Bioinformatics

PromptBio-Bench: Benchmarking LLM-based Bioinformatics Agents for End-to-End Data Analysis

PromptBio-Bench: Benchmarking LLM-based Bioinf...

Bioinformatics
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librarian
6 views
Open-Rosalind: Tool-First Biomedical LLM Agents with Process-Aware Benchmarking

Open-Rosalind: Tool-First Biomedical LLM Agent...

Bioinformatics
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librarian
4 views
vartracker: an end-to-end tool for pathogen longitudinal variant analysis and visualisation

vartracker: an end-to-end tool for pathogen lo...

Bioinformatics
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librarian
4 views
BART-spatial unravels biologically significant transcriptional regulators from spatial omics data

BART-spatial unravels biologically significant...

Bioinformatics
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librarian
4 views
RAPID: an interactive R/Shiny platform for end-to-end 16S rRNA and ITS amplicon sequence analysis using DADA2

RAPID: an interactive R/Shiny platform for end...

Bioinformatics
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librarian
4 views
TopoFuseNet: Hierarchical Graph Representation Learning with Multi-Scale Topological Features for Accurate Drug Synergy Prediction

TopoFuseNet: Hierarchical Graph Representation...

Bioinformatics
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librarian
5 views
Efficient Stochastic Trace Generation for Transcription

Efficient Stochastic Trace Generation for Tran...

Bioinformatics
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Arman Ferdowsi
7 views
Allosteric Protein Chemical Shift Perturbations are Ubiquitous

Allosteric Protein Chemical Shift Perturbation...

Bioinformatics
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librarian
5 views
Denoised MDS-UPDRS Part-III Scores Yield New Patterns of Progression Heterogeneity in Early Stage Parkinson's Disease

Denoised MDS-UPDRS Part-III Scores Yield New P...

Bioinformatics
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Jonathan Koss
4 views
QuadStack: Specialized convolutional blocks enable in vivo BG4-binding motif prediction and highlight discrepancies with in vitro G-quadruplexes.

QuadStack: Specialized convolutional blocks en...

Bioinformatics
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librarian
5 views
PHYFUM: Phylogenetic Reconstruction of Normal and Pre-malignant Tissue Evolution Using Fluctuating Methylation

PHYFUM: Phylogenetic Reconstruction of Normal ...

Bioinformatics
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librarian
8 views
Beyond Pathway Boundaries: A Degree-Aware Network Clustering Test for Gene Sets

Beyond Pathway Boundaries: A Degree-Aware Netw...

Bioinformatics
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Huaiyu Mi
9 views
ORBIT: Orthogonal Rotation for Biological Inter-species Transfer

ORBIT: Orthogonal Rotation for Biological Inte...

Bioinformatics
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librarian
10 views
Bridging genomes and peptidomes: hybrid sequencing reveals conserved bioactive peptides in crustaceans

Bridging genomes and peptidomes: hybrid sequen...

Bioinformatics
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librarian
9 views
Striping artifact removal in VisiumHD data through nuclear counts modeling

Striping artifact removal in VisiumHD data thr...

Bioinformatics
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librarian
9 views
SLiMNet: a deep learning model to detect short linear motifs using protein large language model representations and paired inputs

SLiMNet: a deep learning model to detect short...

Bioinformatics
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Matthew McFee
10 views
BGC-QUAST: a quality assessment tool for genome mining software

BGC-QUAST: a quality assessment tool for genom...

Bioinformatics
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librarian
9 views
A lightweight codon-based DNA Transformer for Regulatory Region Identification in the Genome

A lightweight codon-based DNA Transformer for ...

Bioinformatics
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Asim Bikas Das
11 views
Solid Tumors Pan Cancer Transcriptome Tissue/Cancer specific expression groups at the Isoform-Level

Solid Tumors Pan Cancer Transcriptome Tissue/C...

Bioinformatics
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librarian
9 views
Steering Sequence Generation in Protein Language Models through Iterative Lookback Monte Carlo Sampling

Steering Sequence Generation in Protein Langua...

Bioinformatics
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librarian
9 views
A vaccine for global eradication of TB - A novel conceptual framework and design of a potent peptide-based vaccine with universal coverage through advanced computational vaccinology

A vaccine for global eradication of TB - A nov...

Bioinformatics
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Sandhya Samarasinghe
9 views
metaJAM: a Nextflow integrated metagenomic workflow for sedimentary ancient DNA

metaJAM: a Nextflow integrated metagenomic wor...

Bioinformatics
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librarian
11 views
Gene-Modulated Network Diffusion for Improved Modeling of Amyloid-β Spread in Alzheimer's Disease

Gene-Modulated Network Diffusion for Improved ...

Bioinformatics
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Frederick Xu
11 views
ProtSpace: Protein Universe in Your Browser

ProtSpace: Protein Universe in Your Browser

Bioinformatics
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librarian
12 views
geneSync: Gene Symbol Harmonization for Large-scale RNA-seq Data Integration

geneSync: Gene Symbol Harmonization for Large-...

Bioinformatics
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librarian
13 views
Confronting spurious evaluations of computational methods in small molecule mass spectrometry

Confronting spurious evaluations of computatio...

Bioinformatics
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librarian
11 views
Evaluating Reference-Independent Pipelines for the Detection of Spreading Organisms in Metagenomic Datasets

Evaluating Reference-Independent Pipelines for...

Bioinformatics
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librarian
12 views
NativeReady: an open benchmark and sequence-based triage model for native mass spectrometry suitability

NativeReady: an open benchmark and sequence-ba...

Bioinformatics
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librarian
11 views
Integrated Multi-Omics Analysis for the Identification of Disease-Associated Variations and Prognostic Biomarkers in Triple-Negative Breast Cancer (TNBC)

Integrated Multi-Omics Analysis for the Identi...

Bioinformatics
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Elamathi Natrajan
11 views
UNKAI: A protein functional identity prediction model based on ESM-C latent representations and the attention mechanism

UNKAI: A protein functional identity predictio...

Bioinformatics
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librarian
15 views
Pharmacological proximities in the GPCR family discovered using contact-informed amino-acid and binding pocket similarities

Pharmacological proximities in the GPCR family...

Bioinformatics
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librarian
14 views
Learning the Language of the Microbiome with Transformers

Learning the Language of the Microbiome with T...

Bioinformatics
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librarian
14 views
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