Bioinformatics

Fast Virome Explorer: A Pipeline for Virus and Phage Identification and Abundance Profiling in Metagenomics Data
Saima Sultana Tithi, Roderick V. Jensen, Liqing Zhang

bioRxiv 196998; doi: https://doi.org/10.1101/196998

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Exploring the phenotypic consequences of tissue specific gene expression variation inferred from GWAS summary statistics
Alvaro N. Barbeira, Scott P. Dickinson, Jason M. Torres, Jiamao Zheng, Eric S. Torstenson, Heather E. Wheeler, Kaanan P. Shah, Rodrigo Bonazzola, Tzintzuni Garcia, Todd Edwards, GTEx Consortium, Dan L. Nicolae, Nancy J. Cox, Hae Kyung Im

bioRxiv 045260; doi: https://doi.org/10.1101/045260

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C3D: A tool to predict 3D genomic interactions between cis-regulatory elements
Tahmid Mehdi, Swneke D. Bailey, Paul Guilhamon, Mathieu Lupien

bioRxiv 197301; doi: https://doi.org/10.1101/197301

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A framework for generating interactive reports for cancer genome analysis
Ai Okada, Kenichi Chiba, Hiroko Tanaka, Satoru Miyano, Yuichi Shiraishi

bioRxiv 194035; doi: https://doi.org/10.1101/194035

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Deep Convolutional Neural Networks Enable Discrimination of Heterogeneous Digital Pathology Images
Pegah Khosravi, Ehsan Kazemi, Marcin Imielinski, Olivier Elemento, Iman Hajirasouliha

bioRxiv 197517; doi: https://doi.org/10.1101/197517

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Functional Network Community Detection Can Disaggregate and Filter Multiple Underlying Pathways in Enrichment Analyses
Lia X. Harrington, Gregory P. Way, Jennifer A. Doherty, Casey S. Greene

bioRxiv 166207; doi: https://doi.org/10.1101/166207

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Extracting a Biologically Relevant Latent Space from Cancer Transcriptomes with Variational Autoencoders
Gregory P. Way, Casey S. Greene

bioRxiv 174474; doi: https://doi.org/10.1101/174474

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Data-driven Assessment of Structural Image Quality
Adon F. G. Rosen, David R. Roalf, Kosha Ruparel, Jason Blake, Kevin Seelaus, Lakshmi P. Villa, Rastko Ciric, Philip A. Cook, Christos Davatzikos, Mark A. Elliott, Angel Garcia de La Garza, Efstathios D. Gennatas, Megan Quarmley, J. Eric Schmitt, Russell T. Shinohara, M. Dylan Tisdall, R. Cameron Craddock, Raquel E. Gur, Ruben C. Gur, Theodore D. Satterthwaite

bioRxiv 125161; doi: https://doi.org/10.1101/125161

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How is structural divergence related to evolutionary information?
Diego Javier Zea, Alexander Miguel Monzon, Gustavo Parisi, Cristina Marino-Buslje

bioRxiv 196782; doi: https://doi.org/10.1101/196782

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The Impact of Random Models on Clustering Similarity
Alexander J. Gates, Yong-Yeol Ahn

bioRxiv 196840; doi: https://doi.org/10.1101/196840

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Bioinformatics

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