinitesimally previous time, and 2) a degradation step that runs the forward process using noise pointing back towards the current iterate. This perspective allows us to extend denoising diffusion implicit models to general, non-linear forward processes. We then develop the first polynomial convergence bounds for these samplers under mild conditions on the data distribution.

Thousands of new scientific papers are published each month. Such information overload complicates researcher efforts to stay current with the state-of-the-art as well as to verify and correctly attribute claims. We pose the following research question: Given a text excerpt referencing a paper, could an LM act as a research assistant to correctly identify the referenced paper? We advance efforts to answer this question by building a benchmark that evaluates the abilities of LMs in citation attribution. Our benchmark, CiteME, consists of text excerpts from recent machine learning papers, each referencing a single other paper. CiteME use reveals a large gap between frontier LMs and human performance, with LMs achieving only 4.2-18.5% accuracy and humans 69.7%. We close this gap by introducing CiteAgent, an autonomous system built on the GPT-4o LM that can also search and read papers, which achieves an accuracy of 35.3\% on CiteME. Overall, CiteME serves as a challenging testbed for open-ended claim attribution, driving the research community towards a future where any claim made by an LM can be automatically verified and discarded if found to be incorrect.

We study the behavior of deterministic methods for solving inverse problems in imaging. These methods are commonly designed to achieve two goals: (1) attaining high perceptual quality, and (2) generating reconstructions that are consistent with the measurements. We provide a rigorous proof that the better a predictor satisfies these two requirements, the larger its Lipschitz constant must be, regardless of the nature of the degradation involved. In particular, to approach perfect perceptual quality and perfect consistency, the Lipschitz constant of the model must grow to infinity. This implies that such methods are necessarily more susceptible to adversarial attacks. We demonstrate our theory on single image super-resolution algorithms, addressing both noisy and noiseless settings. We also show how this undesired behavior can be leveraged to explore the posterior distribution, thereby allowing the deterministic model to imitate stochastic methods.

LLM agents that operate over long context depend on external memory to accumulate knowledge over time. However, existing methods typically store each observation as a single deterministic conclusion (e.g., inferring "API~X failed" from temporary errors), even though such observations are inherently partial and potentially ambiguous. By committing to one conclusion and discarding uncertainty, these methods introduce self-reinforcing error: the agent acts on the stored conclusion, never revisits alternatives, and reinforces the conclusion over time. To address this issue, we propose BeliefMem, which shifts the memory paradigm from committing to a single conclusion per observation to retaining multiple candidate conclusions with their probabilities. Concretely, BeliefMem stores the candidate conclusions as separate memory entries, each carrying a probability that is updated via Noisy-OR rules as new observations arrive. At retrieval, all candidates surface together with their probabilities, keeping alternatives visible to the agent. Since each conclusion in memory retains its probability, BeliefMem preserves the uncertainty that the deterministic paradigm discards, enabling the agent to act with high confidence on well-evidenced knowledge while retaining the capacity to update its confidence when new evidence arrives. Empirical evaluations on LoCoMo and ALFWorld benchmarks show that, even with limited data, BeliefMem achieves the best average performance, remarkably outperforming well-known baselines. More broadly, such probabilistic memory produces substantial gains and explores a new direction for agent memory in partially observable environments.

Most agent frameworks are built around the language model: a conversation loop comes first, then tools, then rules, and finally a logging layer bolted on for observability, with state persisted as retrievable "memory." We describe ActiveGraph, a runtime that inverts this arrangement. The append-only event log is the source of truth; the working graph is a deterministic projection of that log; and behaviors--ordinary functions, classes, LLM-backed routines, or logic attached to typed edges--react to changes in the graph and emit new events. No component instructs another; coordination happens entirely through the shared graph. This single design decision yields three properties that retrieval-and-summarization memory systems do not provide: deterministic replay of any run from its log, cheap forking that branches a run at any event without re-executing the shared prefix, and end-to-end lineage from a high-level goal down to the individual model call that produced each artifact. We present the architecture, a determinism contract that makes replay sound, and a worked diligence example whose full causal structure is reconstructable from the log alone. We discuss--without claiming to demonstrate--why this substrate is unusually well suited to self-improving agents, and how it extends the BabyAGI lineage and prior graph-memory research.

Legal reasoning is not semantic similarity search. A court judgment encodes constrained symbolic reasoning: precedent propagation, procedural state transitions, and statute-bound inference. These are properties that vector-based retrieval-augmented generation (RAG) cannot faithfully represent. Hallucinated precedents, outdated statute citations, and unsupported reasoning chains remain persistent failure modes in LLM-based legal AI, with real consequences for access to justice in high-caseload jurisdictions such as India. This paper presents Falkor-IRAC, a graph-constrained generation framework for Indian legal AI that grounds generation in structured reasoning over an IRAC (Issue, Rule, Analysis, Conclusion) knowledge graph. Judgments from the Supreme Court and High Courts of India are ingested as IRAC node structures enriched with procedural state transitions, precedent relationships, and statutory references, stored in FalkorDB for low-latency agentic traversal. At inference time, LLM-generated answers are accepted only if a valid supporting path can be traced through the graph, a check performed by a falsifiability oracle called the Verifier Agent. The system also detects doctrinal conflicts as a first-class output rather than silently resolving them. Falkor-IRAC is evaluated using graph-native metrics: citation grounding accuracy, path validity rate, hallucinated precedent rate, and conflict detection rate. These metrics are argued to be more appropriate for legal reasoning evaluation than BLEU and ROUGE. On a proof-of-concept corpus of 51 Supreme Court judgments, the Verifier Agent correctly validated citations on completed queries and correctly rejected fabricated citations. Evaluation against vector-only RAG baselines is left for future work, as is GPU-accelerated inference to address current timeout rates on CPU hardware.

Large Language Models (LLMs) are accelerating scientific idea generation, but rigorously evaluating these numerous, often superficial, AI-generated propositions for novelty and factual accuracy is a critical bottleneck; manual verification is too slow. Existing validation methods are inadequate: LLMs as standalone verifiers may hallucinate and lack domain knowledge (our findings show 60% unawareness of relevant papers in specific domains), while traditional citation networks lack explicit causality and narrative surveys are unstructured. This underscores a core challenge: the absence of structured, verifiable, and causally-linked historical data of scientific evolution.To address this,we introduce THE-Tree (Technology History Evolution Tree), a computational framework that constructs such domain-specific evolution trees from scientific literature. THE-Tree employs a search algorithm to explore evolutionary paths. During its node expansion, it utilizes a novel "Think-Verbalize-Cite-Verify" process: an LLM proposes potential advancements and cites supporting literature. Critically, each proposed evolutionary link is then validated for logical coherence and evidential support by a recovered natural language inference mechanism that interrogates the cited literature, ensuring that each step is grounded. We construct and validate 88 THE-Trees across diverse domains and release a benchmark dataset including up to 71k fact verifications covering 27k papers to foster further research. Experiments demonstrate that i) in graph completion, our THE-Tree improves hit@1 by 8% to 14% across multiple models compared to traditional citation networks; ii) for predicting future scientific developments, it improves hit@1 metric by nearly 10%; and iii) when combined with other methods, it boosts the performance of evaluating important scientific papers by almost 100%.

Previous studies have found that PLM-based retrieval models exhibit a preference for LLM-generated content, assigning higher relevance scores to these documents even when their semantic quality is comparable to human-written ones. This phenomenon, known as source bias, threatens the sustainable development of the information access ecosystem. However, the underlying causes of source bias remain unexplored. In this paper, we explain the process of information retrieval with a causal graph and discover that PLM-based retrievers learn perplexity features for relevance estimation, causing source bias by ranking the documents with low perplexity higher. Theoretical analysis further reveals that the phenomenon stems from the positive correlation between the gradients of the loss functions in language modeling task and retrieval task. Based on the analysis, a causal-inspired inference-time debiasing method is proposed, called Causal Diagnosis and Correction (CDC). CDC first diagnoses the bias effect of the perplexity and then separates the bias effect from the overall estimated relevance score. Experimental results across three domains demonstrate the superior debiasing effectiveness of CDC, emphasizing the validity of our proposed explanatory framework. Source codes are available at https://github.com/WhyDwelledOnAi/Perplexity-Trap.

Foundation models are increasingly used in scientific research, but evaluating AI-generated scientific work remains challenging. While expert reviews are costly, large language models (LLMs) as proxy reviewers have proven to be unreliable. To address this, we investigate two automatic evaluation metrics, specifically citation count prediction and review score prediction. We parse all papers of OpenReview and augment each submission with its citation count, reference, and research hypothesis. Our findings reveal that citation count prediction is more viable than review score prediction, and predicting scores is more difficult purely from the research hypothesis than from the full paper. Furthermore, we show that a simple prediction model based solely on title and abstract outperforms LLM-based reviewers, though it still falls short of human-level consistency.

Recurrent neural networks (RNNs) provide a powerful approach in neuroscience to infer latent dynamics in neural populations and to generate hypotheses about the neural computations underlying behavior. However, past work has focused on relatively simple, input-driven, and largely deterministic behaviors - little is known about the mechanisms that would allow RNNs to generate the richer, spontaneous, and potentially stochastic behaviors observed in natural settings. Modeling with Hidden Markov Models (HMMs) has revealed a segmentation of natural behaviors into discrete latent states with stochastic transitions between them, a type of dynamics that may appear at odds with the continuous state spaces implemented by RNNs. Here we first show that RNNs can replicate HMM emission statistics and then reverse-engineer the trained networks to uncover the mechanisms they implement. In the absence of inputs, the activity of trained RNNs collapses towards a single fixed point. When driven by stochastic input, trajectories instead exhibit noise-sustained dynamics along closed orbits. Rotation along these orbits modulates the emission probabilities and is governed by transitions between regions of slow, noise-driven dynamics connected by fast, deterministic transitions. The trained RNNs develop highly structured connectivity, with a small set of "kick neurons" initiating transitions between these regions. This mechanism emerges during training as the network shifts into a regime of stochastic resonance, enabling it to perform probabilistic computations. Analyses across multiple HMM architectures - fully connected, cyclic, and linear-chain - reveal that this solution generalizes through the modular reuse of the same dynamical motif, suggesting a compositional principle by which RNNs can emulate complex discrete latent dynamics.

Literature reviews are an essential component of scientific research, but they remain time-intensive and challenging to write, especially due to the recent influx of research papers. This paper explores the zero-shot abilities of recent Large Language Models (LLMs) in assisting with the writing of literature reviews based on an abstract. We decompose the task into two components: 1. Retrieving related works given a query abstract, and 2. Writing a literature review based on the retrieved results. We analyze how effective LLMs are for both components. For retrieval, we introduce a novel two-step search strategy that first uses an LLM to extract meaningful keywords from the abstract of a paper and then retrieves potentially relevant papers by querying an external knowledge base. Additionally, we study a prompting-based re-ranking mechanism with attribution and show that re-ranking doubles the normalized recall compared to naive search methods, while providing insights into the LLM's decision-making process. In the generation phase, we propose a two-step approach that first outlines a plan for the review and then executes steps in the plan to generate the actual review. To evaluate different LLM-based literature review methods, we create test sets from arXiv papers using a protocol designed for rolling use with newly released LLMs to avoid test set contamination in zero-shot evaluations. We release this evaluation protocol to promote additional research and development in this regard. Our empirical results suggest that LLMs show promising potential for writing literature reviews when the task is decomposed into smaller components of retrieval and planning. Our project page including a demonstration system and toolkit can be accessed here: https://litllm.github.io.

Generative search engines directly generate responses to user queries, along with in-line citations. A prerequisite trait of a trustworthy generative search engine is verifiability, i.e., systems should cite comprehensively (high citation recall; all statements are fully supported by citations) and accurately (high citation precision; every cite supports its associated statement). We conduct human evaluation to audit four popular generative search engines -- Bing Chat, NeevaAI, perplexity.ai, and YouChat -- across a diverse set of queries from a variety of sources (e.g., historical Google user queries, dynamically-collected open-ended questions on Reddit, etc.). We find that responses from existing generative search engines are fluent and appear informative, but frequently contain unsupported statements and inaccurate citations: on average, a mere 51.5% of generated sentences are fully supported by citations and only 74.5% of citations support their associated sentence. We believe that these results are concerningly low for systems that may serve as a primary tool for information-seeking users, especially given their facade of trustworthiness. We hope that our results further motivate the development of trustworthy generative search engines and help researchers and users better understand the shortcomings of existing commercial systems.

In the era of large language models, creative writing quality lacks a computable theoretical anchor. The dominant approaches are rubric scoring -- decomposing holistic aesthetic judgment into sub-scores -- and RLHF preference signals -- replacing quality with group votes. Both bypass the statistical structure of the text itself. This paper provides an information-theoretic foundation to fill this gap. We propose 'calibrated surprise' as the information-theoretic essence of excellent creative writing. This judgment matches reading intuition and covers its opposite. This literary judgment admits a precise mathematical formulation. Under full-dimensional constraints Y, feasible writing choices are forced into an extremely narrow space. The rare survivors are, from the unconstrained perspective, exactly the least predictable choices. Both are measured precisely by Shannon mutual information I(X;Y) = H(X) - H(X|Y) -- 'calibrated' corresponds to H(X|Y) approaching 0; 'surprising' corresponds to H(X) going high. The subtraction structure of the formula naturally separates 'well-grounded surprise' from 'pure noise'. We use token-level logprobs from Qwen1.5-7B as an operational proxy for the ideal reader's probability distribution. Across 20 pairs (12 Chinese / 8 English) of high-quality vs. systematically degraded literary passages, 20/20 pairs support the core prediction: high-quality passages have systematically higher I(X;Y) than their degraded versions.

Intelligent systems across physics, language and perception often exhibit factorisable structure, yet are typically modelled by monolithic neural architectures that do not explicitly exploit this structure. The separable neural architecture (SNA) addresses this by formalising a representational class that unifies additive, quadratic and tensor-decomposed neural models. By constraining interaction order and tensor rank, SNAs impose a structural inductive bias that factorises high-dimensional mappings into low-arity components. Separability need not be a property of the system itself: it often emerges in the coordinates or representations through which the system is expressed. Crucially, this coordinate-aware formulation reveals a structural analogy between chaotic spatiotemporal dynamics and linguistic autoregression. By treating continuous physical states as smooth, separable embeddings, SNAs enable distributional modelling of chaotic systems. This approach mitigates the nonphysical drift characteristics of deterministic operators whilst remaining applicable to discrete sequences. The compositional versatility of this approach is demonstrated across four domains: autonomous waypoint navigation via reinforcement learning, inverse generation of multifunctional microstructures, distributional modelling of turbulent flow and neural language modelling. These results establish the separable neural architecture as a domain-agnostic primitive for predictive and generative intelligence, capable of unifying both deterministic and distributional representations.

Contemporary automated scientific discovery has focused on agents for generating scientific experiments, while systems that perform higher-level scientific activities such as theory building remain underexplored. In this work, we formulate the problem of synthesizing theories consisting of qualitative and quantitative laws from large corpora of scientific literature. We study theory generation at scale, using 13.7k source papers to synthesize 2.9k theories, examining how generation using literature-grounding versus parametric knowledge, and accuracy-focused versus novelty-focused generation objectives change theory properties. Our experiments show that, compared to using parametric LLM memory for generation, our literature-supported method creates theories that are significantly better at both matching existing evidence and at predicting future results from 4.6k subsequently-written papers

Large Language Models (LLMs) have transformed text generation through inherently probabilistic context-aware mechanisms, mimicking human natural language. In this paper, we systematically investigate the performance of various LLMs when generating random numbers, considering diverse configurations such as different model architectures, numerical ranges, temperature, and prompt languages. Our results reveal that, despite their stochastic transformers-based architecture, these models often exhibit deterministic responses when prompted for random numerical outputs. In particular, we find significant differences when changing the model, as well as the prompt language, attributing this phenomenon to biases deeply embedded within the training data. Models such as DeepSeek-R1 can shed some light on the internal reasoning process of LLMs, despite arriving to similar results. These biases induce predictable patterns that undermine genuine randomness, as LLMs are nothing but reproducing our own human cognitive biases.

Schema-guided reasoning pipelines ask LLMs to produce explicit intermediate structures -- rubrics, checklists, verification queries -- before committing to a final decision. But do these structures causally determine the output, or merely accompany it? We introduce a causal evaluation protocol that makes this directly measurable: by selecting tasks where a deterministic function maps intermediate structures to decisions, every controlled edit implies a unique correct output. Across eight models and three benchmarks, models appear self-consistent with their own intermediate structures but fail to update predictions after intervention in up to 60% of cases -- revealing that apparent faithfulness is fragile once the intermediate structure changes. When derivation of the final decision from the structure is delegated to an external tool, this fragility largely disappears; however, prompts which ask to prioritize the intermediate structure over the original input do not materially close the gap. Overall, intermediate structures in schema-guided pipelines function as influential context rather than stable causal mediators.

Evaluating novelty is critical yet challenging in peer review, as reviewers must assess submissions against a vast, rapidly evolving literature. This report presents OpenNovelty, an LLM-powered agentic system for transparent, evidence-based novelty analysis. The system operates through four phases: (1) extracting the core task and contribution claims to generate retrieval queries; (2) retrieving relevant prior work based on extracted queries via semantic search engine; (3) constructing a hierarchical taxonomy of core-task-related work and performing contribution-level full-text comparisons against each contribution; and (4) synthesizing all analyses into a structured novelty report with explicit citations and evidence snippets. Unlike naive LLM-based approaches, OpenNovelty grounds all assessments in retrieved real papers, ensuring verifiable judgments. We deploy our system on 500+ ICLR 2026 submissions with all reports publicly available on our website, and preliminary analysis suggests it can identify relevant prior work, including closely related papers that authors may overlook. OpenNovelty aims to empower the research community with a scalable tool that promotes fair, consistent, and evidence-backed peer review.

This paper presents a domain-specific implementation of Retrieval-Augmented Generation (RAG) tailored to the Fair Use Doctrine in U.S. copyright law. Motivated by the increasing prevalence of DMCA takedowns and the lack of accessible legal support for content creators, we propose a structured approach that combines semantic search with legal knowledge graphs and court citation networks to improve retrieval quality and reasoning reliability. Our prototype models legal precedents at the statutory factor level (e.g., purpose, nature, amount, market effect) and incorporates citation-weighted graph representations to prioritize doctrinally authoritative sources. We use Chain-of-Thought reasoning and interleaved retrieval steps to better emulate legal reasoning. Preliminary testing suggests this method improves doctrinal relevance in the retrieval process, laying groundwork for future evaluation and deployment of LLM-based legal assistance tools.

Given a (machine learning) classifier and a collection of unlabeled data, how can we efficiently identify misclassification patterns presented in this dataset? To address this problem, we propose a human-machine collaborative framework that consists of a team of human annotators and a sequential recommendation algorithm. The recommendation algorithm is conceptualized as a stochastic sampler that, in each round, queries the annotators a subset of samples for their true labels and obtains the feedback information on whether the samples are misclassified. The sampling mechanism needs to balance between discovering new patterns of misclassification (exploration) and confirming the potential patterns of classification (exploitation). We construct a determinantal point process, whose intensity balances the exploration-exploitation trade-off through the weighted update of the posterior at each round to form the generator of the stochastic sampler. The numerical results empirically demonstrate the competitive performance of our framework on multiple datasets at various signal-to-noise ratios.

A recent focus of large language model (LLM) development, as exemplified by generative search engines, is to incorporate external references to generate and support their claims. However, evaluating the attribution, i.e., verifying whether the generated statement is indeed fully supported by the cited reference, remains an open problem. Although human evaluation is common practice, it is costly and time-consuming. In this paper, we investigate the automatic evaluation of attribution by LLMs. We begin by providing a definition of attribution and then explore two approaches for automatic evaluation: prompting LLMs and fine-tuning smaller LMs. The fine-tuning data is repurposed from related tasks, such as question answering, fact-checking, natural language inference, and summarization. To facilitate the evaluation, we manually curate a set of test examples covering 12 domains from a generative search engine, New Bing. Our results on the curated test set and simulated test examples from existing benchmark questions highlight both promising signals as well as remaining challenges for the automatic evaluation of attribution. We hope our testbed, modeling methodology, and insights will help lay the foundation for future studies on this important problem.

We study the classic Text-to-Pattern Hamming Distances problem: given a pattern P of length m and a text T of length n, both over a polynomial-size alphabet, compute the Hamming distance between P and T[i, ., . , i+m-1] for every shift i, under the standard Word-RAM model with Theta(log n)-bit words. - We provide an O(nm) time Las Vegas randomized algorithm for this problem, beating the decades-old O(n m log m) running time [Abrahamson, SICOMP 1987]. We also obtain a deterministic algorithm, with a slightly higher O(nm(log mloglog m)^{1/4}) running time. Our randomized algorithm extends to the k-bounded setting, with running time Obig(n+nk{m}big), removing all the extra logarithmic factors from earlier algorithms [Gawrychowski and Uzna\'{n}ski, ICALP 2018; Chan, Golan, Kociumaka, Kopelowitz and Porat, STOC 2020]. - For the (1+epsilon)-approximate version of Text-to-Pattern Hamming Distances, we give an O(epsilon^{-0.93}n) time Monte Carlo randomized algorithm, beating the previous O(epsilon^{-1}n) running time [Kopelowitz and Porat, FOCS 2015; Kopelowitz and Porat, SOSA 2018]. Our approximation algorithm exploits a connection with 3SUM, and uses a combination of Fredman's trick, equality matrix product, and random sampling; in particular, we obtain new results on approximate counting versions of 3SUM and Exact Triangle, which may be of independent interest. Our exact algorithms use a novel combination of hashing, bit-packed FFT, and recursion; in particular, we obtain a faster algorithm for computing the sumset of two integer sets, in the regime when the universe size is close to quadratic in the number of elements. We also prove a fine-grained equivalence between the exact Text-to-Pattern Hamming Distances problem and a range-restricted, counting version of 3SUM.

We study the relationship between vocabulary size and text length in a corpus of 75 literary works in English, authored by six writers, distinguishing between the contributions of three grammatical classes (or ``tags,'' namely, {\it nouns}, {\it verbs}, and {\it others}), and analyze the progressive appearance of new words of each tag along each individual text. While the power-law relation prescribed by Heaps' law is satisfactorily fulfilled by total vocabulary sizes and text lengths, the appearance of new words in each text is on the whole well described by the average of random shufflings of the text, which does not obey a power law. Deviations from this average, however, are statistically significant and show a systematic trend across the corpus. Specifically, they reveal that the appearance of new words along each text is predominantly retarded with respect to the average of random shufflings. Moreover, different tags are shown to add systematically distinct contributions to this tendency, with {\it verbs} and {\it others} being respectively more and less retarded than the mean trend, and {\it nouns} following instead this overall mean. These statistical systematicities are likely to point to the existence of linguistically relevant information stored in the different variants of Heaps' law, a feature that is still in need of extensive assessment.

Citations in scientific papers not only help us trace the intellectual lineage but also are a useful indicator of the scientific significance of the work. Citation intents prove beneficial as they specify the role of the citation in a given context. In this paper, we present CitePrompt, a framework which uses the hitherto unexplored approach of prompt-based learning for citation intent classification. We argue that with the proper choice of the pretrained language model, the prompt template, and the prompt verbalizer, we can not only get results that are better than or comparable to those obtained with the state-of-the-art methods but also do it with much less exterior information about the scientific document. We report state-of-the-art results on the ACL-ARC dataset, and also show significant improvement on the SciCite dataset over all baseline models except one. As suitably large labelled datasets for citation intent classification can be quite hard to find, in a first, we propose the conversion of this task to the few-shot and zero-shot settings. For the ACL-ARC dataset, we report a 53.86% F1 score for the zero-shot setting, which improves to 63.61% and 66.99% for the 5-shot and 10-shot settings, respectively.

Multimodal Large Language Models (MLLMs) have significantly advanced document understanding, yet current Doc-VQA evaluations score only the final answer and leave the supporting evidence unchecked. This answer-only approach masks a critical failure mode: a model can land on the correct answer while grounding it in the wrong passage -- a critical risk in high-stakes domains like law, finance, and medicine, where every conclusion must be traceable to a specific source region. To address this, we introduce CiteVQA, a benchmark that requires models to return element-level bounding-box citations alongside each answer, evaluating both jointly. CiteVQA comprises 1,897 questions across 711 PDFs spanning seven domains and two languages, averaging 40.6 pages per document. To ensure fidelity and scalability, the ground-truth citations are generated by an automated pipeline-which identifies crucial evidence via masking ablation-and are subsequently validated through expert review. At the core of our evaluation is Strict Attributed Accuracy (SAA), which credits a prediction only when the answer and the cited region are both correct. Auditing 20 MLLMs reveals a pervasive Attribution Hallucination: models frequently produce the right answer while citing the wrong region. The strongest system (Gemini-3.1-Pro-Preview) achieves an SAA of only 76.0, and the strongest open-source MLLM reaches just 22.5. Ultimately, towards trustworthy document intelligence, CiteVQA exposes a reliability gap that answer-only evaluations overlook, providing the instrumentation needed to close it. Our repository is available at https://github.com/opendatalab/CiteVQA.

Current evaluations of large language models (LLMs) often overlook non-determinism, typically focusing on a single output per example. This limits our understanding of LLM performance variability in real-world applications. Our study addresses this issue by exploring key questions about the performance differences between greedy decoding and sampling, identifying benchmarks' consistency regarding non-determinism, and examining unique model behaviors. Through extensive experiments, we observe that greedy decoding generally outperforms sampling methods for most evaluated tasks. We also observe consistent performance across different LLM sizes and alignment methods, noting that alignment can reduce sampling variance. Moreover, our best-of-N sampling approach demonstrates that smaller LLMs can match or surpass larger models such as GPT-4-Turbo, highlighting the untapped potential of smaller LLMs. This research shows the importance of considering non-determinism in LLM evaluations and provides insights for future LLM development and evaluation.

Probabilistic text generators have been used to produce fake scientific papers for more than a decade. Such nonsensical papers are easily detected by both human and machine. Now more complex AI-powered generation techniques produce texts indistinguishable from that of humans and the generation of scientific texts from a few keywords has been documented. Our study introduces the concept of tortured phrases: unexpected weird phrases in lieu of established ones, such as 'counterfeit consciousness' instead of 'artificial intelligence.' We combed the literature for tortured phrases and study one reputable journal where these concentrated en masse. Hypothesising the use of advanced language models we ran a detector on the abstracts of recent articles of this journal and on several control sets. The pairwise comparisons reveal a concentration of abstracts flagged as 'synthetic' in the journal. We also highlight irregularities in its operation, such as abrupt changes in editorial timelines. We substantiate our call for investigation by analysing several individual dubious articles, stressing questionable features: tortured writing style, citation of non-existent literature, and unacknowledged image reuse. Surprisingly, some websites offer to rewrite texts for free, generating gobbledegook full of tortured phrases. We believe some authors used rewritten texts to pad their manuscripts. We wish to raise the awareness on publications containing such questionable AI-generated or rewritten texts that passed (poor) peer review. Deception with synthetic texts threatens the integrity of the scientific literature.

Large language models (LLMs) have emerged as a widely-used tool for information seeking, but their generated outputs are prone to hallucination. In this work, we aim to enable LLMs to generate text with citations, improving their factual correctness and verifiability. Existing work mainly relies on commercial search engines and human evaluation, making it challenging to reproduce and compare with different modeling approaches. We propose ALCE, the first benchmark for Automatic LLMs' Citation Evaluation. ALCE collects a diverse set of questions and retrieval corpora and requires building end-to-end systems to retrieve supporting evidence and generate answers with citations. We build automatic metrics along three dimensions -- fluency, correctness, and citation quality -- and demonstrate their strong correlation with human judgements. Our experiments with state-of-the-art LLMs and novel prompting strategies show that current systems have considerable room for improvements -- for example, on the ELI5 dataset, even the best model has 49% of its generations lacking complete citation support. Our extensive analyses further highlight promising future directions, including developing better retrievers, advancing long-context LLMs, and improving the ability to synthesize information from multiple sources.

The increasing adoption of large language models (LLMs) has been accompanied by growing concerns regarding their reliability and trustworthiness. As a result, a growing body of research focuses on evidence-based text generation with LLMs, aiming to link model outputs to supporting evidence to ensure traceability and verifiability. However, the field is fragmented due to inconsistent terminology, isolated evaluation practices, and a lack of unified benchmarks. To bridge this gap, we systematically analyze 134 papers, introduce a unified taxonomy of evidence-based text generation with LLMs, and investigate 300 evaluation metrics across seven key dimensions. Thereby, we focus on approaches that use citations, attribution, or quotations for evidence-based text generation. Building on this, we examine the distinctive characteristics and representative methods in the field. Finally, we highlight open challenges and outline promising directions for future work.

We explore uncertainty quantification in large language models (LLMs), with the goal to identify when uncertainty in responses given a query is large. We simultaneously consider both epistemic and aleatoric uncertainties, where the former comes from the lack of knowledge about the ground truth (such as about facts or the language), and the latter comes from irreducible randomness (such as multiple possible answers). In particular, we derive an information-theoretic metric that allows to reliably detect when only epistemic uncertainty is large, in which case the output of the model is unreliable. This condition can be computed based solely on the output of the model obtained simply by some special iterative prompting based on the previous responses. Such quantification, for instance, allows to detect hallucinations (cases when epistemic uncertainty is high) in both single- and multi-answer responses. This is in contrast to many standard uncertainty quantification strategies (such as thresholding the log-likelihood of a response) where hallucinations in the multi-answer case cannot be detected. We conduct a series of experiments which demonstrate the advantage of our formulation. Further, our investigations shed some light on how the probabilities assigned to a given output by an LLM can be amplified by iterative prompting, which might be of independent interest.

Literature research, vital for scientific work, faces the challenge of the surging torrent of information in the vast ocean of literature exceeding researchers' processing capabilities. To address this issue, we present an automated review generation method based on Large Language Models (LLMs), aimed at overcoming efficiency bottlenecks in literature processing and reducing cognitive load. Our statistically validated evaluation framework demonstrates that the generated reviews match or exceed manual quality, offering broad applicability across research fields due to minimal domain knowledge requirements. In a case study on propane dehydrogenation (PDH) catalysts, our method swiftly analyzed 343 articles, averaging seconds per article per LLM account, producing comprehensive reviews spanning 35 topics. Extended analysis of 1041 articles provided deep insights into catalysts' composition, structure, and performance. Recognizing LLMs' hallucinations, we implemented a multi-layered quality control strategy, effectively mitigating risks and ensuring reliability, as quantitatively demonstrated through manual verification. Expert verification confirms the accuracy and citation integrity of generated reviews, demonstrating LLM hallucination risks reduced to below 0.5\% with over 95\% confidence. Released Windows application enables one-click review generation, aiding researchers in tracking advancements and recommending literature. This approach showcases LLMs' role in enhancing scientific research productivity and sets the stage for further exploration.

In any ranking system, the retrieval model outputs a single score for a document based on its belief on how relevant it is to a given search query. While retrieval models have continued to improve with the introduction of increasingly complex architectures, few works have investigated a retrieval model's belief in the score beyond the scope of a single value. We argue that capturing the model's uncertainty with respect to its own scoring of a document is a critical aspect of retrieval that allows for greater use of current models across new document distributions, collections, or even improving effectiveness for down-stream tasks. In this paper, we address this problem via an efficient Bayesian framework for retrieval models which captures the model's belief in the relevance score through a stochastic process while adding only negligible computational overhead. We evaluate this belief via a ranking based calibration metric showing that our approximate Bayesian framework significantly improves a retrieval model's ranking effectiveness through a risk aware reranking as well as its confidence calibration. Lastly, we demonstrate that this additional uncertainty information is actionable and reliable on down-stream tasks represented via cutoff prediction.

Combined electric power system and High-Altitude Electromagnetic Pulse (HEMP) models are being developed to determine the effect of a HEMP on the US power grid. The work relies primarily on deterministic methods; however, it is computationally untenable to evaluate the E1 HEMP response of large numbers of grid components distributed across a large interconnection. Further, the deterministic assessment of these components' failures are largely unachievable. E1 HEMP laboratory testing of the components is accomplished, but is expensive, leaving few data points to construct failure models of grid components exposed to E1 HEMP. The use of Bayesian priors, developed using the subject matter expertise, combined with the minimal test data in a Bayesian inference process, provides the basis for the development of more robust and cost-effective statistical component failure models. These can be used with minimal computational burden in a simulation environment such as sampling of Cumulative Distribution Functions (CDFs).

Large language models can arrive at the same answer through reasoning paths that are unstable, contradictory, or difficult to rank consistently -- a failure mode especially prevalent in multi-step deductive reasoning. Existing methods assess reliability primarily through output dispersion -- measuring how much sampled answers differ -- but this discards a complementary signal: whether the model can consistently rank competing reasoning candidates. We propose structural uncertainty, a consistency-aware framework derived from the stability of self-preference-induced rankings over sampled reasoning solutions. Given a query, we generate multiple candidate solutions and ask the model to judge pairwise preferences among its own outputs. We aggregate self-preferences into ranking distributions via Bradley-Terry modeling with PageRank, and decompose the signal into two entropy-based components: across-trial ranking instability and within-trial candidate ambiguity. Across five LLMs and eight benchmarks, structural signals provide information complementary to answer dispersion: on logical and mathematical reasoning tasks, the combination improves identification of unreliable instances, while on factual retrieval the structural signal collapses toward uniformity, diagnosing a regime boundary where reasoning-level consistency evaluation is uninformative. The two components relate differently to accuracy: within-trial ambiguity correlates positively with correctness -- consistent with settings where multiple plausible solution paths remain competitive -- while across-trial instability correlates negatively, signaling unreliable reasoning. Structural uncertainty is best understood not as a universal confidence estimator, but as a regime-sensitive evaluator of logical reasoning consistency.

Judging the novelty of research ideas is crucial for advancing science, enabling the identification of unexplored directions, and ensuring contributions meaningfully extend existing knowledge rather than reiterate minor variations. However, given the exponential growth of scientific literature, manually judging the novelty of research ideas through literature reviews is labor-intensive, subjective, and infeasible at scale. Therefore, recent efforts have proposed automated approaches for research idea novelty judgment. Yet, evaluation of these approaches remains largely inconsistent and is typically based on non-standardized human evaluations, hindering large-scale, comparable evaluations. To address this, we introduce RINoBench, the first comprehensive benchmark for large-scale evaluation of research idea novelty judgments. It comprises 1,381 research ideas derived from and judged by human experts as well as nine automated evaluation metrics designed to assess both rubric-based novelty scores and textual justifications of novelty judgments. Using this benchmark, we evaluate several state-of-the-art large language models (LLMs) on their ability to judge the novelty of research ideas. Our findings reveal that while LLM-generated reasoning closely mirrors human rationales, this alignment does not reliably translate into accurate novelty judgments, which diverge significantly from human gold standard judgments - even among leading reasoning-capable models. Data and code available at: https://github.com/TimSchopf/RINoBench.

Large language models (LLMs) are increasingly integrated into legal drafting and research workflows, where incorrect citations or fabricated precedents can cause serious professional harm. Existing legal benchmarks largely emphasize statutory reasoning, contract understanding, or general legal question answering, but they do not directly study a central common-law failure mode: when asked to provide case authorities without external grounding, models may return plausible-looking but incorrect citations or cases. We introduce LegalCiteBench, a benchmark for studying closed-book citation recovery, citation verification, and case matching in legal language models. LegalCiteBench contains approximately 24K evaluation instances constructed from 1,000 real U.S. judicial opinions from the Case Law Access Project. The benchmark covers five citation-centric tasks: citation retrieval, citation completion, citation error detection, case matching, and case verification and correction. Across 21 LLMs, exact citation recovery remains highly challenging in this closed-book setting: even the strongest models score below 7/100 on citation retrieval and completion. Within the evaluated models, scale and legal-domain pretraining provide limited gains and do not resolve this difficulty. Models also frequently provide concrete but incorrect or low-overlap authorities under our evaluation protocol, with Misleading Answer Rates (MAR) exceeding 94% for 20 of 21 evaluated models on retrieval-heavy tasks. A prompt-only abstention experiment shows that explicit uncertainty instructions reduce some confident fabrication but do not improve citation correctness. LegalCiteBench is intended as a diagnostic framework for studying authority generation failures, verification behavior, and abstention when external grounding is absent, incomplete, or bypassed.

We introduce SelfCite, a novel self-supervised approach that aligns LLMs to generate high-quality, fine-grained, sentence-level citations for the statements in their generated responses. Instead of only relying on costly and labor-intensive annotations, SelfCite leverages a reward signal provided by the LLM itself through context ablation: If a citation is necessary, removing the cited text from the context should prevent the same response; if sufficient, retaining the cited text alone should preserve the same response. This reward can guide the inference-time best-of-N sampling strategy to improve citation quality significantly, as well as be used in preference optimization to directly fine-tune the models for generating better citations. The effectiveness of SelfCite is demonstrated by increasing citation F1 up to 5.3 points on the LongBench-Cite benchmark across five long-form question answering tasks.

Tool-augmented large language models have advanced from single-turn question answering to deep research workflows that iteratively plan queries, invoke external tools, and synthesize information to address complex information needs. Evaluating such workflows presents a fundamental challenge: reliance on live APIs introduces non-determinism, as tool invocations may yield different results across runs due to temporal drift, rate limiting, and evolving backend states. This variance undermines reproducibility and invalidates cross-system comparisons. We present ScholarGym, a simulation environment for reproducible evaluation of deep research workflows on academic literature. The environment decouples workflow components into query planning, tool invocation, and relevance assessment, enabling fine-grained analysis of each stage under controlled conditions. Built on a static corpus of 570K papers with deterministic retrieval, ScholarGym provides 2,536 queries with expert-annotated ground truth. Experiments across diverse backbone models reveal how reasoning capabilities, planning strategies, and selection mechanisms interact over iterative refinement.

LLMs are widely used for code generation and mathematical reasoning tasks where they are required to generate structured output. They either need to reason about code, generate code for a given specification, or reason using programs of thought. The typical approach to code generation is to prompt the model and generate samples until an appropriate program is obtained. Within this process, sampling n programs from the language model requires n GPU compute-intensive generations which becomes prohibitively expensive for larger values of n. In this work, we address this limitation by exposing the LLM's distribution within the generated programs themselves. We propose a novel test-time framework we dub probabilistic programs of thought to obtain more samples from the model with fewer LLM generations. Given a program generated by a model and the associated next-token probabilities, we build a probabilistic program that compactly represents exponentially many deterministic programs. Since performing probabilistic reasoning in this probabilistic program is much cheaper, our approach allows sampling new programs without any additional GPU compute and little CPU overhead. We instantiate our approach on benchmarks for code generation, code understanding and mathematical reasoning and report improvements in performance with fewer generations from the LLM.

Large-scale vision-language models (VLMs) like CLIP successfully find correspondences between images and text. Through the standard deterministic mapping process, an image or a text sample is mapped to a single vector in the embedding space. This is problematic: as multiple samples (images or text) can abstract the same concept in the physical world, deterministic embeddings do not reflect the inherent ambiguity in the embedding space. We propose ProbVLM, a probabilistic adapter that estimates probability distributions for the embeddings of pre-trained VLMs via inter/intra-modal alignment in a post-hoc manner without needing large-scale datasets or computing. On four challenging datasets, i.e., COCO, Flickr, CUB, and Oxford-flowers, we estimate the multi-modal embedding uncertainties for two VLMs, i.e., CLIP and BLIP, quantify the calibration of embedding uncertainties in retrieval tasks and show that ProbVLM outperforms other methods. Furthermore, we propose active learning and model selection as two real-world downstream tasks for VLMs and show that the estimated uncertainty aids both tasks. Lastly, we present a novel technique for visualizing the embedding distributions using a large-scale pre-trained latent diffusion model.

Modern language models define distributions over strings, but downstream tasks often require different output formats. For instance, a model that generates byte-pair strings does not directly produce word-level predictions, and a DNA model does not directly produce amino-acid sequences. In such cases, a deterministic string-to-string transformation can convert the model's output to the desired form. This is a familiar pattern in probability theory: applying a function f to a random variable Xsim p yields a transformed random variable f(X) with an induced distribution. While such transformations are occasionally used in language modeling, prior work does not treat them as yielding new, fully functional language models. We formalize this perspective and introduce a general framework for language models derived from deterministic string-to-string transformations. We focus on transformations representable as finite-state transducers -- a commonly used state-machine abstraction for efficient string-to-string mappings. We develop algorithms that compose a language model with an FST to *marginalize* over source strings mapping to a given target, propagating probabilities through the transducer without altering model parameters and enabling *conditioning* on transformed outputs. We present an exact algorithm, an efficient approximation, and a theoretical analysis. We conduct experiments in three domains: converting language models from tokens to bytes, from tokens to words, and from DNA to amino acids. These experiments demonstrate inference-time adaptation of pretrained language models to match application-specific output requirements.

Precipitation nowcasting is a critical spatio-temporal prediction task for society to prevent severe damage owing to extreme weather events. Despite the advances in this field, the complex and stochastic nature of this task still poses challenges to existing approaches. Specifically, deterministic models tend to produce blurry predictions while generative models often struggle with poor accuracy. In this paper, we present a simple yet effective model architecture termed STLDM, a diffusion-based model that learns the latent representation from end to end alongside both the Variational Autoencoder and the conditioning network. STLDM decomposes this task into two stages: a deterministic forecasting stage handled by the conditioning network, and an enhancement stage performed by the latent diffusion model. Experimental results on multiple radar datasets demonstrate that STLDM achieves superior performance compared to the state of the art, while also improving inference efficiency. The code is available in https://github.com/sqfoo/stldm_official.

Recent work suggests that large language models may implicitly learn world models. How should we assess this possibility? We formalize this question for the case where the underlying reality is governed by a deterministic finite automaton. This includes problems as diverse as simple logical reasoning, geographic navigation, game-playing, and chemistry. We propose new evaluation metrics for world model recovery inspired by the classic Myhill-Nerode theorem from language theory. We illustrate their utility in three domains: game playing, logic puzzles, and navigation. In all domains, the generative models we consider do well on existing diagnostics for assessing world models, but our evaluation metrics reveal their world models to be far less coherent than they appear. Such incoherence creates fragility: using a generative model to solve related but subtly different tasks can lead to failures. Building generative models that meaningfully capture the underlying logic of the domains they model would be immensely valuable; our results suggest new ways to assess how close a given model is to that goal.

Comprehensive evaluation of Large Language Models (LLMs) is an open research problem. Existing evaluations rely on deterministic point estimates generated via greedy decoding. However, we find that deterministic evaluations fail to capture the whole output distribution of a model, yielding inaccurate estimations of model capabilities. This is particularly problematic in critical contexts such as unlearning and alignment, where precise model evaluations are crucial. To remedy this, we introduce the first formal probabilistic evaluation framework for LLMs. Namely, we propose novel metrics with high probability guarantees concerning the output distribution of a model. Our metrics are application-independent and allow practitioners to make more reliable estimates about model capabilities before deployment. Our experimental analysis reveals that deterministic evaluations falsely indicate successful unlearning and alignment, whereas our probabilistic evaluations better capture model capabilities. We show how to overcome challenges associated with probabilistic outputs in a case study on unlearning by introducing (1) a novel loss based on entropy optimization, and (2) adaptive temperature scaling. We demonstrate that our approach significantly enhances unlearning in probabilistic settings on recent benchmarks. Overall, our proposed shift from point estimates to probabilistic evaluations of output distributions represents an important step toward comprehensive evaluations of LLMs. Code available at https://www.cs.cit.tum.de/daml/probabilistic-unlearning/.

Large language models (LLMs) present a promising yet challenging frontier for automated source citation in scientific communication. Previous approaches to citation generation have been limited by citation ambiguity and LLM overgeneralization. We introduce REASONS, a novel dataset with sentence-level annotations across 12 scientific domains from arXiv. Our evaluation framework covers two key citation scenarios: indirect queries (matching sentences to paper titles) and direct queries (author attribution), both enhanced with contextual metadata. We conduct extensive experiments with models such as GPT-O1, GPT-4O, GPT-3.5, DeepSeek, and other smaller models like Perplexity AI (7B). While top-tier LLMs achieve high performance in sentence attribution, they struggle with high hallucination rates, a key metric for scientific reliability. Our metadata-augmented approach reduces hallucination rates across all tasks, offering a promising direction for improvement. Retrieval-augmented generation (RAG) with Mistral improves performance in indirect queries, reducing hallucination rates by 42% and maintaining competitive precision with larger models. However, adversarial testing highlights challenges in linking paper titles to abstracts, revealing fundamental limitations in current LLMs. REASONS provides a challenging benchmark for developing reliable and trustworthy LLMs in scientific applications

Forecasting from partial observations is central to world modeling. Many recent methods represent the world through images, and reduce forecasting to stochastic video generation. Although such methods excel at realism and visual fidelity, predicting pixels is computationally intensive and not directly useful in many applications, as it requires translating RGB into signals useful for decision making. An alternative approach uses features from vision foundation models (VFMs) as world representations, performing deterministic regression to predict future world states. These features can be directly translated into actionable signals such as semantic segmentation and depth, while remaining computationally efficient. However, deterministic regression averages over multiple plausible futures, undermining forecast accuracy by failing to capture uncertainty. To address this crucial limitation, we introduce a generative forecaster that performs autoregressive flow matching in VFM feature space. Our key insight is that generative modeling in this space requires encoding VFM features into a compact latent space suitable for diffusion. We show that this latent space preserves information more effectively than previously used PCA-based alternatives, both for forecasting and other applications, such as image generation. Our latent predictions can be easily decoded into multiple useful and interpretable output modalities: semantic segmentation, depth, surface normals, and even RGB. With matched architecture and compute, our method produces sharper and more accurate predictions than regression across all modalities. Our results suggest that stochastic conditional generation of VFM features offers a promising and scalable foundation for future world models.

Commonly used evaluation measures including Recall, Precision, F-Measure and Rand Accuracy are biased and should not be used without clear understanding of the biases, and corresponding identification of chance or base case levels of the statistic. Using these measures a system that performs worse in the objective sense of Informedness, can appear to perform better under any of these commonly used measures. We discuss several concepts and measures that reflect the probability that prediction is informed versus chance. Informedness and introduce Markedness as a dual measure for the probability that prediction is marked versus chance. Finally we demonstrate elegant connections between the concepts of Informedness, Markedness, Correlation and Significance as well as their intuitive relationships with Recall and Precision, and outline the extension from the dichotomous case to the general multi-class case.

Deep Research Agents (DRAs) generate citation-rich reports via multi-step search and synthesis, yet existing benchmarks mainly target text-only settings or short-form multimodal QA, missing end-to-end multimodal evidence use. We introduce MMDeepResearch-Bench (MMDR-Bench), a benchmark of 140 expert-crafted tasks across 21 domains, where each task provides an image-text bundle to evaluate multimodal understanding and citation-grounded report generation. Compared to prior setups, MMDR-Bench emphasizes report-style synthesis with explicit evidence use, where models must connect visual artifacts to sourced claims and maintain consistency across narrative, citations, and visual references. We further propose a unified, interpretable evaluation pipeline: Formula-LLM Adaptive Evaluation (FLAE) for report quality, Trustworthy Retrieval-Aligned Citation Evaluation (TRACE) for citation-grounded evidence alignment, and Multimodal Support-Aligned Integrity Check (MOSAIC) for text-visual integrity, each producing fine-grained signals that support error diagnosis beyond a single overall score. Experiments across 25 state-of-the-art models reveal systematic trade-offs between generation quality, citation discipline, and multimodal grounding, highlighting that strong prose alone does not guarantee faithful evidence use and that multimodal integrity remains a key bottleneck for deep research agents.

Retrieval Augmented Generation (RAG) has emerged as a powerful application of Large Language Models (LLMs), revolutionizing information search and consumption. RAG systems combine traditional search capabilities with LLMs to generate comprehensive answers to user queries, ideally with accurate citations. However, in our experience of developing a RAG product, LLMs often struggle with source attribution, aligning with other industry studies reporting citation accuracy rates of only about 74% for popular generative search engines. To address this, we present efficient post-processing algorithms to improve citation accuracy in LLM-generated responses, with minimal impact on latency and cost. Our approaches cross-check generated citations against retrieved articles using methods including keyword + semantic matching, fine tuned model with BERTScore, and a lightweight LLM-based technique. Our experimental results demonstrate a relative improvement of 15.46% in the overall accuracy metrics of our RAG system. This significant enhancement potentially enables a shift from our current larger language model to a relatively smaller model that is approximately 12x more cost-effective and 3x faster in inference time, while maintaining comparable performance. This research contributes to enhancing the reliability and trustworthiness of AI-generated content in information retrieval and summarization tasks which is critical to gain customer trust especially in commercial products.

Subject classification schemes are foundational to the organization, evaluation, and navigation of scientific knowledge. While expert-curated systems like Scopus provide widely used taxonomies, they often suffer from coarse granularity, subjectivity, and limited adaptability to emerging interdisciplinary fields. Data-driven alternatives based on citation networks show promise but lack rigorous, external validation against the semantic content of scientific literature. Here, we propose a novel quantitative framework that leverages classification tasks to evaluate the effectiveness of journal classification schemes. Using over 23 million paper abstracts, we demonstrate that labels derived from k-means clustering on Periodical2Vec (P2V)--a periodical embedding learned from paper-level citations--yield significantly higher classification performance than both Scopus and other data-driven baselines (e.g., citation, co-citation, and Node2Vec variants). By comparing journal partitions across classification schemes, two structural patterns emerge on the map of science: (1) the reorganization of disciplinary boundaries--splitting overly broad categories (e.g., "Medicine" into "Oncology", "Cardiology", and other specialties) while merging artificially fragmented ones (e.g., "Chemistry" and "Chemical Engineering"); and (2) the identification of coherent interdisciplinary clusters--such as "Biomedical Engineering", "Medical Ethics", and "Information Management"--that are dispersed across multiple categories but unified in citation space. These findings underscore that citation-derived periodical embeddings not only outperform traditional taxonomies in predictive validity but also offer a dynamic, fine-grained map of science that better reflects both the specialization and interdisciplinarity inherent in contemporary research.

We introduce a new dynamic vocabulary for language models. It can involve arbitrary text spans during generation. These text spans act as basic generation bricks, akin to tokens in the traditional static vocabularies. We show that, the ability to generate multi-tokens atomically improve both generation quality and efficiency (compared to the standard language model, the MAUVE metric is increased by 25%, the latency is decreased by 20%). The dynamic vocabulary can be deployed in a plug-and-play way, thus is attractive for various downstream applications. For example, we demonstrate that dynamic vocabulary can be applied to different domains in a training-free manner. It also helps to generate reliable citations in question answering tasks (substantially enhancing citation results without compromising answer accuracy).

Retrieval-enhanced methods have become a primary approach in fact verification (FV); it requires reasoning over multiple retrieved pieces of evidence to verify the integrity of a claim. To retrieve evidence, existing work often employs off-the-shelf retrieval models whose design is based on the probability ranking principle. We argue that, rather than relevance, for FV we need to focus on the utility that a claim verifier derives from the retrieved evidence. We introduce the feedback-based evidence retriever(FER) that optimizes the evidence retrieval process by incorporating feedback from the claim verifier. As a feedback signal we use the divergence in utility between how effectively the verifier utilizes the retrieved evidence and the ground-truth evidence to produce the final claim label. Empirical studies demonstrate the superiority of FER over prevailing baselines.

Autonomous research systems are often evaluated as one-shot paper generators: given a topic, they produce a manuscript and a small set of experiment logs. This framing hides the operational problem that makes such systems difficult to trust: research is long-running, branching, failure-prone, and dependent on auditable handoffs between agents and humans. XScientist is a git-like research protocol and operating system for this setting. It orchestrates idea generation, experiment execution, manuscript drafting, self-review, repair, quality gating, daemon scheduling, and reproducibility artifacts as one continuously observable pipeline. The central design choice is to treat each run as a portable research artifact rather than only as a PDF. XScientist exports an Agent-Native Research Artifact (ARA), a protocol that records an exploration DAG, per-node code and outputs, claim-to-evidence anchors, content hashes, provenance, and re-execution hooks. This makes each generated paper inspectable as a science exploration tree: failed branches, repaired experiments, ablations, and manuscript claims remain connected to the nodes that produced them. The system also includes deterministic integrity forensics, sample gates, truth contracts, reviewer-oriented repair loops, and long-running daemon controls. This paper describes the current XScientist architecture, the ARA protocol surface, and the practical safeguards needed to move autonomous science from single-run demos toward reproducible, reviewable, and forkable research infrastructure. The implementation and manuscript source are maintained in the public GitHub repository at https://github.com/smileformylove/XScientist.

We automate deep step-by step reasoning in an LLM dialog thread by recursively exploring alternatives (OR-nodes) and expanding details (AND-nodes) up to a given depth. Starting from a single succinct task-specific initiator we steer the automated dialog thread to stay focussed on the task by synthesizing a prompt that summarizes the depth-first steps taken so far. Our algorithm is derived from a simple recursive descent implementation of a Horn Clause interpreter, except that we accommodate our logic engine to fit the natural language reasoning patterns LLMs have been trained on. Semantic similarity to ground-truth facts or oracle advice from another LLM instance is used to restrict the search space and validate the traces of justification steps returned as answers. At the end, the unique minimal model of a generated Horn Clause program collects the results of the reasoning process. As applications, we sketch implementations of consequence predictions, causal explanations, recommendation systems and topic-focussed exploration of scientific literature.

Multi-agent LLM systems share state through memory stores, vector indices, and tool registries. We model such sharing as long-running read-generate-write operations under deterministic-generation semantics -- the regime durable-execution engines enforce by deterministic replay -- and formalize four concurrency anomalies in TLA+: stale-generation, phantom-tool, causal-cascade, and tool-effect reordering, structural analogues of classical isolation anomalies, each with a TLC counter-example. The exclusion lattice over these anomalies is trivial; the contribution is the mechanically verified realizability and strict separation of one maximal chain within it, L_0 subsetneq cdots subsetneq L_4, to our knowledge the first machine-checked consistency hierarchy for such runtimes. A development of 274 Verus obligations (zero assume, zero admit; trust base: two structural axioms and a mutex correspondence) proves the detectors sound and complete against the specifications and each runtime its avoidance set. Three deployed Rust runtimes realize L0-L1 (pessimistic locking, serializable snapshot isolation, default-SI), each verified against stale-generation and refined to its state machine; L2-L4 are exec-mode-verified with dependency-free prevention twins (A3, A6, A2: 0/1000 versus 1000/1000), and L2 is run live across three model families (A3 prevented in all 120 retracted sessions). We reproduce a silent lost update in ByteDance's deer-flow, formalizing its fix as a verified L_0 to L_1 refinement, and exhibit tool-effect reordering in LangGraph's ToolNode on unmodified output, removed by an L3 commit-order sequencer. The verified detector, refinements, and realizability artifacts are the contribution; the phenomena and lattice are classical.

We formalize a transfinite Phi process that treats all possibility embeddings as operators on structured state spaces including complete lattices, Banach and Hilbert spaces, and orthomodular lattices. We prove a determinization lemma showing that lifting to sets or distributions yields a deterministic global dynamic, an ordinal stabilization theorem sending operator transforms to the fixed subspace by stage omega under normal spectral contraction, and a product of Riesz projections theorem for commuting layers. We establish a compositionality law for lifted maps, show closure of Phi packings, and present a quantitative application to sensory depletion that models tissue removal as a projection and derives strict decreases in the attainable fixed point under minimal monotonicity and positivity assumptions. We also state measurable conditions for probabilistic lifts, give explicit non normal and non commuting counterexamples, and provide finite dimensional and stochastic witnesses together with per theorem scope tables and a small reproducible code appendix.

Retrieval-based language models (R-LM) model the probability of natural language text by combining a standard language model (LM) with examples retrieved from an external datastore at test time. While effective, a major bottleneck of using these models in practice is the computationally costly datastore search, which can be performed as frequently as every time step. In this paper, we present RetoMaton - retrieval automaton - which approximates the datastore search, based on (1) saving pointers between consecutive datastore entries, and (2) clustering of entries into "states". This effectively results in a weighted finite automaton built on top of the datastore, instead of representing the datastore as a flat list. The creation of the automaton is unsupervised, and a RetoMaton can be constructed from any text collection: either the original training corpus or from another domain. Traversing this automaton at inference time, in parallel to the LM inference, reduces its perplexity by up to 1.85, or alternatively saves up to 83% of the nearest neighbor searches over kNN-LM (Khandelwal et al., 2020) without hurting perplexity. Our code and trained models are available at https://github.com/neulab/retomaton .

Persistent memory is a central capability for AI agents, yet the mathematical foundations of memory retrieval, lifecycle management, and consistency remain unexplored. Current systems employ cosine similarity for retrieval, heuristic decay for salience, and provide no formal contradiction detection. We establish information-geometric foundations through three contributions. First, a retrieval metric derived from the Fisher information structure of diagonal Gaussian families, satisfying Riemannian metric axioms, invariant under sufficient statistics, and computable in O(d) time. Second, memory lifecycle formulated as Riemannian Langevin dynamics with proven existence and uniqueness of the stationary distribution via the Fokker-Planck equation, replacing hand-tuned decay with principled convergence guarantees. Third, a cellular sheaf model where non-trivial first cohomology classes correspond precisely to irreconcilable contradictions across memory contexts. On the LoCoMo benchmark, the mathematical layers yield +12.7 percentage points over engineering baselines across six conversations, reaching +19.9 pp on the most challenging dialogues. A four-channel retrieval architecture achieves 75% accuracy without cloud dependency. Cloud-augmented results reach 87.7%. A zero-LLM configuration satisfies EU AI Act data sovereignty requirements by architectural design. To our knowledge, this is the first work establishing information-geometric, sheaf-theoretic, and stochastic-dynamical foundations for AI agent memory systems.

Retrieval-augmented generation (RAG) gives agents access to accumulated knowledge, but has no model of time. When a fact changes (e.g., a function is renamed or API restructured), RAG retrieves both the stale and current value with near-identical embedding similarity. The agent then either abstains or serves the superseded fact. We show this is a structural problem: on a calibrated dataset, cosine similarity distinguishes a contradicted fact from a duplicated one with AUROC 0.59 (near chance), as contradictions are often more embedding-similar to the original than rephrased duplicates. We present MemStrata, a retrieval memory maintaining temporal validity. It stores facts like RAG, preserving static recall, but when a fact's value is contradicted, a deterministic (subject, relation, object) supersession rule retires the stale value in a bi-temporal ledger - with no similarity threshold and no LLM call. Across six benchmarks run locally with a 7B model, MemStrata ties RAG on static knowledge and reaches 0.95-1.00 accuracy on evolving knowledge (where RAG reaches 0.20-0.47). The central result is the stale-fact-error rate: when required to answer, RAG serves superseded values 15-40% of the time; MemStrata drives this to ~0%, a failure class RAG cannot avoid. MemStrata achieves this at retrieval latency (~2.1s) versus ~16-18s for LLM-reranking baselines. We release the harness, datasets, and a marker-free evaluation protocol for memory under knowledge evolution.

AI-assisted research is crossing a threshold: fully automated systems can now generate research papers for as little as $15, while long-horizon agents can execute experiments, draft manuscripts, and simulate critique with minimal human input. Yet this productivity frontier exposes a deeper integrity problem: under scientific pressure, even frontier LLMs still fabricate results, miss hidden errors, and fail to judge novelty reliably. Studying developments through April 2026, we present an end-to-end analysis of AI across the complete research lifecycle, organized into four epistemological phases: Creation (idea generation, literature review, coding & experiments, tables & figures), Writing (paper writing), Validation (peer review, rebuttal & revision), and Dissemination (posters, slides, videos, social media, project pages, and interactive agents). We identify a sharp, stage-dependent boundary between reliable assistance and unreliable autonomy: AI excels at structured, retrieval-grounded, and tool-mediated tasks, but remains fragile for genuinely novel ideas, research-level experiments, and scientific judgment. Generated ideas often degrade after implementation, research code lags far behind pattern-matching benchmarks, and end-to-end autonomous systems have not yet consistently reached major-venue acceptance standards. We further show that greater automation can obscure rather than eliminate failure modes, making human-governed collaboration the most credible deployment paradigm. Finally, we provide a structured taxonomy, benchmark suite, and tool inventory, cross-stage design principles, and a practitioner-oriented playbook, with resources maintained at our project page.

Plaintiffs and defendants in copyright lawsuits over generative AI often make sweeping, opposing claims about the extent to which large language models (LLMs) have memorized plaintiffs' protected expression in their training data. Drawing on both machine learning and copyright law, we show that these polarized positions dramatically oversimplify the relationship between memorization and copyright. To do so, we extend a recent probabilistic extraction technique to measure memorization of 50 books in 17 open-weight LLMs. Through thousands of experiments, we show that the extent of memorization varies both by model and by book. With respect to our specific extraction methodology, we find that most LLMs do not memorize most books -- either in whole or in part. However, we also find that Llama 3.1 70B entirely memorizes some books, like the first Harry Potter book and 1984. In fact, the first Harry Potter is so memorized that, using a seed prompt consisting of just the first few tokens of the first chapter, we can deterministically generate the entire book near-verbatim. We discuss why our results have significant implications for copyright cases, though not ones that unambiguously favor either side.

Evaluating large language models' (LLMs) long-context understanding capabilities remains challenging. We present SCALAR (Scientific Citation-based Live Assessment of Long-context Academic Reasoning), a novel benchmark that leverages academic papers and their citation networks. SCALAR features automatic generation of high-quality ground truth labels without human annotation, controllable difficulty levels, and a dynamic updating mechanism that prevents data contamination. Using ICLR 2025 papers, we evaluate 8 state-of-the-art LLMs, revealing key insights about their capabilities and limitations in processing long scientific documents across different context lengths and reasoning types. Our benchmark provides a reliable and sustainable way to track progress in long-context understanding as LLM capabilities evolve.

Ensuring the verifiability of model answers is a fundamental challenge for retrieval-augmented generation (RAG) in the question answering (QA) domain. Recently, self-citation prompting was proposed to make large language models (LLMs) generate citations to supporting documents along with their answers. However, self-citing LLMs often struggle to match the required format, refer to non-existent sources, and fail to faithfully reflect LLMs' context usage throughout the generation. In this work, we present MIRAGE --Model Internals-based RAG Explanations -- a plug-and-play approach using model internals for faithful answer attribution in RAG applications. MIRAGE detects context-sensitive answer tokens and pairs them with retrieved documents contributing to their prediction via saliency methods. We evaluate our proposed approach on a multilingual extractive QA dataset, finding high agreement with human answer attribution. On open-ended QA, MIRAGE achieves citation quality and efficiency comparable to self-citation while also allowing for a finer-grained control of attribution parameters. Our qualitative evaluation highlights the faithfulness of MIRAGE's attributions and underscores the promising application of model internals for RAG answer attribution.

Eliciting information to reduce uncertainty about a latent entity is a critical task in many application domains, e.g., assessing individual student learning outcomes, diagnosing underlying diseases, or learning user preferences. Though natural language is a powerful medium for this purpose, large language models (LLMs) and existing fine-tuning algorithms lack mechanisms for strategically gathering information to refine their own understanding of the latent entity. To harness the generalization power and world knowledge of LLMs in developing effective information-gathering strategies, we propose an adaptive elicitation framework that actively reduces uncertainty on the latent entity. Since probabilistic modeling of an abstract latent entity is difficult, our framework adopts a predictive view of uncertainty, using a meta-learned language model to simulate future observations and enable scalable uncertainty quantification over complex natural language. Through autoregressive forward simulation, our model quantifies how new questions reduce epistemic uncertainty, enabling the development of sophisticated information-gathering strategies to choose the most informative next queries. In experiments on the 20 questions game, dynamic opinion polling, and adaptive student assessment, our method consistently outperforms baselines in identifying critical unknowns and improving downstream predictions, illustrating the promise of strategic information gathering in natural language settings.

Next token prediction paradigm has been prevailing for autoregressive models in the era of LLMs. The current default sampling choice for popular LLMs is temperature scaling together with nucleus sampling to balance diversity and coherence. Nevertheless, such approach leads to inferior performance in various NLP tasks when the model is not certain about testing questions. To this end, we propose a brand new training-free decoding strategy, dubbed as Cautious Next Token Prediction (CNTP). In the decoding process, if the model has comparatively high prediction entropy at a certain step, we sample multiple trials starting from the step independently and stop when encountering any punctuation. Then we select the trial with the lowest perplexity score viewed as the most probable and reliable trial path given the model's capacity. The trial number is negatively correlated with the prediction confidence, i.e., the less confident the model is, the more trials it should sample. This is consistent with human beings' behaviour: when feeling uncertain or unconfident, one tends to think more creatively, exploring multiple thinking paths, to cautiously select the path one feels most confident about. Extensive experiments on both LLMs and MLLMs show that our proposed CNTP approach outperforms existing standard decoding strategies consistently by a clear margin. Moreover, the integration of CNTP with self consistency can further improve over vanilla self consistency. We believe our proposed CNTP has the potential to become one of the default choices for LLM decoding. Code is available at https://github.com/wyzjack/CNTP.

From a viewpoint of stochastic thermodynamics, we derive equations that describe the collective dynamics near the order-disorder transition in the globally coupled XY model and near the synchronization-desynchronization transition in the Kuramoto model. A new way of thinking is to interpret the deterministic time evolution of a macroscopic variable as an external operation to a thermodynamic system. We then find that the irreversible work determines the equation for the collective dynamics. When analyzing the Kuramoto model, we employ a generalized concept of irreversible work which originates from a non-equilibrium identity associated with steady state thermodynamics.

Identifying significant references within the complex interrelations of a citation knowledge graph is challenging, which encompasses connections through citations, authorship, keywords, and other relational attributes. The Paper Source Tracing (PST) task seeks to automate the identification of pivotal references for given scholarly articles utilizing advanced data mining techniques. In the KDD CUP 2024, we design a recommendation-based framework tailored for the PST task. This framework employs the Neural Collaborative Filtering (NCF) model to generate final predictions. To process the textual attributes of the papers and extract input features for the model, we utilize SciBERT, a pre-trained language model. According to the experimental results, our method achieved a score of 0.37814 on the Mean Average Precision (MAP) metric, outperforming baseline models and ranking 11th among all participating teams. The source code is publicly available at https://github.com/MyLove-XAB/KDDCupFinal.

LLM-based agents have demonstrated strong capabilities in data-intensive analytical tasks, yet their outputs are rarely verifiable: a reliance on linear text trajectories makes their reasoning difficult to audit. In particular, deterministic computations over raw data and semantic deductions over natural-language claims are often entangled in an unstructured stream, leaving numerical conclusions hard to reproduce and qualitative judgments hard to inspect. To address this, we propose VeriGraph, a traceable neuro-symbolic reasoning framework that enables agents to construct an explicit heterogeneous evidence directed acyclic graph (DAG) during execution. VeriGraph introduces three evidence-expansion primitives, namely computational, grounding, and derivational expansion, to connect raw data, interpreter variables, computed results, and natural-language claims in a unified graph. Under this formulation, structural traceability is reduced to graph reachability from raw data sources to terminal claims, while semantic support is measured by claim-level evidence evaluation. To improve graph construction, we further design a graph-based policy optimization strategy with a composite reward that jointly supervises answer correctness, computational integrity, and derivational coherence. Experiments on four benchmarks show that VeriGraph-8B achieves the highest overall score among all baselines. More importantly, VeriGraph produces auditable evidence graphs with substantially stronger claim grounding, achieving a 87.61\% Grounding Rate under our claim-level evidence support evaluation. These results suggest that explicit evidence-graph construction is a promising path toward verifiable data-analytic agents. Our code is available at https://github.com/ignorejjj/VeriGraph.

Diffusion models trained on different, non-overlapping subsets of a dataset often produce strikingly similar outputs when given the same noise seed. We trace this consistency to a simple linear effect: the shared Gaussian statistics across splits already predict much of the generated images. To formalize this, we develop a random matrix theory (RMT) framework that quantifies how finite datasets shape the expectation and variance of the learned denoiser and sampling map in the linear setting. For expectations, sampling variability acts as a renormalization of the noise level through a self-consistent relation σ^2 mapsto κ(σ^2), explaining why limited data overshrink low-variance directions and pull samples toward the dataset mean. For fluctuations, our variance formulas reveal three key factors behind cross-split disagreement: anisotropy across eigenmodes, inhomogeneity across inputs, and overall scaling with dataset size. Extending deterministic-equivalence tools to fractional matrix powers further allows us to analyze entire sampling trajectories. The theory sharply predicts the behavior of linear diffusion models, and we validate its predictions on UNet and DiT architectures in their non-memorization regime, identifying where and how samples deviates across training data split. This provides a principled baseline for reproducibility in diffusion training, linking spectral properties of data to the stability of generative outputs.

Recently bipartite graphs have been widely used to represent the relationship two sets of items for information retrieval applications. The Web offers a wide range of data which can be represented by bipartite graphs, such us movies and reviewers in recomender systems, queries and URLs in search engines, users and posts in social networks. The size and the dynamic nature of such graphs generate the need for more efficient ranking methods. In this thesis, at first we present the fundamental mathematical backround that we use subsequently and we describe the basic principles of the Perron-Frobebius theory for non negative matrices as well as the the basic principles of the Markov chain theory. Then, we propose a novel algorithm named BipartiteRank, which is suitable to rank scenarios, that can be represented as a bipartite graph. This algorithm is based on the random surfer model and inherits the basic mathematical characteristics of PageRank. What makes it different, is the fact that it introduces an alternative type of teleportation, based on the block structure of the bipartite graph in order to achieve more efficient ranking. Finally, we support this opinion with mathematical arguments and then we confirm it experimentally through a series of tests on real data.

The aim of this paper is to present an elementary computable theory of probability, random variables and stochastic processes. The probability theory is baed on existing approaches using valuations and lower integrals. Various approaches to random variables are discussed, including the approach based on completions in a Polish space. We apply the theory to the study of stochastic dynamical systems in discrete-time, and give a brief exposition of the Wiener process as a foundation for stochastic differential equations. The theory is based within the framework of type-two effectivity, so has an explicit direct link with Turing computation, and is expressed in a system of computable types and operations, so has a clean mathematical description.

These names do not exist. Elena Vasquez and Marcus Chen have appeared as volcano experts, astronauts, thriller protagonists, podcast hosts, and academic co-authors across hundreds of independently produced AI-generated documents, never having lived. We show that large language models do not merely default to high-probability individual names when generating fictional experts: they produce correlated character ensembles, pairs and trios whose co-occurrence rates far exceed chance and are consistent across independent generations. These priors are model-family-specific (Claude: Elena Vasquez + Marcus Chen + Amara Okafor; Gemini: Aris Thorne + Lena Petrova; GPT: Elara Voss with no fixed partner), version-specific, and actively suppressed at model release boundaries, leaving dateable behavioral fingerprints in the content they produced. We document a downstream consequence at scale. On Zenodo, a CERN-operated repository that mints real DataCite DOIs, we identify 1,655 ghost-authored records claiming nonexistent journals with fabricated publication dates: server-side DataCite timestamps prove deliberate backdating, and 991 records were registered in a single month; these carry real DOIs registered in DataCite, making them harvestable by any scholarly aggregator that ingests DOI metadata. Ghost names additionally appear on ResearchGate forming synthetic research groups with collaborators drawn from multiple model families; publication dates on these records provide a reliable temporal proxy for model deployment windows.

RAGE systems integrate ideas from automatic evaluation (E) into Retrieval-augmented Generation (RAG). As one such example, we present Crucible, a Nugget-Augmented Generation System that preserves explicit citation provenance by constructing a bank of Q&A nuggets from retrieved documents and uses them to guide extraction, selection, and report generation. Reasoning on nuggets avoids repeated information through clear and interpretable Q&A semantics - instead of opaque cluster abstractions - while maintaining citation provenance throughout the entire generation process. Evaluated on the TREC NeuCLIR 2024 collection, our Crucible system substantially outperforms Ginger, a recent nugget-based RAG system, in nugget recall, density, and citation grounding.

Scientific discovery is a cumulative process and requires new ideas to be situated within an ever-expanding landscape of existing knowledge. An emerging and critical challenge is how to identify conceptually relevant prior work from rapidly growing literature, and assess how a new idea differentiates from existing research. Current embedding approaches typically conflate distinct conceptual aspects into single representations and cannot support fine-grained literature retrieval; meanwhile, LLM-based evaluators are subject to sycophancy biases, failing to provide discriminative novelty assessment. To tackle these challenges, we introduce the Ideation Space, a structured representation that decomposes scientific knowledge into three distinct dimensions, i.e., research problem, methodology, and core findings, each learned through contrastive training. This framework enables principled measurement of conceptual distance between ideas, and modeling of ideation transitions that capture the logical connections within a proposed idea. Building upon this representation, we propose a Hierarchical Sub-Space Retrieval framework for efficient, targeted literature retrieval, and a Decomposed Novelty Assessment algorithm that identifies which aspects of an idea are novel. Extensive experiments demonstrate substantial improvements, where our approach achieves Recall@30 of 0.329 (16.7% over baselines), our ideation transition retrieval reaches Hit Rate@30 of 0.643, and novelty assessment attains 0.37 correlation with expert judgments. In summary, our work provides a promising paradigm for future research on accelerating and evaluating scientific discovery.

LLMs are highly sensitive to prompt phrasing, yet standard benchmarks typically report performance using a single prompt, raising concerns about the reliability of such evaluations. In this work, we argue for a stochastic method of moments evaluation over the space of meaning-preserving prompt perturbations. We introduce a formal definition of reliable evaluation that accounts for prompt sensitivity, and suggest ReliableEval - a method for estimating the number of prompt resamplings needed to obtain meaningful results. Using our framework, we stochastically evaluate five frontier LLMs and find that even top-performing models like GPT-4o and Claude-3.7-Sonnet exhibit substantial prompt sensitivity. Our approach is model-, task-, and metric-agnostic, offering a recipe for meaningful and robust LLM evaluation.

Autonomous research agents produce competitive solutions and professional-looking manuscripts, yet their outputs contain verifiability failures undetectable by surface-level evaluation: fabricated citations, unreproducible scores, and method descriptions that diverge from the implementation. We address this through three contributions. First, Chain-of-Evidence (CoE), a verifiability framework requiring every claim to be traceable to its evidence source. Second, ScientistOne, an end-to-end autonomous research system that maintains evidence chains by construction throughout literature review, solution discovery, and paper writing. Third, CoE Audit, a post-hoc audit whose four integrity checks -- score verification, specification violation, reference verification, and method-code alignment -- apply uniformly to all systems. Across 75 papers spanning five systems and five frontier research tasks, every baseline exhibits at least one systematic failure mode: hallucinated reference rates reach 21%, score verification passes in as few as 42% of papers, and method-code alignment ranges from 20% to 80%. ScientistOne achieves zero hallucinated references (0/337), perfect score verification (12/12), and the highest method-code alignment (14/15), while matching or exceeding human expert performance on all five tasks. ScientistOne further generalizes to six additional tasks spanning medical imaging, fine-grained recognition, 3D perception, and language modeling, achieving state-of-the-art on Parameter Golf and gold medals on MLE-Bench tasks where baselines fail entirely.

We show that autoregressive decoding of a transformer-based language model can realize universal computation, without external intervention or modification of the model's weights. Establishing this result requires understanding how a language model can process arbitrarily long inputs using a bounded context. For this purpose, we consider a generalization of autoregressive decoding where, given a long input, emitted tokens are appended to the end of the sequence as the context window advances. We first show that the resulting system corresponds to a classical model of computation, a Lag system, that has long been known to be computationally universal. By leveraging a new proof, we show that a universal Turing machine can be simulated by a Lag system with 2027 production rules. We then investigate whether an existing large language model can simulate the behaviour of such a universal Lag system. We give an affirmative answer by showing that a single system-prompt can be developed for gemini-1.5-pro-001 that drives the model, under deterministic (greedy) decoding, to correctly apply each of the 2027 production rules. We conclude that, by the Church-Turing thesis, prompted gemini-1.5-pro-001 with extended autoregressive (greedy) decoding is a general purpose computer.