Daily Arxiv

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Individual utilities of life satisfaction reveal inequality aversion unrelated to political alignment

DischargeSim: A Simulation Benchmark for Educational Doctor-Patient Communication at Discharge

Moment- and Power-Spectrum-Based Gaussianity Regularization for Text-to-Image Models

Computational Concept of the Psyche (in Russian)

MachineLearningLM: Scaling Many-shot In-context Learning via Continued Pretraining

The Efficiency Frontier: Classical Shadows versus Quantum Footage

BranchGRPO: Stable and Efficient GRPO with Structured Branching in Diffusion Models

Uncertainty Quantification in Probabilistic Machine Learning Models: Theory, Methods, and Insights

CURE: Controlled Unlearning for Robust Embeddings - Mitigating Conceptual Shortcuts in Pre-Trained Language Models

Revealing Hidden Precursors to Earthquakes via a Stress-Sensitive Transformation of Seismic Noise

A.S.E: A Repository-Level Benchmark for Evaluating Security in AI-Generated Code

Subjective Behaviors and Preferences in LLM: Language of Browsing

Beyond Ten Turns: Unlocking Long-Horizon Agentic Search with Large-Scale Asynchronous RL

SGDFuse: SAM-Guided Diffusion for High-Fidelity Infrared and Visible Image Fusion

Self-Questioning Language Models

MetaExplainer: A Framework to Generate Multi-Type User-Centered Explanations for AI Systems

How Should We Meta-Learn Reinforcement Learning Algorithms?

Comprehensive Evaluation of Prototype Neural Networks

HIRAG: Hierarchical-Thought Instruction-Tuning Retrieval-Augmented Generation

CyberRAG: An Agentic RAG cyber attack classification and reporting tool

Multi-Timescale Hierarchical Reinforcement Learning for Unified Behavior and Control of Autonomous Driving

A Nonlinear Low-rank Representation Model with Convolutional Neural Network for Imputing Water Quality Data

VIDEE: Visual and Interactive Decomposition, Execution, and Evaluation of Text Analytics with Intelligent Agents

Discrete Diffusion in Large Language and Multimodal Models: A Survey

From Static to Adaptive Defense: Federated Multi-Agent Deep Reinforcement Learning-Driven Moving Target Defense Against DoS Attacks in UAV Swarm Networks

How Far Are We from Optimal Reasoning Efficiency?

Whose Name Comes Up? Auditing LLM-Based Scholar Recommendations

Stopping Criteria for Value Iteration on Concurrent Stochastic Reachability and Safety Games

Your Language Model Can Secretly Write Like Humans: Contrastive Paraphrase Attacks on LLM-Generated Text Detectors

Prior Prompt Engineering for Reinforcement Fine-Tuning

Reasoning Large Language Model Errors Arise from Hallucinating Critical Problem Features

CoT-RAG: Integrating Chain of Thought and Retrieval-Augmented Generation to Enhance Reasoning in Large Language Models

TransitReID: Transit OD Data Collection with Occlusion-Resistant Dynamic Passenger Re-Identification

TerraMind: Large-Scale Generative Multimodality for Earth Observation

Recursive Training Loops in LLMs: How training data properties modulate distribution shift in generated data?

Scaling Video-Language Models to 10K Frames via Hierarchical Differential Distillation

A decision-theoretic approach to dealing with uncertainty in quantum mechanics

VIPER: Visual Perception and Explainable Reasoning for Sequential Decision-Making

LED: LLM Enhanced Open-Vocabulary Object Detection without Human Curated Data Generation

Reangle-A-Video: 4D Video Generation as Video-to-Video Translation

To See a World in a Spark of Neuron: Disentangling Multi-task Interference for Training-free Model Merging

UAR-NVC: A Unified AutoRegressive Framework for Memory-Efficient Neural Video Compression

MPO: Boosting LLM Agents with Meta Plan Optimization

Pay Attention to Real World Perturbations! Natural Robustness Evaluation in Machine Reading Comprehension

A general language model for peptide identification

Beyond Seen Data: Improving KBQA Generalization Through Schema-Guided Logical Form Generation

CoAT: Chain-of-Associated-Thoughts Framework for Enhancing Large Language Models Reasoning

Mind the Value-Action Gap: Do LLMs Act in Alignment with Their Values?

Traffic-Rule-Compliant Trajectory Repair via Satisfiability Modulo Theories and Reachability Analysis

QR-VC: Leveraging Quantization Residuals for Linear Disentanglement in Zero-Shot Voice Conversion

Generative AI for Data Augmentation in Wireless Networks: Analysis, Applications, and Case Study

Neural-Enhanced Dynamic Range Compression Inversion: A Hybrid Approach for Restoring Audio Dynamics

The Quest for the Right Mediator: Surveying Mechanistic Interpretability Through the Lens of Causal Mediation Analysis

PriorCLIP: Visual Prior Guided Vision-Language Model for Remote Sensing Image-Text Retrieval

A Transformer approach for Electricity Price Forecasting

FedComLoc: Communication-Efficient Distributed Training of Sparse and Quantized Models

PQMass: Probabilistic Assessment of the Quality of Generative Models using Probability Mass Estimation

HiPhO: How Far Are (M)LLMs from Humans in the Latest High School Physics Olympiad Benchmark?

Towards explainable decision support using hybrid neural models for logistic terminal automation

BlendedNet: A Blended Wing Body Aircraft Dataset and Surrogate Model for Aerodynamic Predictions

That's So FETCH: Fashioning Ensemble Techniques for LLM Classification in Civil Legal Intake and Referral

Murphys Laws of AI Alignment: Why the Gap Always Wins

Adaptive Monitoring and Real-World Evaluation of Agentic AI Systems

Bridging the Gap in Ophthalmic AI: MM-Retinal-Reason Dataset and OphthaReason Model toward Dynamic Multimodal Reasoning

Understanding visual attention beehind bee-inspired UAV navigation

Working with AI: Measuring the Applicability of Generative AI to Occupations

Scaling LLM Planning: NL2FLOW for Parametric Problem Generation and Rigorous Evaluation

Context-Driven Knowledge Graph Completion with Semantic-Aware Relational Message Passing

Meta-Semantics Augmented Few-Shot Relational Learning

Perovskite-LLM: Knowledge-Enhanced Large Language Models for Perovskite Solar Cell Research

Associative Knowledge Graphs for Efficient Sequence Storage and Retrieval

Depth-Bounded Epistemic Planning

A Survey of Reinforcement Learning for Large Reasoning Models

Large Language Model Hacking: Quantifying the Hidden Risks of Using LLMs for Text Annotation

QCardEst/QCardCorr: Quantum Cardinality Estimation and Correction

Merge-of-Thought Distillation

MoVoC: Morphology-Aware Subword Construction for Geez Script Languages

Scaling Truth: The Confidence Paradox in AI Fact-Checking

PianoVAM: A Multimodal Piano Performance Dataset

An End-to-End Deep Learning Framework for Arsenicosis Diagnosis Using Mobile-Captured Skin Images

Using AI to Optimize Patient Transfer and Resource Utilization During Mass-Casualty Incidents: A Simulation Platform

AgentGym-RL: Training LLM Agents for Long-Horizon Decision Making through Multi-Turn Reinforcement Learning

Learning Turbulent Flows with Generative Models: Super-resolution, Forecasting, and Sparse Flow Reconstruction

FinZero: Launching Multi-modal Financial Time Series Forecast with Large Reasoning Model

DEQuify your force field: More efficient simulations using deep equilibrium models

X-Teaming Evolutionary M2S: Automated Discovery of Multi-turn to Single-turn Jailbreak Templates

Explainability of CNN Based Classification Models for Acoustic Signal

TANGO: Traversability-Aware Navigation with Local Metric Control for Topological Goals

A layered architecture for log analysis in complex IT systems

Reshaping the Forward-Forward Algorithm with a Similarity-Based Objective

Skeleton-based sign language recognition using a dual-stream spatio-temporal dynamic graph convolutional network

Robust Belief-State Policy Learning for Quantum Network Routing Under Decoherence and Time-Varying Conditions

Architecting Resilient LLM Agents: A Guide to Secure Plan-then-Execute Implementations

RoentMod: A Synthetic Chest X-Ray Modification Model to Identify and Correct Image Interpretation Model Shortcuts

UOPSL: Unpaired OCT Predilection Sites Learning for Fundus Image Diagnosis Augmentation

OTESGN:Optimal Transport Enhanced Syntactic-Semantic Graph Networks for Aspect-Based Sentiment Analysis

Classification of 24-hour movement behaviors from wrist-worn accelerometer data: from handcrafted features to deep learning techniques

Memorization in Large Language Models in Medicine: Prevalence, Characteristics, and Implications

Interpretability as Alignment: Making Internal Understanding a Design Principle

MESH -- Understanding Videos Like Human: Measuring Hallucinations in Large Video Models

A general language model for peptide identification

Created by

Haebom

저자

Jixiu Zhai, Zikun Wang, Tianchi Lu, Haitian Zhong, Ziyang Xu, Yuhuan Liu, Shengrui Xu, Jingwan Wang, Dan Huang

개요

PDeepPP는 다양한 펩타이드 기능 전반에 걸쳐 강력한 식별을 가능하게 하는 사전 훈련된 단백질 언어 모델과 하이브리드 변환기-합성곱 아키텍처를 통합한 통합 딥 러닝 프레임워크입니다. 광범위한 벤치마크 데이터 세트를 큐레이션하고 데이터 불균형을 해결하기 위한 전략을 구현하여 전역 및 지역 시퀀스 기능을 체계적으로 추출합니다. 차원 축소 및 비교 연구를 포함한 광범위한 분석을 통해 PDeepPP는 강력하고 해석 가능한 펩타이드 표현을 보여주며 33가지 생물학적 식별 작업 중 25가지에서 최첨단 성능을 달성합니다. 특히 항균(0.9726), 인산화 부위(0.9984) 식별에서 높은 정확도를 달성하고, 당화 부위 예측에서 99.5%의 특이도를 달성하며, 항말라리아 작업에서 위음성을 상당히 줄였습니다. 대규모 정확한 펩타이드 분석을 가능하게 함으로써 PDeepPP는 생의학 연구와 질병 치료를 위한 새로운 치료 표적 발견을 지원합니다. 모든 코드, 데이터 세트 및 사전 훈련된 모델은 GitHub(https://github.com/fondress/PDeepPP) 및 Hugging Face(https://huggingface.co/fondress/PDeppPP)를 통해 공개적으로 이용 가능합니다.

GitHub - fondress/PDeepPP

Contribute to fondress/PDeepPP development by creating an account on GitHub.

시사점, 한계점

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시사점:

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다양한 펩타이드 기능과 PTM 부위에 대한 강력하고 정확한 식별을 제공합니다.

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항균, 인산화 부위, 당화 부위 식별 등 다양한 생물학적 작업에서 최첨단 성능을 달성합니다.

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데이터 불균형 문제를 효과적으로 해결하는 전략을 제시합니다.

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생의학 연구 및 신약 개발에 기여할 수 있는 잠재력이 큽니다.

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모든 코드, 데이터 및 모델이 공개적으로 제공되어 접근성이 높습니다.

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한계점:

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33가지 작업 중 8가지 작업에서는 최첨단 성능을 달성하지 못했습니다. 향후 개선이 필요한 부분입니다.

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본 논문에서는 구체적인 한계점에 대한 언급이 부족합니다. 추가적인 분석 및 검증이 필요할 수 있습니다.

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