Jesper Jansson, Andrzej Lingas, Ramesh Rajaby and Wing-Kin Sung.
Determining the Consistency of Resolved Triplets and Fan Triplets
Benedict Paten, Adam Novak, Erik Garrison, Eric Dawson and Glenn Hickey.
Superbubbles, Ultrabubbles and Cacti
Yijie Wang, Dong-Yeon Cho, Hangnoh Lee, Brian Oliver and Teresa Przytycka.
NetREX: Network Rewiring using EXpression - Towards Context Specific Regulatory Networks
Uri Keich and William Stafford Noble.
Progressive calibration and averaging for tandem mass spectrometry statistical confidence estimation: Why settle for a single decoy?
Guillaume Holley, Roland Wittler, Jens Stoye and Faraz Hach.
Dynamic Alignment-free and Reference-free Read Compression
David Haussler, Maciej Smuga-Otto, Benedict Paten, Adam Novak, Sergei Nikitin, Maria Zueva and Miagkov Dmitrii.
A flow procedure for the linearization of genome variation graphs
Yaron Orenstein, Ryan Kim, Polly Fordyce and Bonnie Berger.
Joker de Bruijn: sequence libraries to cover all k-mers using joker characters
Ewa Szczurek and Dariusz Matlak.
Epistasis in genomic and survival data of cancer patients
Shubhanshu Shekhar, Sebastien Roch and Siavash Mirarab.
Species tree estimation using ASTRAL: how many genes are enough?
Zhen Li, Sheng Wang, Yizhou Yu and Jinbo Xu.
Predicting membrane protein contacts from non-membrane proteins by deep transfer learning
Sai Zhang, Hailin Hu, Jingtian Zhou, Xuan He, Tao Jiang and Jianyang Zeng.
ROSE: a deep learning based framework for predicting ribosome stalling
Xiaoqian Wang, Li Shen and Heng Huang.
Longitudinal Genotype-Phenotype Association Study via Temporal Structure Auto-Learning Predictive Model
Christopher Pockrandt, Marcel Ehrhardt and Knut Reinert.
EPR-dictionaries: A practical and fast data structure for constant time searches in unidirectional and bidirectional FM-indices
Chen Sun, Robert Harris, Rayan Chikhi and Paul Medvedev.
Allsome Sequence Bloom Trees
Adegoke Ojewole, Jonathan Jou, Vance Fowler and Bruce Donald.
BBK* (Branch and Bound over K*): A Provable and Efficient Ensemble-Based Algorithm to Optimize Stability and Binding Affinity over Large Sequence Spaces
Joshua Welch, Alexander Hartemink and Jan Prins.
E Pluribus Unum: United States of Single Cells
Linh Huynh and Fereydoun Hormozdiari.
Ultra-accurate complex disorder prediction: case study of neurodevelopmental disorders
Dan Deblasio and John Kececioglu.
Boosting alignment accuracy by adaptive local realignment
Phuong Dao, Yoo-Ah Kim, Damian Wojtowicz, Sanna Madan, Roded Sharan and Teresa Przytycka.
BeWith: A Between-Within Method for Module Discovery in Cancer using Integrated Analysis of Mutual Exclusivity, Co-occurrence and Functional Interactions
Elior Rahmani, Regev Schweiger, Liat Shenhav, Eleazar Eskin and Eran Halperin.
A Bayesian Framework for Estimating Cell Type Composition from DNA Methylation Without the Need for Methylation Reference
Robert Osazuwa Ness, Karen Sachs, Parag Mallick and Olga Vitek.
A Bayesian Active Learning Experimental Design for Inferring Signaling Networks
Yunan Luo, Xinbin Zhao, Jingtian Zhou, Jinling Yang, Yanqing Zhang, Wenhua Kuang, Jian Peng, Ligong Chen and Jianyang Zeng.
A Network Integration Approach for Drug-Target Interaction Prediction and Computational Drug Repositioning from Heterogeneous Information
Regev Schweiger, Eyal Fisher, Elior Rahmani, Liat Shenhav, Saharon Rosset and Eran Halperin.
Using stochastic approximation techniques to efficiently construct confidence intervals for heritability
Jingkang Zhao, Dongshunyi Li, Jungkyun Seo, Andrew Allen and Raluca Gordan.
Quantifying the impact of non-coding variants on transcription factor-DNA binding
Yue Wu, Farhad Hormozdiari, Jong Wha J Joo and Eleazar Eskin.
Improving imputation accuracy by inferring causal variants in genetic studies
Alexander Shlemov, Sergey Bankevich, Andrey Bzikadze, Yana Safonova and Pavel Pevzner.
Reconstructing antibody repertoires from error-prone immunosequencing datasets
Ashok Rajaraman and Jian Ma.
Towards Recovering Allele-specific Cancer Genome Graphs
Chirag Jain, Alexander Dilthey, Sergey Koren, Srinivas Aluru and Adam Phillippy.
A Fast Approximate Algorithm for Mapping Long Reads to Large Reference Databases
Brad Solomon and Carl Kingsford.
Improved Search of Large Transcriptomic Sequencing Databases Using Split Sequence Bloom Trees
Simone Zaccaria, Mohammed El-Kebir, Gunnar Klau and Ben Raphael.
The Copy-Number Tree Mixture Deconvolution Problem and Applications to Multi-Sample Bulk Sequencing Tumor Data
Borislav Hristov and Mona Singh.
Network-based coverage of mutational profiles reveals cancer genes
Ardalan Naseri, Xiaoming Liu, Shaojie Zhang and Degui Zhi.
Ultra-fast Identity by Descent Detection in Biobank-Scale Cohorts using Positional Burrows–Wheeler Transform
Soyeon Ahn and Haris Vikalo.
aBayesQR: A Bayesian method for reconstruction of viral populations characterized by low diversity
Michael Leung, Andrew Delong and Brendan Frey.
Inference of the Human Polyadenylation Code
Sudipto Mukherjee, Mark Chaisson, Sreeram Kannan and Evan Eichler.
Resolving multicopy duplications de novo using polyploid phasing
Wontack Han, Mingjie Wang and Yuzhen Ye.
A concurrent subtractive assembly approach for identification of disease associated sub-metagenomes
Yuchun Guo, Kevin Tian, Haoyang Zeng and David K. Gifford.
K-mer Set Memory (KSM) motif representation enables accurate prediction of the impact of regulatory variants
Victoria Popic, Volodymyr Kuleshov, Michael Snyder and Serafim Batzoglou.
GATTACA: Lightweight metagenomic binning using Kmer Counting
To be updated soon.