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0
|
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Cell-o1 : training LLMs to solve single-cell reasoning puzzles with reinforcement learning.
(academic.oup.com)
|
Fang Y
…
Lu Z
Bioinformatics
2026-05-03
|
#transcriptomics
#clustering
#modeling
#annotation
|
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0
|
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Identification of high-risk cells in single-cell spatially resolved transcriptomics data using Diagnostic Evidence GAuge of Single-cells with spatial smoothing.
(academic.oup.com)
|
Chatterjee D
…
Johnson TS
Bioinformatics
2026-05-03
|
#transcriptomics
#single-cell
#cancer
#modeling
|
|
0
|
|
Supervised fine-tuning enhances unsupervised learning from 45 million amino acids in TCR and peptide sequences.
(academic.oup.com)
|
Zhou K
…
Yao X
Bioinformatics
2026-05-03
|
#immunity
#modeling
#sequencing
#proteomics
|
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0
|
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Metappuccino: large language model-driven reconstruction of sequence read archive metadata for cancer research.
(academic.oup.com)
|
Hak F
…
Gallopin M
Bioinformatics
2026-05-03
|
#transcriptomics
#cancer
#sequencing
#metadata
#modeling
|
|
0
|
|
MS-ConTab: multi-scale contrastive learning of mutation signatures for Pan-Cancer representation and stratification.
(academic.oup.com)
|
Dou Y
…
Golrokh M
Bioinformatics
2026-05-03
|
#cancer
#mutation
#clustering
#modeling
#genomics
|
|
0
|
|
EMTscore infers divergent EMT pathways from omics data and enables rapid screening for EMT-associated gene sets.
(academic.oup.com)
|
Wen H
…
Hong T
Bioinformatics
2026-05-03
|
#transcriptomics
#emt
#cancer
#modeling
|
|
0
|
|
RAREsim2: flexible simulation of rare variant genetic data using real haplotypes.
(academic.oup.com)
|
Murphy JI
…
Hendricks AE
Bioinformatics
2026-05-03
|
#simulation
#sequencing
#genetics
#modeling
|
|
0
|
|
SCUDDO: an unsupervised clustering algorithm for single-cell Hi-C maps using diagonal diffusion operators.
(academic.oup.com)
|
Maisuradze L
…
O'Hern CS
Bioinformatics
2026-05-03
|
#clustering
#chromatin
#single-cell
#modeling
|
|
0
|
|
TSEDTA: a transformer-based neural network with SMILES transformer and ESM2 embeddings for drug-target binding affinity prediction.
(academic.oup.com)
|
Sun X
…
Jia J
Bioinformatics
2026-05-03
|
#binding
#modeling
#drug discovery
#protein
|
|
0
|
|
Learning protein representations with conformational dynamics.
(academic.oup.com)
|
Kalifa D
…
Radinsky K
Bioinformatics
2026-05-03
|
#machine learning
#structure prediction
#modeling
#folding
#protein-protein interaction
|
|
0
|
|
Molecular fingerprints are strong models for peptide function prediction.
(academic.oup.com)
|
Adamczyk J
…
Czech W
Bioinformatics
2026-05-03
|
#peptide
#modeling
#machine learning
#molecular
|
|
0
|
|
NAViFluX: a visualization‑centric platform for interactive analysis, refinement and design of genome‑scale metabolic networks.
(academic.oup.com)
|
Krishnamurthy MB
…
Subramanian A
Bioinformatics
2026-05-03
|
#metabolic modeling
#metabolism
#modeling
#visualization
|
|
0
|
|
Strategies for constructing context-specific protein-protein interaction networks.
(academic.oup.com)
|
Nie S
…
Li D
Briefings in Bioinformatics
2026-05-03
|
#proteomics
#networks
#modeling
#integration
|
|
0
|
|
DiSCO: deconvoluting spatial transcriptomics via combinatorial optimization with a foundational diffusion model.
(academic.oup.com)
|
Liu J
…
Li L
Briefings in Bioinformatics
2026-05-03
|
#transcriptomics
#deconvolution
#diffusion
#modeling
|
|
0
|
|
Learning drug synergy through environment-conditioned feature modulation.
(academic.oup.com)
|
Jin S
…
Zeng X
Bioinformatics
2026-05-03
|
#amr
#synergy
#modeling
#cancer
#prediction
|
|
0
|
|
A cross-attentive multi-task graph learning framework for chemical reaction modeling.
(academic.oup.com)
|
Astero M
…
Rousu J
Bioinformatics
2026-05-03
|
#modeling
#chemistry
#machine learning
#graphs
|
|
0
|
|
dAMN: a genome-scale neural-mechanistic hybrid model to predict bacterial growth dynamics.
(academic.oup.com)
|
Faulon JL
…
Asin-Garcia E
Bioinformatics
2026-05-03
|
#modeling
#metabolism
#machine learning
#growth dynamics
|
|
0
|
|
Refining sequence-to-expression modelling with chromatin accessibility.
(academic.oup.com)
|
Lapohos O
…
Emad A
Bioinformatics
2026-05-03
|
#modeling
#transcriptomics
#chromatin
#regulation
|
|
0
|
|
treestructure: an R package to detect population structure in phylogenetic trees.
(academic.oup.com)
|
Nascimento FF
…
Volz EM
Bioinformatics
2026-05-03
|
#phylogenomics
#modeling
#population
|
|
0
|
|
HybridGNN: a graph neural network approach for human miRNA-disease association prediction.
(academic.oup.com)
|
Ahmad B
…
Qi YC
Bioinformatics
2026-05-03
|
#microrna
#modeling
#prediction
#disease
#machine learning
|
|
0
|
|
Inferring the qualities of protein-RNA models with graph transformers.
(academic.oup.com)
|
Siciliano AJ
…
Wang Z
Bioinformatics
2026-05-03
|
#protein-rna
#modeling
#structure prediction
#machine learning
|
|
0
|
|
Much ado about nothing: modeling amino acid replacement with predicted protein structures.
(academic.oup.com)
|
Buschmann L
…
Schroeder M
Bioinformatics
2026-05-03
|
#alignment
#protein
#modeling
#evolution
|
|
0
|
|
A large-scale neutral comparison study of survival models on low-dimensional data.
(academic.oup.com)
|
Burk L
…
Sonabend R
Bioinformatics
2026-05-03
|
#modeling
#survival
#benchmark
#prediction
|
|
0
|
|
HySimODE: a hybrid stochastic-deterministic simulation framework for multiscale models of biological systems.
(academic.oup.com)
|
Zamora-Chimal CG
…
Darlington APS
Bioinformatics
2026-05-03
|
#modeling
#simulation
#stochastic
#metabolism
|