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Volume 36, Issue Supplement_2, December 2020
ECCB2020 Proceedings
Editorial
ECCB2020: the 19th European Conference on Computational Biology
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i569–i572, https://doi.org/10.1093/bioinformatics/btaa979
Genes
Adversarial deconfounding autoencoder for learning robust gene expression embeddings
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i573–i582, https://doi.org/10.1093/bioinformatics/btaa796
DriverGroup: a novel method for identifying driver gene groups
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i583–i591, https://doi.org/10.1093/bioinformatics/btaa797
An efficient framework to identify key miRNA–mRNA regulatory modules in cancer
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i592–i600, https://doi.org/10.1093/bioinformatics/btaa798
RAINFOREST: a random forest approach to predict treatment benefit in data from (failed) clinical drug trials
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i601–i609, https://doi.org/10.1093/bioinformatics/btaa799
Conditional out-of-distribution generation for unpaired data using transfer VAE
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i610–i617, https://doi.org/10.1093/bioinformatics/btaa800
MirCure: a tool for quality control, filter and curation of microRNAs of animals and plants
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i618–i624, https://doi.org/10.1093/bioinformatics/btaa889
Genomes
A general near-exact k-mer counting method with low memory consumption enables de novo assembly of 106× human sequence data in 2.7 hours
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i625–i633, https://doi.org/10.1093/bioinformatics/btaa890
DeepSELEX: inferring DNA-binding preferences from HT-SELEX data using multi-class CNNs
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i634–i642, https://doi.org/10.1093/bioinformatics/btaa789
Joint epitope selection and spacer design for string-of-beads vaccines
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i643–i650, https://doi.org/10.1093/bioinformatics/btaa790
panRGP: a pangenome-based method to predict genomic islands and explore their diversity
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i651–i658, https://doi.org/10.1093/bioinformatics/btaa792
Graph convolutional networks for epigenetic state prediction using both sequence and 3D genome data
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i659–i667, https://doi.org/10.1093/bioinformatics/btaa793
Finding orthologous gene blocks in bacteria: the computational hardness of the problem and novel methods to address it
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i668–i674, https://doi.org/10.1093/bioinformatics/btaa794
PathFinder: Bayesian inference of clone migration histories in cancer
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i675–i683, https://doi.org/10.1093/bioinformatics/btaa795
Detecting evolutionary patterns of cancers using consensus trees
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i684–i691, https://doi.org/10.1093/bioinformatics/btaa801
svMIL: predicting the pathogenic effect of TAD boundary-disrupting somatic structural variants through multiple instance learning
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i692–i699, https://doi.org/10.1093/bioinformatics/btaa802
Exploring chromatin conformation and gene co-expression through graph embedding
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i700–i708, https://doi.org/10.1093/bioinformatics/btaa803
Proteins
CLPred: a sequence-based protein crystallization predictor using BLSTM neural network
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i709–i717, https://doi.org/10.1093/bioinformatics/btaa791
Geometricus represents protein structures as shape-mers derived from moment invariants
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i718–i725, https://doi.org/10.1093/bioinformatics/btaa839
GRaSP: a graph-based residue neighborhood strategy to predict binding sites
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i726–i734, https://doi.org/10.1093/bioinformatics/btaa805
PROBselect: accurate prediction of protein-binding residues from proteins sequences via dynamic predictor selection
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i735–i744, https://doi.org/10.1093/bioinformatics/btaa806
New mixture models for decoy-free false discovery rate estimation in mass spectrometry proteomics
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i745–i753, https://doi.org/10.1093/bioinformatics/btaa807
APOD: accurate sequence-based predictor of disordered flexible linkers
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i754–i761, https://doi.org/10.1093/bioinformatics/btaa808
Systems
A neuro-evolution approach to infer a Boolean network from time-series gene expressions
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i762–i769, https://doi.org/10.1093/bioinformatics/btaa840
Feasible-metabolic-pathway-exploration technique using chemical latent space
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i770–i778, https://doi.org/10.1093/bioinformatics/btaa809
Ensembling graph attention networks for human microbe–drug association prediction
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i779–i786, https://doi.org/10.1093/bioinformatics/btaa891
A Siamese neural network model for the prioritization of metabolic disorders by integrating real and simulated data
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i787–i794, https://doi.org/10.1093/bioinformatics/btaa841
Padhoc: a computational pipeline for pathway reconstruction on the fly
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i795–i803, https://doi.org/10.1093/bioinformatics/btaa811
Probabilistic graphlets capture biological function in probabilistic molecular networks
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i804–i812, https://doi.org/10.1093/bioinformatics/btaa812
FBA reveals guanylate kinase as a potential target for antiviral therapies against SARS-CoV-2
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i813–i821, https://doi.org/10.1093/bioinformatics/btaa813
Inferring signaling pathways with probabilistic programming
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i822–i830, https://doi.org/10.1093/bioinformatics/btaa861
Data
Dementia key gene identification with multi-layered SNP-gene-disease network
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i831–i839, https://doi.org/10.1093/bioinformatics/btaa814
Enhancing statistical power in temporal biomarker discovery through representative shapelet mining
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i840–i848, https://doi.org/10.1093/bioinformatics/btaa815
SCHNEL: scalable clustering of high dimensional single-cell data
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i849–i856, https://doi.org/10.1093/bioinformatics/btaa816
FastSK: fast sequence analysis with gapped string kernels
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i857–i865, https://doi.org/10.1093/bioinformatics/btaa817
Matrix (factorization) reloaded: flexible methods for imputing genetic interactions with cross-species and side information
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i866–i874, https://doi.org/10.1093/bioinformatics/btaa818
Batch equalization with a generative adversarial network
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i875–i883, https://doi.org/10.1093/bioinformatics/btaa819
Using a GTR+Γ substitution model for dating sequence divergence when stationarity and time-reversibility assumptions are violated
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i884–i894, https://doi.org/10.1093/bioinformatics/btaa820
Supervised learning on phylogenetically distributed data
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i895–i902, https://doi.org/10.1093/bioinformatics/btaa842
The effect of kinship in re-identification attacks against genomic data sharing beacons
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i903–i910, https://doi.org/10.1093/bioinformatics/btaa821
DeepCDR: a hybrid graph convolutional network for predicting cancer drug response
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i911–i918, https://doi.org/10.1093/bioinformatics/btaa822
SCIM: universal single-cell matching with unpaired feature sets
Bioinformatics, Volume 36, Issue Supplement_2, December 2020, Pages i919–i927, https://doi.org/10.1093/bioinformatics/btaa843
