Journal: Bioinformatics

Volume 36, Issue Supplement-2

0 -- 0Sudhir Kumar 0001, Antonia Chroni, Koichiro Tamura, Maxwell D. Sanderford, Olumide Oladeinde, Vivian Aly, Tracy Vu, Sayaka Miura. PathFinder: Bayesian inference of clone migration histories in cancer
0 -- 0Jack Lanchantin, Yanjun Qi. Graph convolutional networks for epigenetic state prediction using both sequence and 3D genome data
0 -- 0Sarah A. Christensen, Juho Kim, Nicholas Chia, Oluwasanmi Koyejo, Mohammed El-Kebir. Detecting evolutionary patterns of cancers using consensus trees
0 -- 0Joske Ubels, Tilman Schäfers, Cornelis Punt, Henk-Jan Guchelaar, Jeroen de Ridder. RAINFOREST: a random forest approach to predict treatment benefit in data from (failed) clinical drug trials
0 -- 0Yisu Peng, Shantanu Jain, Yong Fuga Li, Michal Gregus, Alexander R. Ivanov, Olga Vitek, Predrag Radivojac. New mixture models for decoy-free false discovery rate estimation in mass spectrometry proteomics
0 -- 0Fuhao Zhang, Wenbo Shi, Jian Zhang, Min Zeng, Min Li 0007, Lukasz A. Kurgan. PROBselect: accurate prediction of protein-binding residues from proteins sequences via dynamic predictor selection
0 -- 0Shohag Barman, Yung-Keun Kwon. A neuro-evolution approach to infer a Boolean network from time-series gene expressions
0 -- 0Emilio Dorigatti, Benjamin Schubert. Joint epitope selection and spacer design for string-of-beads vaccines
0 -- 0Stefan G. Stark, Joanna Ficek, Francesco Locatello, Ximena Bonilla, Stéphane Chevrier, Franziska Singer, Tumor Profiler consortium, Gunnar Rätsch, Kjong-Van Lehmann. SCIM: universal single-cell matching with unpaired feature sets
0 -- 0Tamim Abdelaal, Paul de Raadt, Boudewijn P. F. Lelieveldt, Marcel J. T. Reinders, Ahmed Mahfouz. SCHNEL: scalable clustering of high dimensional single-cell data
0 -- 0Ayse Berceste Dincer, Joseph D. Janizek, Su-In Lee. Adversarial deconfounding autoencoder for learning robust gene expression embeddings
0 -- 0Milad Mokhtaridoost, Mehmet Gönen. An efficient framework to identify key miRNA-mRNA regulatory modules in cancer
0 -- 0Gian Marco Messa, Francesco Napolitano, Sarah H. Elsea, Diego di Bernardo, Xin Gao 0001. A Siamese neural network model for the prioritization of metabolic disorders by integrating real and simulated data
0 -- 0Yahui Long, Min Wu 0008, Yong Liu 0020, Chee-Keong Kwoh 0001, Jiawei Luo 0001, Xiaoli Li 0001. Ensembling graph attention networks for human microbe-drug association prediction
0 -- 0Wesley Wei Qian, Cassandra Xia, Subhashini Venugopalan, Arunachalam Narayanaswamy, Michelle Dimon, George W. Ashdown, Jake Baum, Jian Peng 0001, D. Michael Ando. Batch equalization with a generative adversarial network
0 -- 0Sergio Doria-Belenguer, Markus K. Youssef, René Böttcher, Noël Malod-Dognin, Natasa Przulj. Probabilistic graphlets capture biological function in probabilistic molecular networks
0 -- 0Jason Fan, Xuan Cindy Li, Mark Crovella, Mark D. M. Leiserson. Matrix (factorization) reloaded: flexible methods for imputing genetic interactions with cross-species and side information
0 -- 0Kerem Ayoz, Miray Aysen, Erman Ayday, A. Ercüment Çiçek. The effect of kinship in re-identification attacks against genomic data sharing beacons
0 -- 0Qiao Liu, Zhiqiang Hu, Rui Jiang 0001, Mu Zhou. DeepCDR: a hybrid graph convolutional network for predicting cancer drug response
0 -- 0Huy N. Nguyen, Alexey Markin, Iddo Friedberg, Oliver Eulenstein. Finding orthologous gene blocks in bacteria: the computational hardness of the problem and novel methods to address it
0 -- 0Janani Durairaj, Mehmet Akdel, Dick de Ridder, Aalt D. J. van Dijk. Geometricus represents protein structures as shape-mers derived from moment invariants
0 -- 0David Merrell, Anthony Gitter. Inferring signaling pathways with probabilistic programming
0 -- 0Wenjing Xuan, Ning Liu, Neng Huang, Yaohang Li, Jianxin Wang 0001. CLPred: a sequence-based protein crystallization predictor using BLSTM neural network
0 -- 0Elliot Layne, Erika N. Dort, Richard C. Hamelin, Yue Li, Mathieu Blanchette. Supervised learning on phylogenetically distributed data
0 -- 0Guillem Ylla, Tianyuan Liu, Ana Conesa. MirCure: a tool for quality control, filter and curation of microRNAs of animals and plants
0 -- 0Jose Barba-Montoya, Qiqing Tao, Sudhir Kumar 0001. Using a GTR+Γ substitution model for dating sequence divergence when stationarity and time-reversibility assumptions are violated
0 -- 0Salvador Capella-Gutiérrez, Eva Alloza, Edurne Gallastegui, Ioannis Kavakiotis, Jen Harrow, Alberto Langtry, Alfonso Valencia. ECCB2020: the 19th European Conference on Computational Biology
0 -- 0Dong-Gi Lee, Myungjun Kim, Sang Joon Son, Changhyung Hong, Hyunjung Shin. Dementia key gene identification with multi-layered SNP-gene-disease network
0 -- 0Charles Abreu Santana, Sabrina de Azevedo Silveira, João P. A. Moraes, Sandro C. Izidoro, Raquel Cardoso de Melo Minardi, António J. M. Ribeiro, Jonathan D. Tyzack, Neera Borkakoti, Janet M. Thornton. GRaSP: a graph-based residue neighborhood strategy to predict binding sites
0 -- 0Derrick Blakely, Eamon Collins, Ritambhara Singh, Andrew P. Norton, Jack Lanchantin, Yanjun Qi. FastSK: fast sequence analysis with gapped string kernels
0 -- 0Alina Renz, Lina Widerspick, Andreas Dräger. FBA reveals guanylate kinase as a potential target for antiviral therapies against SARS-CoV-2
0 -- 0Mohammad Lotfollahi, Mohsen Naghipourfar, Fabian J. Theis, F. Alexander Wolf. Conditional out-of-distribution generation for unpaired data using transfer VAE
0 -- 0Adelme Bazin, Guillaume Gautreau, Claudine Médigue, David Vallenet, Alexandra Calteau. panRGP: a pangenome-based method to predict genomic islands and explore their diversity
0 -- 0Taiki Fuji, Shiori Nakazawa, Kiyoto Ito. Feasible-metabolic-pathway-exploration technique using chemical latent space
0 -- 0Salvador Casaní-Galdón, Cécile Pereira, Ana Conesa. Padhoc: a computational pipeline for pathway reconstruction on the fly
0 -- 0Maor Asif, Yaron Orenstein. DeepSELEX: inferring DNA-binding preferences from HT-SELEX data using multi-class CNNs
0 -- 0Marco Varrone, Luca Nanni, Giovanni Ciriello, Stefano Ceri. Exploring chromatin conformation and gene co-expression through graph embedding
0 -- 0Marleentje Martha Nieboer, Jeroen de Ridder. svMIL: predicting the pathogenic effect of TAD boundary-disrupting somatic structural variants through multiple instance learning
0 -- 0Vu Viet Hoang Pham, Lin Liu 0003, Cameron Bracken, Gregory J. Goodall, Jiuyong Li, Thuc Duy Le. DriverGroup: a novel method for identifying driver gene groups
0 -- 0Christina Huan Shi, Kevin Y. Yip. de novo assembly of 106× human sequence data in 2.7 hours
0 -- 0Thomas Gumbsch, Christian Bock, Michael Moor, Bastian Rieck, Karsten M. Borgwardt. Enhancing statistical power in temporal biomarker discovery through representative shapelet mining