Bioinformatics

Rigidity-Aware Geometric Pretraining for Protein Design and Conformational Ensembles

Rigidity-Aware Geometric Pretraining for Prote...

Bioinformatics
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librarian
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Direct pathway enrichment prediction from histopathological whole slide images and comparison with gene expression mediated models

Direct pathway enrichment prediction from hist...

Bioinformatics
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Shandar Ahmad
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Formalized scientific methodology enables rigorous AI-conducted research across domains

Formalized scientific methodology enables rigo...

Bioinformatics
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librarian
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Deciphering the links between metabolism and health by building small-scale knowledge graphs: application to endometriosis and persistent pollutants

Deciphering the links between metabolism and h...

Bioinformatics
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Clément Frainay
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LLMsFold: Integrating Large Language Models and Biophysical Simulations for De Novo Drug Design

LLMsFold: Integrating Large Language Models an...

Bioinformatics
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librarian
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PopGenAgent: Tool-Aware, Reproducible, Report-Oriented Workflows for Population Genomics

PopGenAgent: Tool-Aware, Reproducible, Report-...

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librarian
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MetaStrainer: Accurate reconstruction of bacterial strain genotypes from short-read metagenomic samples.

MetaStrainer: Accurate reconstruction of bacte...

Bioinformatics
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librarian
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Structural Plausibility Without Binding Specificity: Limits of AI-Based Antibody-Antigen Structure Prediction Confidence Scores

Structural Plausibility Without Binding Specif...

Bioinformatics
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librarian
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Validation and analysis of 12,000 AI-driven CAR-T designs in the Bits to Binders competition

Validation and analysis of 12,000 AI-driven CA...

Bioinformatics
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librarian
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An Integrated Computational Antigen Discovery Pipeline with Hierarchical Filtering for Emerging Viral Variants

An Integrated Computational Antigen Discovery ...

Bioinformatics
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librarian
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A comprehensive benchmark of publicly available image foundation models for their usability to predict gene expression from whole slide images

A comprehensive benchmark of publicly availabl...

Bioinformatics
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librarian
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Pinc: a simple probabilistic AlphaFold interaction score

Pinc: a simple probabilistic AlphaFold interac...

Bioinformatics
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librarian
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Evaluating Few-Shot Meta-Learning using STUNT for Microbiome-Based Disease Classification

Evaluating Few-Shot Meta-Learning using STUNT ...

Bioinformatics
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librarian
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Enabling Megascale Microbiome Analysis with DartUniFrac

Enabling Megascale Microbiome Analysis with Da...

Bioinformatics
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Rob Knight
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RankMap: Rank-based reference mapping for fast and robust cell type annotation in spatial and single-cell transcriptomics

RankMap: Rank-based reference mapping for fast...

Bioinformatics
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librarian
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scUnify: A Unified Framework for Zero-shot Inference of Single-Cell Foundation Models

scUnify: A Unified Framework for Zero-shot Inf...

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librarian
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LLPSight: enhancing prediction of LLPS-driving proteins using machine learning and protein Language Models

LLPSight: enhancing prediction of LLPS-driving...

Bioinformatics
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librarian
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Improved prediction of virus-human protein-protein interactions by incorporating network topology and viral molecular mimicry

Improved prediction of virus-human protein-pro...

Bioinformatics
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librarian
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Minimum Unique Substrings as a Context-Aware k-mer Alternative for Genomic Sequence Analysis

Minimum Unique Substrings as a Context-Aware k...

Bioinformatics
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Andrews Frimpong Adu
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snputils: A High-Performance Python Library for Genetic Variation and Population Structure

snputils: A High-Performance Python Library fo...

Bioinformatics
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librarian
2 views
Large-Scale Statistical Dissection of Sequence-Derived Biochemical Features Distinguishing Soluble and Insoluble Proteins

Large-Scale Statistical Dissection of Sequence...

Bioinformatics
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librarian
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iGS: A Zero-Code Dual-Engine Graphical Software for Polygenic Trait Prediction

iGS: A Zero-Code Dual-Engine Graphical Softwar...

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Jiahao Zhang
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Characterizing and Mitigating Protocol-Dependent Gene Expression Bias in 3' and 5' Single-Cell RNA Sequencing

Characterizing and Mitigating Protocol-Depende...

Bioinformatics
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librarian
2 views
A comprehensive assessment of tandem repeat genotyping methods for Nanopore long-read genomes

A comprehensive assessment of tandem repeat ge...

Bioinformatics
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librarian
2 views
The limits of Bayesian estimates of divergence times in measurably evolving populations

The limits of Bayesian estimates of divergence...

Bioinformatics
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librarian
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selscape: A Snakemake Workflow for Investigating Genomic Landscapes of Natural Selection

selscape: A Snakemake Workflow for Investigati...

Bioinformatics
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librarian
2 views
BiGAT-Fusion: Node-Wise Gated Bidirectional Graph Attention for Drug Repurposing

BiGAT-Fusion: Node-Wise Gated Bidirectional Gr...

Bioinformatics
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Wenze Ding
13 views
scDynOmics: An Optimized Transformer Model for Representation Learning from Single-Cell Multiomics

scDynOmics: An Optimized Transformer Model for...

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Johanna Klughammer
3 views
ExoFILT: Transfer learning for robust and accelerated analysis of exocytosis single-particle tracking data

ExoFILT: Transfer learning for robust and acce...

Bioinformatics
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librarian
4 views
GTA-5: A Unified Graph Transformer Framework for Ligands and Protein Binding Sites - Part I: Constructing the PDB Pocket and Ligand Space

GTA-5: A Unified Graph Transformer Framework f...

Bioinformatics
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Bogdan Ciambur
4 views
Benchmarking niche identification via domain segmentation for spatial transcriptomics data

Benchmarking niche identification via domain s...

Bioinformatics
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Jinpu Cai
4 views
Exploring the mechanism of Panax Notoginseng in the treatment of skin wound based on network pharmacology and experimental verification

Exploring the mechanism of Panax Notoginseng i...

Bioinformatics
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librarian
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