Bioinformatics

Molecular and pharmacological modulators of the tumor immune contexture revealed by deconvolution of RNA-seq data
Francesca Finotello, Clemens Mayer, Christina Plattner, Gerhard Laschober, Dietmar Rieder, Hubert Hackl, Anne Krogsdam, Wilfried Posch, Doris Wilflingseder, Sieghart Sopper, Marieke Jsselsteijn, Douglas Johnsons, Yaomin Xu, Yu Wang, Melinda E Sanders, Monica V Estrada, Paula Ericsson-Gonzalez, Justin Balko, Noel F de Miranda, Zlatko Trajanoski

bioRxiv 223180; doi: https://doi.org/10.1101/223180 New Results
Ultra-fast and accurate motif finding in large ChIP-seq datasets reveals transcription factor binding patterns
Yang Li, Penyu Ni, Shaoqiang Zhang, Guojun LI, Zhengchang Su

bioRxiv 394007; doi: https://doi.org/10.1101/394007 New Results
K-mer based classifiers extract functionally relevant features to support accurate Peroxiredoxin subgroup distinction
Jiajie Xiao, William Turkett Jr.

bioRxiv 387787; doi: https://doi.org/10.1101/387787 New Results
sierra-local: A lightweight standalone application for secure HIV-1 drug resistance prediction
Jasper C Ho, Garway T Ng, Mathias Renaud, Art FY Poon

bioRxiv 393207; doi: https://doi.org/10.1101/393207 New Results
scMerge: Integration of multiple single-cell transcriptomics datasets leveraging stable expression and pseudo-replication
Yingxin Lin, Shila Ghazanfar, Kevin Wang, Johann A. Gagnon-Bartsch, Kitty K. Lo, Xianbin Su, Ze-Guang Han, John T. Ormerod, Terence P. Speed, Pengyi Yang, Jean Y. H. Yang

bioRxiv 393280; doi: https://doi.org/10.1101/393280 New Results
Prediction and analysis of skin cancer progression using genomics profiles of patients
Sherry Bhalla, Harpreet Kaur, Anjali Dhall, Gajendra P.S. Raghava

bioRxiv 393454; doi: https://doi.org/10.1101/393454 New Results
Discovery of tandem and interspersed segmental duplications using high throughput sequencing
Arda Soylev, Thong Le, Hajar Amini, Can Alkan, Fereydoun Hormozdiari

bioRxiv 393694; doi: https://doi.org/10.1101/393694 New Results
Improving the classification of neuropsychiatric conditions using gene ontology terms as features
Thomas P Quinn, Samuel C Lee, Svetha Venkatesh, Thin Nguyen

bioRxiv 393082; doi: https://doi.org/10.1101/393082 New Results
FastqCleaner: an interactive Bioconductor application for quality-control, filtering and trimming of FASTQ files
Leandro G Roser Sr., Fernán Agŭero, Daniel Sánchez

bioRxiv 393140; doi: https://doi.org/10.1101/393140 New Results
NGseqBasic - a single-command UNIX tool for ATAC-seq, DNaseI-seq, Cut-and-Run, and ChIP-seq data mapping, high-resolution visualisation, and quality control
Jelena M Telenius, The WIGWAM Consortium, Jim R Hughes

bioRxiv 393413; doi: https://doi.org/10.1101/393413 New Results

Bioinformatics

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