Bioinformatics

3D chromatin structure estimation through a constraint-enhanced score function
Claudia Caudai, Emanuele Salerno, Monica Zoppè, Anna Tonazzini

bioRxiv 075184; doi: https://doi.org/10.1101/075184

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Sequence biases in CLIP experimental data are incorporated in protein RNA-binding models
Yaron Orenstein, Raghavendra Hosur, Sean Simmons, Jadwiga Bienkoswka, Bonnie Berger

bioRxiv 075259; doi: https://doi.org/10.1101/075259 Contradictory Results

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HDP-Align: Hierarchical Dirichlet Process Clustering for Multiple Peak Alignment of Liquid Chromatography Mass Spectrometry Data
Joe Wandy, Rónán Daly, Simon Rogers

bioRxiv 074831; doi: https://doi.org/10.1101/074831

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Phylogenetic factorization of compositional data
Alex D Washburne, Justin D Silverman, Jonathan W Leff, Dominic J Bennett, John L. Darcy, Sayan Mukherjee, Noah Fierer, Lawrence A David

bioRxiv 074112; doi: https://doi.org/10.1101/074112

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Annotation and differential analysis of alternative splicing using de novo assembly of RNAseq data
Clara Benoit-Pilven, Camille Marchet, Emilie Chautard, Leandro Lima, Marie-Pierre Lambert, Gustavo Sacomoto, Amandine Rey, Cyril Bourgeois, Didier Auboeuf, Vincent Lacroix

bioRxiv 074807; doi: https://doi.org/10.1101/074807

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UCHIME2: improved chimera prediction for amplicon sequencing
Robert C. Edgar

bioRxiv 074252; doi: https://doi.org/10.1101/074252

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REVEALING COMPLEX ECOLOGICAL DYNAMICS VIA SYMBOLIC REGRESSION
Yize Chen, Marco Tulio Angulo, Yang-Yu Liu

bioRxiv 074617; doi: https://doi.org/10.1101/074617

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Ultrasensitive detection of TCR hypervariable region in solid-tissue RNA-seq data
Bo Li, Taiwen Li, Binbin Wang, Ruoxu Dou, Jean-Chrisophe Pignon, Toni K. Choueiri, Sabina Signoretti, Jun S Liu, Xiaole Shirley Liu

bioRxiv 073395; doi: https://doi.org/10.1101/073395

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SINTAX: a simple non-Bayesian taxonomy classifier for 16S and ITS sequences
Robert C. Edgar

bioRxiv 074161; doi: https://doi.org/10.1101/074161

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A framework for RNA quality correction in differential expression analysis
Andrew E. Jaffe, Ran Tao, Alexis L. Norris, Marc Kealhofer, Abhinav Nellore, Yankai Jia, Thomas M. Hyde, Joel E. Kleinman, Richard E. Straub, Jeffrey T. Leek, Daniel R. Weinberger

bioRxiv 074245; doi: https://doi.org/10.1101/074245

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Bioinformatics

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