Bioinformatics

From genomes to phenotypes: Traitar, the microbial trait analyzer
Aaron Weimann, Kyra Mooren, Jeremy Frank, Phillip B. Pope, Andreas Bremges, Alice C. McHardy

bioRxiv 043315; doi: https://doi.org/10.1101/043315

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Semi-Supervised Learning of the Electronic Health Record for Phenotype Stratification
Brett K. Beaulieu-Jones, Casey S. Greene, the Pooled Resource Open-Access ALS Clinical Trials Consortium

bioRxiv 039800; doi: https://doi.org/10.1101/039800

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A natural encoding of genetic variation in a Burrows-Wheeler Transform to enable mapping and genome inference
Sorina Maciuca, Carlos del Ojo Elias, Gil McVean, Zamin Iqbal

bioRxiv 059170; doi: https://doi.org/10.1101/059170

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TelomereHunter: telomere content estimation and characterization from whole genome sequencing data
Lars Feuerbach, Lina Sieverling, Katharina I. Deeg, Philip Ginsbach, Barbara Hutter, Ivo Buchhalter, Paul A. Northcott, Peter Lichter, Stefan M. Pfister, David T.W. Jones, Karsten Rippe, Benedikt Brors

bioRxiv 065532; doi: https://doi.org/10.1101/065532

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Preprocessing, normalization and integration of the Illumina HumanMethylationEPIC array
Jean-Philippe Fortin, Timothy J. Triche Jr., Kasper D. Hansen

bioRxiv 065490; doi: https://doi.org/10.1101/065490

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Calculating Biological Module Enrichment or Depletion and Visualizing Data on Large-scale Molecular Maps with ACSNMineR and RNaviCell R packages
Paul Deveau, Emmanuel Barillot, Valentina Boeva, Andrei Zinovyev, Eric Bonnet

bioRxiv 064469; doi: https://doi.org/10.1101/064469 Confirmatory Results

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Avoidance of stochastic RNA interactions can be harnessed to control protein expression levels in bacteria and archaea
Sinan Uğur Umu, Anthony M. Poole, Renwick C. J. Dobson, Paul P. Gardner

bioRxiv 033613; doi: https://doi.org/10.1101/033613

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Comparison of aggregation methods for multiphenotype exomic variant prioritization
Alejandro Sifrim, Dusan Popovic, Joris R. Vermeesch, Jan Aerts, Bart De Moor, Yves Moreau

bioRxiv 064899; doi: https://doi.org/10.1101/064899

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sCNAphase: using haplotype resolved read depth to genotype somatic copy number alterations from low cellularity aneuploid tumors
Wenhan Chen, Alan J. Robertson, Devika Ganesamoorthy, Lachlan J.M. Coin

bioRxiv 038828; doi: https://doi.org/10.1101/038828

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Whose sample is it anyway? Widespread misannotation of samples in transcriptomics studies
Lilah Toker, Min Feng, Paul Pavlidis

bioRxiv 064626; doi: https://doi.org/10.1101/064626

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Bioinformatics

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