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Oct 5

MeSH Suggester: A Library and System for MeSH Term Suggestion for Systematic Review Boolean Query Construction

Boolean query construction is often critical for medical systematic review literature search. To create an effective Boolean query, systematic review researchers typically spend weeks coming up with effective query terms and combinations. One challenge to creating an effective systematic review Boolean query is the selection of effective MeSH Terms to include in the query. In our previous work, we created neural MeSH term suggestion methods and compared them to state-of-the-art MeSH term suggestion methods. We found neural MeSH term suggestion methods to be highly effective. In this demonstration, we build upon our previous work by creating (1) a Web-based MeSH term suggestion prototype system that allows users to obtain suggestions from a number of underlying methods and (2) a Python library that implements ours and others' MeSH term suggestion methods and that is aimed at researchers who want to further investigate, create or deploy such type of methods. We describe the architecture of the web-based system and how to use it for the MeSH term suggestion task. For the Python library, we describe how the library can be used for advancing further research and experimentation, and we validate the results of the methods contained in the library on standard datasets. Our web-based prototype system is available at http://ielab-mesh-suggest.uqcloud.net, while our Python library is at https://github.com/ielab/meshsuggestlib.

  • 3 authors
·
Dec 18, 2022

Learning with Boolean threshold functions

We develop a method for training neural networks on Boolean data in which the values at all nodes are strictly pm 1, and the resulting models are typically equivalent to networks whose nonzero weights are also pm 1. The method replaces loss minimization with a nonconvex constraint formulation. Each node implements a Boolean threshold function (BTF), and training is expressed through a divide-and-concur decomposition into two complementary constraints: one enforces local BTF consistency between inputs, weights, and output; the other imposes architectural concurrence, equating neuron outputs with downstream inputs and enforcing weight equality across training-data instantiations of the network. The reflect-reflect-relax (RRR) projection algorithm is used to reconcile these constraints. Each BTF constraint includes a lower bound on the margin. When this bound is sufficiently large, the learned representations are provably sparse and equivalent to networks composed of simple logical gates with pm 1 weights. Across a range of tasks -- including multiplier-circuit discovery, binary autoencoding, logic-network inference, and cellular automata learning -- the method achieves exact solutions or strong generalization in regimes where standard gradient-based methods struggle. These results demonstrate that projection-based constraint satisfaction provides a viable and conceptually distinct foundation for learning in discrete neural systems, with implications for interpretability and efficient inference.

  • 2 authors
·
Feb 19

Beyond Calibration: Do a Typed-Decision Model's Probabilities Obey the Probability Axioms?

Typed-decision models such as TypeSafe's Jev answer a declared yes/no or multiple-choice question about a state with a probability instead of text, and their evaluations report accuracy and calibration. Neither requires that the probabilities a model gives to logically related questions fit together item by item, which is what a system that acts on those probabilities needs. We test this property, coherence, with a battery of logically linked questions that needs no labels. For 160 items from ChaosNLI and PubMedQA, each with three mutually exclusive labels, we ask whether the label is X, whether it is not X, whether it is one of the other two labels, and which label applies. On 480 negation pairs, Jev's probabilities for "the label is X" and "the label is not X" miss summing to one by 0.064 on average (95% CI 0.055 to 0.072). Qwen3.8-27B, run from its official BF16 weights, misses by 0.293 with first-token probabilities and by 0.122 with verbalized probabilities. The gap to the first-token readout persists on pairs where both systems give similar probabilities, without double-negation labels, and after averaging Jev's repeated calls. Jev is not coherent either: its violations are about five times its repeat noise, and it over-endorses statements about single labels, so that its three single-label probabilities sum to 1.14 on average. The two systems also fail differently. Qwen3.8-27B's first-token readout under-endorses the complement of a label whether or not the question contains "not", rejecting both a statement and its negation in 196 of 480 pairs, and it does not become more coherent where it is more confident, whereas Jev's violations concentrate where its answer is uncertain. Because the checks need no labels, they expose biases that appear only when question forms are compared, and inconsistencies within items.

  • 3 authors
·
Sep 26

Describing Differences in Image Sets with Natural Language

How do two sets of images differ? Discerning set-level differences is crucial for understanding model behaviors and analyzing datasets, yet manually sifting through thousands of images is impractical. To aid in this discovery process, we explore the task of automatically describing the differences between two sets of images, which we term Set Difference Captioning. This task takes in image sets D_A and D_B, and outputs a description that is more often true on D_A than D_B. We outline a two-stage approach that first proposes candidate difference descriptions from image sets and then re-ranks the candidates by checking how well they can differentiate the two sets. We introduce VisDiff, which first captions the images and prompts a language model to propose candidate descriptions, then re-ranks these descriptions using CLIP. To evaluate VisDiff, we collect VisDiffBench, a dataset with 187 paired image sets with ground truth difference descriptions. We apply VisDiff to various domains, such as comparing datasets (e.g., ImageNet vs. ImageNetV2), comparing classification models (e.g., zero-shot CLIP vs. supervised ResNet), summarizing model failure modes (supervised ResNet), characterizing differences between generative models (e.g., StableDiffusionV1 and V2), and discovering what makes images memorable. Using VisDiff, we are able to find interesting and previously unknown differences in datasets and models, demonstrating its utility in revealing nuanced insights.

  • 8 authors
·
Dec 5, 2023

MeSH Term Suggestion for Systematic Review Literature Search

High-quality medical systematic reviews require comprehensive literature searches to ensure the recommendations and outcomes are sufficiently reliable. Indeed, searching for relevant medical literature is a key phase in constructing systematic reviews and often involves domain (medical researchers) and search (information specialists) experts in developing the search queries. Queries in this context are highly complex, based on Boolean logic, include free-text terms and index terms from standardised terminologies (e.g., MeSH), and are difficult and time-consuming to build. The use of MeSH terms, in particular, has been shown to improve the quality of the search results. However, identifying the correct MeSH terms to include in a query is difficult: information experts are often unfamiliar with the MeSH database and unsure about the appropriateness of MeSH terms for a query. Naturally, the full value of the MeSH terminology is often not fully exploited. This paper investigates methods to suggest MeSH terms based on an initial Boolean query that includes only free-text terms. These methods promise to automatically identify highly effective MeSH terms for inclusion in a systematic review query. Our study contributes an empirical evaluation of several MeSH term suggestion methods. We perform an extensive analysis of the retrieval, ranking, and refinement of MeSH term suggestions for each method and how these suggestions impact the effectiveness of Boolean queries.

  • 5 authors
·
Dec 1, 2021

Examining False Positives under Inference Scaling for Mathematical Reasoning

Recent advancements in language models have led to significant improvements in mathematical reasoning across various benchmarks. However, most of these benchmarks rely on automatic evaluation methods that only compare final answers using heuristics, without verifying the underlying reasoning steps. This limitation results in false positive solutions, where models may produce correct final answers but with flawed deduction paths. In this paper, we systematically examine the prevalence of false positive solutions in mathematical problem solving for language models. We analyze the characteristics and extent of this issue across different open-source models, datasets of varying difficulty levels, and decoding strategies. Specifically, we explore how false positives influence the inference time scaling behavior of language models. Our experimental results reveal that: (1) false positive solutions persist across different models, datasets, and decoding methods, (2) sampling-based inference time scaling methods do not alleviate the problem, and (3) the pass@N evaluation metric is more susceptible to false positives, suggesting a significantly lower scaling ceiling than what automatic evaluations indicate. Additionally, we analyze specific instances of false positives and discuss potential limitations in self-improvement techniques and synthetic data generation under such conditions. Our data and code are publicly available at https://github.com/Wloner0809/False-Positives-in-Math.

  • 5 authors
·
Feb 10, 2025

AutoBool: An Reinforcement-Learning trained LLM for Effective Automated Boolean Query Generation for Systematic Reviews

We present AutoBool, a reinforcement learning (RL) framework that trains large language models (LLMs) to generate effective Boolean queries for medical systematic reviews. Boolean queries are the primary mechanism for literature retrieval in this domain and must achieve high recall while maintaining reasonable precision - a challenging balance that existing prompt-based LLM approaches often struggle to achieve. A major limitation in this space is the lack of high-quality ground-truth Boolean queries for each topic, which makes supervised fine-tuning impractical. AutoBool addresses this challenge by using RL to directly optimize query generation with retrieval measures, without requiring target queries. To support this effort, we create and release the largest dataset of its kind: 65588 topics in total for training and evaluating the task of automatic Boolean query formulation. Experiments on our new dataset and two established datasets (CLEF TAR and Seed Collection) show that AutoBool significantly outperforms zero shot/few shot prompting and matches or exceeds the effectiveness of much larger GPT-based models (e.g., GPT-4o, O3) using smaller backbones. It also approaches effectiveness of expert-authored queries while retrieving 10 to 16 times fewer documents. Ablation studies reveal the critical roles of model backbone, size, decoding temperature, and prompt design. Code and data are available at https://github.com/ielab/AutoBool.

  • 4 authors
·
Nov 20, 2025

Rethinking Negative Pairs in Code Search

Recently, contrastive learning has become a key component in fine-tuning code search models for software development efficiency and effectiveness. It pulls together positive code snippets while pushing negative samples away given search queries. Among contrastive learning, InfoNCE is the most widely used loss function due to its better performance. However, the following problems in negative samples of InfoNCE may deteriorate its representation learning: 1) The existence of false negative samples in large code corpora due to duplications. 2). The failure to explicitly differentiate between the potential relevance of negative samples. As an example, a bubble sorting algorithm example is less ``negative'' than a file saving function for the quick sorting algorithm query. In this paper, we tackle the above problems by proposing a simple yet effective Soft-InfoNCE loss that inserts weight terms into InfoNCE. In our proposed loss function, we apply three methods to estimate the weights of negative pairs and show that the vanilla InfoNCE loss is a special case of Soft-InfoNCE. Theoretically, we analyze the effects of Soft-InfoNCE on controlling the distribution of learnt code representations and on deducing a more precise mutual information estimation. We furthermore discuss the superiority of proposed loss functions with other design alternatives. Extensive experiments demonstrate the effectiveness of Soft-InfoNCE and weights estimation methods under state-of-the-art code search models on a large-scale public dataset consisting of six programming languages. Source code is available at https://github.com/Alex-HaochenLi/Soft-InfoNCE.

  • 4 authors
·
Oct 12, 2023

Prior Audit-Repair Context Shifts LLM Verifier Thresholds Toward Leniency

Automated checking pipelines increasingly place one language model as the checker and another (or the same one) as the fixer. We ask whether that wiring changes what the checker reports. Measuring false alarms on human-verified-correct ProcessBench traces with the present task held byte-identical, we find that a completed audit -> repair episode already in the model's context lowers false alarms in 15 of 15 model x wording combinations, by 2.8 to 11.5 percentage points against a length-matched non-audit control, a 9 to 25% reduction relative to that control. The direction contradicts what the accumulated-message literature predicts: an episode whose audit reported an error lowers false alarms further still, at all five wordings on the model where that manipulation lands cleanly, though a negativity asymmetry predicts more flagging. Decomposing the episode finds repair content and audit verdict complementary: different components carry the effect on different model families. Signal-detection analysis locates the change in the threshold rather than in discrimination -- the criterion moves in 15 of 15 combinations and survives correction in 13 while d' survives in none, though the d' test is half as sensitive by construction -- and a hand audit of 50 false alarms finds 82% simply wrong, so at this operating point the shift need not be harmful. With reasoning enabled the effect keeps its relative size on both models tested, and the threshold reading holds there too.

  • 2 authors
·
Aug 16 2

Do System One Decisions Add Up? A Study of Probabilistic Coherence

A decision model can give probabilities that sum to one for every question yet disagree with itself when the same decision is broken into smaller steps. We study this form of probabilistic coherence in Jev and the English Laya checkpoint, using 2,500 matched examples per system across TREC, CLINC150, and MASSIVE. Across 72,000 classification questions, we compare direct fine-label predictions with broad-category probabilities and predictions reconstructed through those categories. Both systems show substantial disagreement: mean category-level total variation ranges from 0.219 to 0.349 for Jev and from 0.424 to 0.689 for Laya, on a scale where zero means exact agreement. The consequences differ sharply. On CLINC150, reconstruction reduces Jev's accuracy by 22.9 percentage points (paired 95% bootstrap interval: [-24.9, -20.9]) and improves Laya's by 21.3 points ([18.0, 24.5]). The same directions hold across all three datasets, with all six unadjusted accuracy-change intervals excluding zero. Improved accuracy can also accompany less reliable confidence: on MASSIVE, Laya gains 9.2 accuracy points while its expected calibration error rises from 0.046 to 0.124. Error analysis identifies both broad-category mistakes and within-category confusions. These findings show why decision systems need joint evaluation of accuracy, confidence calibration, and probability coherence in the workflow used by an application.

  • 1 authors
·
Sep 26

Community corrections have divergent downstream effects across corrected accounts

Community-based fact-checking can reduce the spread of annotated misleading posts, but whether it produces lasting behavioral change among corrected authors remains unclear. Here, we conduct a large-scale quasi-experimental study of the Community Notes system on X (formerly Twitter), tracking four weeks of activity before and after note display for 19,854 accounts and 57,935 corrections (noted posts and matched controls), covering 11,909,591 original posts. Difference-in-Differences estimates show that note display is followed by an average 2.9% increase in corrected accounts' original-post activity. This aggregate conceals two divergent trajectories. Accounts corrected only once reduce their activity by 2.4% and subsequently publish less toxic and less misleading content. Repeatedly corrected accounts, which constitute 28.6% of corrected accounts but produce 73.4% of fact-checked posts, instead increase their activity by 4.4% after their first correction and show no detectable response to later ones. They exhibit no comparable content improvement, and instead publish more highly misleading posts, cite lower-quality domains, and post more political content. Community notes can thus constrain individual misleading posts without durably improving the behavior of the accounts most responsible for them, indicating that correcting content and changing its producers are distinct objectives for platform design.

  • 5 authors
·
Aug 26

Stochastic Function Certification with Correlations

We study the Stochastic Boolean Function Certification (SBFC) problem, where we are given n Bernoulli random variables {X_e: e in U} on a ground set U of n elements with joint distribution p, a Boolean function f: 2^U to {0, 1}, and an (unknown) scenario S = {e in U: X_e = 1} of active elements sampled from p. We seek to probe the elements one-at-a-time to reveal if they are active until we can certify f(S) = 1, while minimizing the expected number of probes. Unlike most previous results that assume independence, we study correlated distributions p and give approximation algorithms for several classes of functions f. When f(S) is the indicator function for whether S is the spanning set of a given matroid, our problem reduces to finding a basis of active elements of a matroid by probing elements. We give a non-adaptive O(log n)-approximation algorithm for arbitrary distributions p, and show that this is tight up to constants unless P = NP, even for partition matroids. For uniform matroids, we give constant factor 4.642-approximation ([BBFT20]) that can be further improved to a 2-approximation if additionally the random variables are negatively correlated for the case of 1-uniform matroid. We also give an adaptive O(log k)-approximation algorithm for SBFC for k-uniform matroids for the Graph Probing problem, where we seek to probe the edges of a graph one-at-a-time until we find k active edges. The underlying distribution on edges arises from (hidden) independent vertex random variables, with an edge being active if at least one of its endpoints is active. This significantly improves over the information-theoretic lower bound on Ω(poly(n)) ([JGM19]) for adaptive algorithms for k-uniform matroids with arbitrary distributions.

  • 3 authors
·
Apr 2

All elementary functions from a single binary operator

A single two-input gate suffices for all of Boolean logic in digital hardware. No comparable primitive has been known for continuous mathematics: computing elementary functions such as sin, cos, sqrt, and log has always required multiple distinct operations. Here I show that a single binary operator, eml(x,y)=exp(x)-ln(y), together with the constant 1, generates the standard repertoire of a scientific calculator. This includes constants such as e, pi, and i; arithmetic operations including addition, subtraction, multiplication, division, and exponentiation as well as the usual transcendental and algebraic functions. For example, exp(x)=eml(x,1), ln(x)=eml(1,eml(eml(1,x),1)), and likewise for all other operations. That such an operator exists was not anticipated; I found it by systematic exhaustive search and established constructively that it suffices for the concrete scientific-calculator basis. In EML (Exp-Minus-Log) form, every such expression becomes a binary tree of identical nodes, yielding a grammar as simple as S -> 1 | eml(S,S). This uniform structure also enables gradient-based symbolic regression: using EML trees as trainable circuits with standard optimizers (Adam), I demonstrate the feasibility of exact recovery of closed-form elementary functions from numerical data at shallow tree depths up to 4. The same architecture can fit arbitrary data, but when the generating law is elementary, it may recover the exact formula.

  • 1 authors
·
Apr 3

Correlation Is Not Enough: Embedding Human Metadata for Individual Causal Discovery

Ask a pretrained biomedical language model whether "cortisol 28 ug/dL" and "stock-market volatility" are related, and it returns a cosine similarity of 0.83 on a scale where 1.0 means identical. The two share no mechanism. This is not a corner case: every off-the-shelf biomedical encoder we tested (BioBERT, PubMedBERT, BioM-ELECTRA) scores unrelated cross-domain pairs between 0.76 and 0.92 when the answer should be near zero. Accuracy on cross-domain discrimination is 0%. Retrieval systems survive this, because a language model downstream filters the noise. A Large Behavioural Model (LBM), a foundation model whose subject is a person rather than a sentence, does not: it reasons over a graph of a user's life and treats embedding proximity as evidence that two events are causally linked. False proximity writes a false causal edge, and everything downstream inherits the error. Here, embedding geometry is not a tuning knob; it is correctness. We report the fix. A contrastive pass over 72,034 pairs raises PubMedBERT BIOSSES correlation from 0.633 to 0.828 and within-vs-across-domain separation from 1.05x to 1.63x. A second pass, BODHI, mines hard negatives from edges absent in a biomedical knowledge graph and lifts separation to 2.30x and the discrimination gap to +0.392, at a 4.5% BIOSSES cost. On an Intel Xeon 6737P with AMX, OpenVINO cuts single-query latency from 1367 ms to 10 ms (133x) and reaches 555 sentences/sec. One finding contradicts standard advice: FP16 beats INT8 on this silicon at every serving batch size, and we explain why. The same model on a no-AMX Ice Lake instance runs 13-27x slower. We release the benchmark suite, training corpora, the BODHI generator, and the OpenVINO scripts.

  • 3 authors
·
Jun 7

Exponential Separation between Quantum and Classical Ordered Binary Decision Diagrams, Reordering Method and Hierarchies

In this paper, we study quantum Ordered Binary Decision Diagrams(OBDD) model; it is a restricted version of read-once quantum branching programs, with respect to "width" complexity. It is known that the maximal gap between deterministic and quantum complexities is exponential. But there are few examples of functions with such a gap. We present a new technique ("reordering") for proving lower bounds and upper bounds for OBDD with an arbitrary order of input variables if we have similar bounds for the natural order. Using this transformation, we construct a total function REQ such that the deterministic OBDD complexity of it is at least 2^{Ω(n / log n)}, and the quantum OBDD complexity of it is at most O(n^2/log n). It is the biggest known gap for explicit functions not representable by OBDDs of a linear width. Another function(shifted equality function) allows us to obtain a gap 2^{Ω(n)} vs O(n^2). Moreover, we prove the bounded error quantum and probabilistic OBDD width hierarchies for complexity classes of Boolean functions. Additionally, using "reordering" method we extend a hierarchy for read-k-times Ordered Binary Decision Diagrams (k-OBDD) of polynomial width, for k = o(n / log^3 n). We prove a similar hierarchy for bounded error probabilistic k-OBDDs of polynomial, superpolynomial and subexponential width. The extended abstract of this work was presented on International Computer Science Symposium in Russia, CSR 2017, Kazan, Russia, June 8 -- 12, 2017

  • 3 authors
·
Apr 21, 2022

TACAM: Topic And Context Aware Argument Mining

In this work we address the problem of argument search. The purpose of argument search is the distillation of pro and contra arguments for requested topics from large text corpora. In previous works, the usual approach is to use a standard search engine to extract text parts which are relevant to the given topic and subsequently use an argument recognition algorithm to select arguments from them. The main challenge in the argument recognition task, which is also known as argument mining, is that often sentences containing arguments are structurally similar to purely informative sentences without any stance about the topic. In fact, they only differ semantically. Most approaches use topic or search term information only for the first search step and therefore assume that arguments can be classified independently of a topic. We argue that topic information is crucial for argument mining, since the topic defines the semantic context of an argument. Precisely, we propose different models for the classification of arguments, which take information about a topic of an argument into account. Moreover, to enrich the context of a topic and to let models understand the context of the potential argument better, we integrate information from different external sources such as Knowledge Graphs or pre-trained NLP models. Our evaluation shows that considering topic information, especially in connection with external information, provides a significant performance boost for the argument mining task.

  • 3 authors
·
May 26, 2019

Augmenting Pre-trained Language Models with QA-Memory for Open-Domain Question Answering

Retrieval augmented language models have recently become the standard for knowledge intensive tasks. Rather than relying purely on latent semantics within the parameters of large neural models, these methods enlist a semi-parametric memory to encode an index of knowledge for the model to retrieve over. Most prior work has employed text passages as the unit of knowledge, which has high coverage at the cost of interpretability, controllability, and efficiency. The opposite properties arise in other methods which have instead relied on knowledge base (KB) facts. At the same time, more recent work has demonstrated the effectiveness of storing and retrieving from an index of Q-A pairs derived from text lewis2021paq. This approach yields a high coverage knowledge representation that maintains KB-like properties due to its representations being more atomic units of information. In this work we push this line of research further by proposing a question-answer augmented encoder-decoder model and accompanying pretraining strategy. This yields an end-to-end system that not only outperforms prior QA retrieval methods on single-hop QA tasks but also enables compositional reasoning, as demonstrated by strong performance on two multi-hop QA datasets. Together, these methods improve the ability to interpret and control the model while narrowing the performance gap with passage retrieval systems.

  • 5 authors
·
Apr 9, 2022

Resources for Brewing BEIR: Reproducible Reference Models and an Official Leaderboard

BEIR is a benchmark dataset for zero-shot evaluation of information retrieval models across 18 different domain/task combinations. In recent years, we have witnessed the growing popularity of a representation learning approach to building retrieval models, typically using pretrained transformers in a supervised setting. This naturally begs the question: How effective are these models when presented with queries and documents that differ from the training data? Examples include searching in different domains (e.g., medical or legal text) and with different types of queries (e.g., keywords vs. well-formed questions). While BEIR was designed to answer these questions, our work addresses two shortcomings that prevent the benchmark from achieving its full potential: First, the sophistication of modern neural methods and the complexity of current software infrastructure create barriers to entry for newcomers. To this end, we provide reproducible reference implementations that cover the two main classes of approaches: learned dense and sparse models. Second, there does not exist a single authoritative nexus for reporting the effectiveness of different models on BEIR, which has led to difficulty in comparing different methods. To remedy this, we present an official self-service BEIR leaderboard that provides fair and consistent comparisons of retrieval models. By addressing both shortcomings, our work facilitates future explorations in a range of interesting research questions that BEIR enables.

  • 6 authors
·
Jun 12, 2023

Are "Solved Issues" in SWE-bench Really Solved Correctly? An Empirical Study

Automated issue solving aims to resolve real-world issues in software repositories. The most popular benchmarks for automated issue solving are SWE-bench and its human-filtered subset SWE-bench Verified. These benchmarks leverage testing to validate generated patches. However, because testing is rarely exhaustive, a patch may pass the tests but nevertheless fail to match the developers' expectations. Unfortunately, it is currently unclear to what extent evaluations performed with SWE-bench suffer from such plausible but incorrect patches. This paper presents an in-depth empirical study of the correctness of plausible patches generated by three state-of-the-art issue-solving tools evaluated on SWE-bench Verified. We extensively test and inspect generated patches, and compare them against human-written ground truth patches. The core of our methodology is a novel technique PatchDiff for differential patch testing, which automatically exposes behavioral discrepancies between two patches. Our findings reveal critical weaknesses in SWE-bench's patch validation mechanism, which causes 7.8% of all patches to count as correct while failing the developer-written test suite. Moreover, our novel automated technique reveals that even more (29.6%) plausible patches induce different behavior than the ground truth patches. These behavioral differences are often due to similar, but divergent implementations (46.8%) and due to generated patches that adapt more behavior than the ground truth patches (27.3%). Our manual inspection shows that 28.6% of behaviorally divergent patches are certainly incorrect. Combined, the different weaknesses lead to an inflation of reported resolution rates by 6.2 absolute percent points. Our findings are a call to arms for more robust and reliable evaluation of issue-solving tools. We envision our automated differential patch testing technique to be useful for this purpose.

  • 3 authors
·
Mar 19, 2025

NAS evaluation is frustratingly hard

Neural Architecture Search (NAS) is an exciting new field which promises to be as much as a game-changer as Convolutional Neural Networks were in 2012. Despite many great works leading to substantial improvements on a variety of tasks, comparison between different methods is still very much an open issue. While most algorithms are tested on the same datasets, there is no shared experimental protocol followed by all. As such, and due to the under-use of ablation studies, there is a lack of clarity regarding why certain methods are more effective than others. Our first contribution is a benchmark of 8 NAS methods on 5 datasets. To overcome the hurdle of comparing methods with different search spaces, we propose using a method's relative improvement over the randomly sampled average architecture, which effectively removes advantages arising from expertly engineered search spaces or training protocols. Surprisingly, we find that many NAS techniques struggle to significantly beat the average architecture baseline. We perform further experiments with the commonly used DARTS search space in order to understand the contribution of each component in the NAS pipeline. These experiments highlight that: (i) the use of tricks in the evaluation protocol has a predominant impact on the reported performance of architectures; (ii) the cell-based search space has a very narrow accuracy range, such that the seed has a considerable impact on architecture rankings; (iii) the hand-designed macro-structure (cells) is more important than the searched micro-structure (operations); and (iv) the depth-gap is a real phenomenon, evidenced by the change in rankings between 8 and 20 cell architectures. To conclude, we suggest best practices, that we hope will prove useful for the community and help mitigate current NAS pitfalls. The code used is available at https://github.com/antoyang/NAS-Benchmark.

  • 3 authors
·
Dec 28, 2019

The DeepLog Neurosymbolic Machine

We contribute a theoretical and operational framework for neurosymbolic AI called DeepLog. DeepLog introduces building blocks and primitives for neurosymbolic AI that make abstraction of commonly used representations and computational mechanisms used in neurosymbolic AI. DeepLog can represent and emulate a wide range of neurosymbolic systems. It consists of two key components. The first is the DeepLog language for specifying neurosymbolic models and inference tasks. This language consists of an annotated neural extension of grounded first-order logic, and makes abstraction of the type of logic, e.g. boolean, fuzzy or probabilistic, and whether logic is used in the architecture or in the loss function. The second DeepLog component is situated at the computational level and uses extended algebraic circuits as computational graphs. Together these two components are to be considered as a neurosymbolic abstract machine, with the DeepLog language as the intermediate level of abstraction and the circuits level as the computational one. DeepLog is implemented in software, relies on the latest insights in implementing algebraic circuits on GPUs, and is declarative in that it is easy to obtain different neurosymbolic models by making different choices for the underlying algebraic structures and logics. The generality and efficiency of the DeepLog neurosymbolic machine is demonstrated through an experimental comparison between 1) different fuzzy and probabilistic logics, 2) between using logic in the architecture or in the loss function, and 3) between a standalone CPU-based implementation of a neurosymbolic AI system and a DeepLog GPU-based one.

  • 7 authors
·
Aug 19, 2025

BIRDNet: Mining and Encoding Boolean Implication Knowledge Graphs as Interpretable Deep Neural Networks

Tabular data in knowledge-rich domains often carries a latent prior in the form of Boolean implication relationships (BIRs) between pairs of features. We mine such relationships with a sparse-exception binomial test. The mined implications form a typed directed graph, equivalent to a propositional rule base of 2-literal clauses. We encode this graph as the connectivity of a layered neural network, called BIRDNet, in which each hidden unit corresponds to one mined rule and binds only to its two features. We show two consequences of this design: First, the architecture is sparse by construction: at most 2/d of the weights in each BIR layer are active, where d is the input dimension. Second, the model is interpretable: every trained unit keeps a stable symbolic identity, so rules can be read off the network without surrogate models. Unlike most neurosymbolic models, BIRDNet does not consume an external rule base; its structural prior is mined from the data. We evaluate BIRDNet on six transcriptomic and proteomic benchmarks. Our results show that BIRDNet stays within 0.02 AUROC of the strongest dense baseline, at a small accuracy cost, while using up to 96times fewer active parameters than an architecture-matched dense MLP. First-layer rules recover known biological signatures across multiple cancer subtypes and tissue types, including canonical amplicons, lineage-defining co-expression modules, and immune-infiltration markers. Data and code are available at: https://github.com/MAHI-Group/BIRDNet.

  • 1 authors
·
May 27

Who Drifted: the System or the Judge? Anytime-Valid Attribution in LLM Evaluation Pipelines

Continuous evaluation of LLM products relies on a strong LLM judge treated as ground truth: a cheap monitor scores every interaction and a team is paged when the score drifts down. But the judge is itself a model behind an API, and a silent version bump or scoring-prompt update changes how it scores -- so every drift alarm is ambiguous between a worse product and a changed judge. We resolve the ambiguity with a fixed, human-labeled anchor set that the current judge re-scores at a steady interleave, a second betting e-process on the judge-versus-human gap, and a guard-window rule returning a verdict in {none, system, judge}. We prove anytime-validity, one-way identification (only the judge can move the anchors), an attribution race whose design law is that the anchors must out-run the main process they guard, and process orthogonality. On two real judge changes, a silent version bump is detected as judge drift in 60/60 runs with zero judge-to-system misattribution, and a contaminating strict-prompt change is correctly attributed on 110 of 120 runs at guard width 300 -- while the industry-default rolling z-test false-alarms on 75% of drift-free streams. Every experiment replicates on a second domain (TL;DR summarization) with nothing re-tuned, and where the domains differ the differences are the ones the race predicts: the strict-prompt change shifts scores harder there, so the anchors fire faster and attribution becomes perfect (240/240). The monitor runs at approximately 0.64 of the cost of strong-judging every item, or 0.21 in a cheaper-but-deafer regime.

  • 1 authors
·
Jun 12

Counterfactuals for Design: A Model-Agnostic Method For Design Recommendations

We introduce Multi-Objective Counterfactuals for Design (MCD), a novel method for counterfactual optimization in design problems. Counterfactuals are hypothetical situations that can lead to a different decision or choice. In this paper, the authors frame the counterfactual search problem as a design recommendation tool that can help identify modifications to a design, leading to better functional performance. MCD improves upon existing counterfactual search methods by supporting multi-objective queries, which are crucial in design problems, and by decoupling the counterfactual search and sampling processes, thus enhancing efficiency and facilitating objective tradeoff visualization. The paper demonstrates MCD's core functionality using a two-dimensional test case, followed by three case studies of bicycle design that showcase MCD's effectiveness in real-world design problems. In the first case study, MCD excels at recommending modifications to query designs that can significantly enhance functional performance, such as weight savings and improvements to the structural safety factor. The second case study demonstrates that MCD can work with a pre-trained language model to suggest design changes based on a subjective text prompt effectively. Lastly, the authors task MCD with increasing a query design's similarity to a target image and text prompt while simultaneously reducing weight and improving structural performance, demonstrating MCD's performance on a complex multimodal query. Overall, MCD has the potential to provide valuable recommendations for practitioners and design automation researchers looking for answers to their ``What if'' questions by exploring hypothetical design modifications and their impact on multiple design objectives. The code, test problems, and datasets used in the paper are available to the public at decode.mit.edu/projects/counterfactuals/.

  • 3 authors
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May 18, 2023

Jev thinks "I don't know'', but doesn't say it: Introducing Sys1Cal-v1 Dataset for Probability Calibration

The appearance of Jev marked the era of System One Models, foundation models that return structured decisions with probability distributions rather than text. Aside from low cost and great speed, Jev's central promise is that these probabilities are calibrated: such claim is not backed by any public test and available external benchmarks evaluate confidence calibration, not whether every returned option probability has the right numerical meaning. To tackle this issue, we introduce Sys1Cal-v1, a dataset of True/False questions about a proposition A for which the exact probability P(A) is known by construction. Each item is queried through the three Jev primitives - Noul, Choice and Score - and evaluated by total variation distance from the ground-truth distribution, which can be used to estimate a soft accuracy of System One Models. We showcase the utility of Sys1Cal-v1 as a benchmark dataset by evaluating Jev and SemIf, an open-source Choice-style baseline. In this work, however, we focus even more deeply on Jev, by studying the calibration of its Score and Choice answers. In particular, we discover a peculiar behaviour that can be explained by assuming that Jev suppresses a third truth value, going beyond True and False. In other words, in Choice answers, P(A) and P(neg A) are presented as if P(A)+P(neg A)=1, while a term P(U)neq0 is missing in the sum. Recovering P(U) leads to an improvement of median soft accuracy in Choice answers from 0.771 to 0.978, suggesting that, even in binary decisions, Jev wants to answer with a third option:``I don't know''.

  • 1 authors
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Sep 27 2

Mokav: Execution-driven Differential Testing with LLMs

It is essential to detect functional differences in various software engineering tasks, such as automated program repair, mutation testing, and code refactoring. The problem of detecting functional differences between two programs can be reduced to searching for a difference exposing test (DET): a test input that results in different outputs on the subject programs. In this paper, we propose Mokav, a novel execution-driven tool that leverages LLMs to generate DETs. Mokav takes two versions of a program (P and Q) and an example test input. When successful, Mokav generates a valid DET, a test input that leads to different outputs on P and Q. Mokav iteratively prompts an LLM with a specialized prompt to generate new test inputs. At each iteration, Mokav provides execution-based feedback regarding previously generated tests until the LLM produces a DET. We evaluate Mokav on 1,535 pairs of Python programs collected from the Codeforces competition platform and 32 pairs of programs from the QuixBugs dataset. Our experiments show that Mokav outperforms the state-of-the-art, Pynguin and Differential Prompting, by a large margin. Mokav can generate DETs for 81.7% (1,255/1,535) of the program pairs in our benchmark (versus 4.9% for Pynguin and 37.3% for Differential Prompting). We demonstrate that all components in our system, including the iterative and execution-driven approaches, contribute to its high effectiveness.

  • 4 authors
·
Jun 14, 2024

Excess Separability: Nuisance-Controlled Residual-Stream Probing for Benchmark Contamination Detection

Benchmark contamination is diagnosed with n-gram overlap, likelihood-based membership inference, or canary strings, and each needs something usually unavailable: the training corpus, a well-chosen test statistic, or foresight at release. A recent alternative reads it off a linear probe on internal activations. We show the natural way to do this does not work, specify one that survives measurement, then find that the correction making it work carries more variance than the null it is tested against. The protocol reports a zero-sum contrast on the depth profile of probe accuracy, recentred on a level-matched placebo baseline, tested against a label-permutation null, with the reference set twice the size of the suspect set. Each choice replaces a simpler alternative we rejected on measurement. Reporting the level of excess separability rather than its shape makes the false positive rate track the size of the analyst's own control set, 0.03 to 0.99 under a true null. Contrasting against a flat depth profile rejects a true null 0.72 of the time when surface decodability rises with depth, and loses all power when it falls. On real transformers the protocol fails a test the simulations did not pose. The recentring subtracts an estimate, and the permutation null holds it fixed. Re-estimated across split seeds on four audits of contaminated checkpoints, its standard deviation is 1.30 to 1.56 times the null's own in every arm: what is subtracted to remove a bias is more variable than what it corrects. The one nominally significant result, p = 0.0075, becomes 0.0745 once that variance is propagated, and no verdict is issued. The simulations missed this because their surface key is the covariate driving item variation; on real text it is a proxy, and degrading key quality in simulation reproduces it. We add a companion measurement and a widened null. No arm shows contamination.

  • 1 authors
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Aug 15

Evaluating Large Language Models for Code Review

Context: Code reviews are crucial for software quality. Recent AI advances have allowed large language models (LLMs) to review and fix code; now, there are tools that perform these reviews. However, their reliability and accuracy have not yet been systematically evaluated. Objective: This study compares different LLMs' performance in detecting code correctness and suggesting improvements. Method: We tested GPT4o and Gemini 2.0 Flash on 492 AI generated code blocks of varying correctness, along with 164 canonical code blocks from the HumanEval benchmark. To simulate the code review task objectively, we expected LLMs to assess code correctness and improve the code if needed. We ran experiments with different configurations and reported on the results. Results: With problem descriptions, GPT4o and Gemini 2.0 Flash correctly classified code correctness 68.50% and 63.89% of the time, respectively, and corrected the code 67.83% and 54.26% of the time for the 492 code blocks of varying correctness. Without problem descriptions, performance declined. The results for the 164 canonical code blocks differed, suggesting that performance depends on the type of code. Conclusion: LLM code reviews can help suggest improvements and assess correctness, but there is a risk of faulty outputs. We propose a process that involves humans, called the "Human in the loop LLM Code Review" to promote knowledge sharing while mitigating the risk of faulty outputs.

  • 4 authors
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May 26, 2025

Learning and Unlearning of Fabricated Knowledge in Language Models

What happens when a new piece of knowledge is introduced into the training data and how long does it last while a large language model (LM) continues to train? We investigate this question by injecting facts into LMs from a new probing dataset, "Outlandish", which is designed to permit the testing of a spectrum of different fact types. When studying how robust these memories are, there appears to be a sweet spot in the spectrum of fact novelty between consistency with world knowledge and total randomness, where the injected memory is the most enduring. Specifically we show that facts that conflict with common knowledge are remembered for tens of thousands of training steps, while prompts not conflicting with common knowledge (mundane), as well as scrambled prompts (randomly jumbled) are both forgotten much more rapidly. Further, knowledge-conflicting facts can "prime'' how the language model hallucinates on logically unrelated prompts, showing their propensity for non-target generalization, while both mundane and randomly jumbled facts prime significantly less. Finally, we show that impacts of knowledge-conflicting facts in LMs, though they can be long lasting, can be largely erased by novel application of multi-step sparse updates, even while the training ability of the model is preserved. As such, this very simple procedure has direct implications for mitigating the effects of data poisoning in training.

  • 5 authors
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Oct 28, 2024

Improve Machine Learning carbon footprint using Nvidia GPU and Mixed Precision training for classification models -- Part I

This is the 1st part of the dissertation for my master degree and compares the power consumption using the default floating point (32bit) and Nvidia mixed precision (16bit and 32bit) while training a classification ML model. A custom PC with specific hardware was built to perform the experiments, and different ML hyper-parameters, such as batch size, neurons, and epochs, were chosen to build Deep Neural Networks (DNN). Additionally, various software was used during the experiments to collect the power consumption data in Watts from the Graphics Processing Unit (GPU), Central Processing Unit (CPU), Random Access Memory (RAM) and manually from a wattmeter connected to the wall. A benchmarking test with default hyper parameter values for the DNN was used as a reference, while the experiments used a combination of different settings. The results were recorded in Excel, and descriptive statistics were chosen to calculate the mean between the groups and compare them using graphs and tables. The outcome was positive when using mixed precision combined with specific hyper-parameters. Compared to the benchmarking, the optimisation for the classification reduced the power consumption between 7 and 11 Watts. Similarly, the carbon footprint is reduced because the calculation uses the same power consumption data. Still, a consideration is required when configuring hyper-parameters because it can negatively affect hardware performance. However, this research required inferential statistics, specifically ANOVA and T-test, to compare the relationship between the means. Furthermore, tests indicated no statistical significance of the relationship between the benchmarking and experiments. However, a more extensive implementation with a cluster of GPUs can increase the sample size significantly, as it is an essential factor and can change the outcome of the statistical analysis.

  • 1 authors
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Sep 12, 2024

Weak-to-Strong On-Policy Distillation

On-policy distillation (OPD), which aligns a student with the teacher's token-level distribution on the student's own rollouts, is an effective paradigm for transferring capabilities across LLMs. Prevailing approaches assume a teacher at least as capable as the student: they either distill a larger model into a smaller one, which fails at the frontier where no larger teacher exists, or consolidate multiple domain experts trained from a shared base, which requires costly training at the student's scale. We introduce Weak-to-Strong On-Policy Distillation (W2S-OPD), a simple yet effective OPD framework that improves the strong student by distilling from multiple weak models. W2S-OPD constructs a proxy teacher in logit space from a contrast pair of a positive and a negative model, both smaller than the student and cheap to obtain. Their logit difference isolates the capability direction, which is added to the student's own base model, yielding a proxy teacher that couples this direction while staying distributionally adjacent to the student. The student then distills it by minimizing the per-token reverse KL on its own rollouts. We instantiate the contrast pair as i) a post-RL expert against its pre-RL initialization, isolating the skill RL instills, ii) a larger against a smaller base model, isolating the capability from scale, and iii) a small base model with correct versus wrong hints, isolating the instance-level direction toward the solution. Across four math and three code benchmarks, W2S-OPD outperforms OPD, enables the student to surpass the domain teacher, and keeps improving the student even when every supervision source is weaker. Analysis shows different contrasts yield distinct signals: the post-RL and hint contrasts emphasize reasoning frameworks, while the scale contrast emphasizes the solving procedure. Our code will be available at https://github.com/Yu-Fangxu/W2S-OPD.

s2n-bignum-bench: A practical benchmark for evaluating low-level code reasoning of LLMs

Neurosymbolic approaches leveraging Large Language Models (LLMs) with formal methods have recently achieved strong results on mathematics-oriented theorem-proving benchmarks. However, success on competition-style mathematics does not by itself demonstrate the ability to construct proofs about real-world implementations. We address this gap with a benchmark derived from an industrial cryptographic library whose assembly routines are already verified in HOL Light. s2n-bignum is a library used at AWS for providing fast assembly routines for cryptography, and its correctness is established by formal verification. The task of formally verifying this library has been a significant achievement for the Automated Reasoning Group. It involved two tasks: (1) precisely specifying the correct behavior of a program as a mathematical proposition, and (2) proving that the proposition is correct. In the case of s2n-bignum, both tasks were carried out by human experts. In s2n-bignum-bench, we provide the formal specification and ask the LLM to generate a proof script that is accepted by HOL Light within a fixed proof-check timeout. To our knowledge, s2n-bignum-bench is the first public benchmark focused on machine-checkable proof synthesis for industrial low-level cryptographic assembly routines in HOL Light. This benchmark provides a challenging and practically relevant testbed for evaluating LLM-based theorem proving beyond competition mathematics. The code to set up and use the benchmark is available here: https://github.com/kings-crown/s2n-bignum-bench{s2n-bignum-bench}.

  • 5 authors
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Mar 15 2

Off-Target Effects of Response-Style Alignment in a Korean 27B Language Model

We post-train Qwen3.8-27B for Korean response style -- verbosity, list and markdown usage, discourse structure and register -- and measure two behaviours the objective never targets: abstention on ambiguous social questions in KoBBQ, where the benchmark-correct answer is UNKNOWN, and unprompted disclosure in securities guidance. Both move, and the changes are expressed primarily through the model's emission policy: how often it answers and how much it says. Matched target-form controls show that answer propensity depends on the training target, not the prompt set or recipe alone. Holding prompts, recipe, data volume and serving fixed and changing only the target text, three style seeds give positive answer-rate point estimates (mean +0.82 pp) and three neutral seeds negative ones (mean -1.53 pp); the observed seed ranges do not overlap and the means differ by 2.34 pp. A length-matched arm lies between them, and a fourth arm that stays short while preserving hedging is unstable across seeds, so which feature of the form is responsible is unresolved. For absolute stereotyped exposure the decomposition into an answer-propensity term and a conditional-composition term is an algebraic identity, not a finding; its empirical content is where the movement went. Across the trained checkpoints the changes are dominated by answer propensity while the composition term stays small, and because that term is evaluated on treatment-dependent answered subsets we do not read it as evidence about latent preference. Two measurement results follow. A between-arm contrast in conditional stereotyped share does not identify a change in conditional content preference when answer status is treatment-dependent. And agreement between two rule detectors for the same construct runs from 0.44 to 0.99 depending on which checkpoint produced the text -- observable without any reference labels.

  • 1 authors
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Sep 9

FLAG: Finding Line Anomalies (in code) with Generative AI

Code contains security and functional bugs. The process of identifying and localizing them is difficult and relies on human labor. In this work, we present a novel approach (FLAG) to assist human debuggers. FLAG is based on the lexical capabilities of generative AI, specifically, Large Language Models (LLMs). Here, we input a code file then extract and regenerate each line within that file for self-comparison. By comparing the original code with an LLM-generated alternative, we can flag notable differences as anomalies for further inspection, with features such as distance from comments and LLM confidence also aiding this classification. This reduces the inspection search space for the designer. Unlike other automated approaches in this area, FLAG is language-agnostic, can work on incomplete (and even non-compiling) code and requires no creation of security properties, functional tests or definition of rules. In this work, we explore the features that help LLMs in this classification and evaluate the performance of FLAG on known bugs. We use 121 benchmarks across C, Python and Verilog; with each benchmark containing a known security or functional weakness. We conduct the experiments using two state of the art LLMs in OpenAI's code-davinci-002 and gpt-3.5-turbo, but our approach may be used by other models. FLAG can identify 101 of the defects and helps reduce the search space to 12-17% of source code.

  • 4 authors
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Jun 21, 2023

Thought-Path Contrastive Learning via Premise-Oriented Data Augmentation for Logical Reading Comprehension

Logical reading comprehension is a challenging task that entails grasping the underlying semantics of text and applying reasoning to deduce the correct answer. Prior researches have primarily focused on enhancing logical reasoning capabilities through Chain-of-Thought (CoT) or data augmentation. However, previous work constructing chain-of-thought rationales concentrates solely on analyzing correct options, neglecting the incorrect alternatives. Addtionally, earlier efforts on data augmentation by altering contexts rely on rule-based methods, which result in generated contexts that lack diversity and coherence. To address these issues, we propose a Premise-Oriented Data Augmentation (PODA) framework. This framework can generate CoT rationales including analyses for both correct and incorrect options, while constructing diverse and high-quality counterfactual contexts from incorrect candidate options. We integrate summarizing premises and identifying premises for each option into rationales. Subsequently, we employ multi-step prompts with identified premises to construct counterfactual context. To facilitate the model's capabilities to better differentiate the reasoning process associated with each option, we introduce a novel thought-path contrastive learning method that compares reasoning paths between the original and counterfactual samples. Experimental results on three representative LLMs demonstrate that our method can improve the baselines substantially across two challenging logical reasoning benchmarks (ReClor and LogiQA 2.0). The data and code are released at https://github.com/lalalamdbf/TPReasoner.

  • 3 authors
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Sep 22, 2024