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Volume 40, Issue Supplement_2, September 2024
Proceedings of ECCB2024
Editorial
ECCB2024: The 23rd European Conference on Computational Biology
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii1–ii3, https://doi.org/10.1093/bioinformatics/btae422
Genomes
Metadata-guided feature disentanglement for functional genomics
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii4–ii10, https://doi.org/10.1093/bioinformatics/btae403
GGTyper: genotyping complex structural variants using short-read sequencing data
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii11–ii19, https://doi.org/10.1093/bioinformatics/btae391
Polyphest: fast polyploid phylogeny estimation
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii20–ii28, https://doi.org/10.1093/bioinformatics/btae390
Scalable CNN-based classification of selective sweeps using derived allele frequencies
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii29–ii36, https://doi.org/10.1093/bioinformatics/btae385
CIBRA identifies genomic alterations with a system-wide impact on tumor biology
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii37–ii44, https://doi.org/10.1093/bioinformatics/btae384
Proteins
Improving dictionary-based named entity recognition with deep learning
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii45–ii52, https://doi.org/10.1093/bioinformatics/btae402
GORetriever: reranking protein-description-based GO candidates by literature-driven deep information retrieval for protein function annotation
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii53–ii61, https://doi.org/10.1093/bioinformatics/btae401
CLigOpt: controllable ligand design through target-specific optimization
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii62–ii69, https://doi.org/10.1093/bioinformatics/btae396
PEPerMINT: peptide abundance imputation in mass spectrometry-based proteomics using graph neural networks
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii70–ii78, https://doi.org/10.1093/bioinformatics/btae389
learnMSA2: deep protein multiple alignments with large language and hidden Markov models
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii79–ii86, https://doi.org/10.1093/bioinformatics/btae381
Systems Biology and Multiomics
A hybrid constrained continuous optimization approach for optimal causal discovery from biological data
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii87–ii97, https://doi.org/10.1093/bioinformatics/btae411
HCS—hierarchical algorithm for simulation of omics datasets
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii98–ii104, https://doi.org/10.1093/bioinformatics/btae392
Multi-modal contrastive learning of subcellular organization using DICE
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii105–ii110, https://doi.org/10.1093/bioinformatics/btae387
Predicting spatially resolved gene expression via tissue morphology using adaptive spatial GNNs
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii111–ii119, https://doi.org/10.1093/bioinformatics/btae383
Single-cell Omics
A physics-informed neural SDE network for learning cellular dynamics from time-series scRNA-seq data
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii120–ii127, https://doi.org/10.1093/bioinformatics/btae400
Learning meaningful representation of single-neuron morphology via large-scale pre-training
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii128–ii136, https://doi.org/10.1093/bioinformatics/btae395
Graspot: a graph attention network for spatial transcriptomics data integration with optimal transport
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii137–ii145, https://doi.org/10.1093/bioinformatics/btae394
scNODE: generative model for temporal single cell transcriptomic data prediction
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii146–ii154, https://doi.org/10.1093/bioinformatics/btae393
Microbiomes and Planetary Health
skandiver: a divergence-based analysis tool for identifying intercellular mobile genetic elements
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii155–ii164, https://doi.org/10.1093/bioinformatics/btae398
Metagenomic functional profiling: to sketch or not to sketch?
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii165–ii173, https://doi.org/10.1093/bioinformatics/btae397
Digital Health
Ouroboros: cross-linking protein expression perturbations and cancer histology imaging with generative-predictive modeling
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii174–ii181, https://doi.org/10.1093/bioinformatics/btae399
Multi-task deep latent spaces for cancer survival and drug sensitivity prediction
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii182–ii189, https://doi.org/10.1093/bioinformatics/btae388
MolMVC: Enhancing molecular representations for drug-related tasks through multi-view contrastive learning
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii190–ii197, https://doi.org/10.1093/bioinformatics/btae386
Federated unsupervised random forest for privacy-preserving patient stratification
Bioinformatics, Volume 40, Issue Supplement_2, September 2024, Pages ii198–ii207, https://doi.org/10.1093/bioinformatics/btae382
