Works matching IS 13674803 AND DT 2020 AND VI 36 AND IP 7

Results: 64

MPF–BML: a standalone GUI-based package for maximum entropy model inference.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2278, doi. 10.1093/bioinformatics/btz925

By:

Quadeer, Ahmed A;
McKay, Matthew R;
Barton, John P;
Louie, Raymond H Y

Publication type:

Article

ClinVAP: a reporting strategy from variants to therapeutic options.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2316, doi. 10.1093/bioinformatics/btz924

By:

Sürün, Bilge;
Schärfe, Charlotta P I;
Divine, Mathew R;
Heinrich, Julian;
Toussaint, Nora C;
Zimmermann, Lukas;
Beha, Janina;
Kohlbacher, Oliver

Publication type:

Article

Semantic persistence of ambiguous biomedical names in the citation network.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2224, doi. 10.1093/bioinformatics/btz923

By:

Rodriguez-Esteban, Raul

Publication type:

Article

GABAC: an arithmetic coding solution for genomic data.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2275, doi. 10.1093/bioinformatics/btz922

By:

Voges, Jan;
Paridaens, Tom;
Müntefering, Fabian;
Mainzer, Liudmila S;
Bliss, Brian;
Yang, Mingyu;
Ochoa, Idoia;
Fostier, Jan;
Ostermann, Jörn;
Hernaez, Mikel

Publication type:

Article

Logomaker: beautiful sequence logos in Python.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2272, doi. 10.1093/bioinformatics/btz921

By:

Tareen, Ammar;
Kinney, Justin B

Publication type:

Article

Dynamic Meta-Storms enables comprehensive taxonomic and phylogenetic comparison of shotgun metagenomes at the species level.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2308, doi. 10.1093/bioinformatics/btz910

By:

Jing, Gongchao;
Zhang, Yufeng;
Yang, Ming;
Liu, Lu;
Xu, Jian;
Su, Xiaoquan

Publication type:

Article

Phylonium: fast estimation of evolutionary distances from large samples of similar genomes.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2040, doi. 10.1093/bioinformatics/btz903

By:

Klötzl, Fabian;
Haubold, Bernhard

Publication type:

Article

Fusion-Bloom: fusion detection in assembled transcriptomes.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2256, doi. 10.1093/bioinformatics/btz902

By:

Chiu, Readman;
Nip, Ka Ming;
Birol, Inanc

Publication type:

Article

Lean and deep models for more accurate filtering of SNP and INDEL variant calls.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2060, doi. 10.1093/bioinformatics/btz901

By:

Friedman, Sam;
Gauthier, Laura;
Farjoun, Yossi;
Banks, Eric

Publication type:

Article

Point-group symmetry detection in three-dimensional charge density of biomolecules.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2237, doi. 10.1093/bioinformatics/btz904

By:

Reboul, Cyril F;
Kiesewetter, Simon;
Elmlund, Dominika;
Elmlund, Hans

Publication type:

Article

Formal axioms in biomedical ontologies improve analysis and interpretation of associated data.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2229, doi. 10.1093/bioinformatics/btz920

By:

Smaili, Fatima Zohra;
Gao, Xin;
Hoehndorf, Robert

Publication type:

Article

PgRC: pseudogenome-based read compressor.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2082, doi. 10.1093/bioinformatics/btz919

By:

Kowalski, Tomasz M;
Grabowski, Szymon

Publication type:

Article

MLDSP-GUI: an alignment-free standalone tool with an interactive graphical user interface for DNA sequence comparison and analysis.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2258, doi. 10.1093/bioinformatics/btz918

By:

Randhawa, Gurjit S;
Hill, Kathleen A;
Kari, Lila

Publication type:

Article

A framework for exhaustive modelling of genetic interaction patterns using Petri nets.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2142, doi. 10.1093/bioinformatics/btz917

By:

Jacobsen, Annika;
Ivanova, Olga;
Amini, Saman;
Heringa, Jaap;
Kemmeren, Patrick;
Feenstra, K Anton

Publication type:

Article

dSreg: a Bayesian model to integrate changes in splicing and RNA-binding protein activity.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2134, doi. 10.1093/bioinformatics/btz915

By:

Martí-Gómez, Carlos;
Lara-Pezzi, Enrique;
Sánchez-Cabo, Fátima

Publication type:

Article

SpaCell: integrating tissue morphology and spatial gene expression to predict disease cells.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2293, doi. 10.1093/bioinformatics/btz914

By:

Tan, Xiao;
Su, Andrew;
Tran, Minh;
Nguyen, Quan

Publication type:

Article

popSTR2 enables clinical and population-scale genotyping of microsatellites.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2269, doi. 10.1093/bioinformatics/btz913

By:

Kristmundsdottir, Snædis;
Eggertsson, Hannes P;
Arnadottir, Gudny A;
Halldorsson, Bjarni V

Publication type:

Article

Accurate prediction of protein beta-aggregation with generalized statistical potentials.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2076, doi. 10.1093/bioinformatics/btz912

By:

Orlando, Gabriele;
Silva, Alexandra;
Macedo-Ribeiro, Sandra;
Raimondi, Daniele;
Vranken, Wim

Publication type:

Article

LIMES: a tool for comparing species partition.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2282, doi. 10.1093/bioinformatics/btz911

By:

Ducasse, Jacques;
Ung, Visotheary;
Lecointre, Guillaume;
Miralles, Aurélien

Publication type:

Article

Episo: quantitative estimation of RNA 5-methylcytosine at isoform level by high-throughput sequencing of RNA treated with bisulfite.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2033, doi. 10.1093/bioinformatics/btz900

By:

Liu, Junfeng;
An, Ziyang;
Luo, Jianjun;
Li, Jing;
Li, Feifei;
Zhang, Zhihua

Publication type:

Article

ImPLoc: a multi-instance deep learning model for the prediction of protein subcellular localization based on immunohistochemistry images.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2244, doi. 10.1093/bioinformatics/btz909

By:

Long, Wei;
Yang, Yang;
Shen, Hong-Bin

Publication type:

Article

eCAMI: simultaneous classification and motif identification for enzyme annotation.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2068, doi. 10.1093/bioinformatics/btz908

By:

Xu, Jing;
Zhang, Han;
Zheng, Jinfang;
Dovoedo, Philippe;
Yin, Yanbin

Publication type:

Article

schex avoids overplotting for large single-cell RNA-sequencing datasets.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2291, doi. 10.1093/bioinformatics/btz907

By:

Freytag, Saskia;
Lister, Ryan

Publication type:

Article

DNA Readout Viewer (DRV): visualization of specificity determining patterns of protein-binding DNA segments.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2286, doi. 10.1093/bioinformatics/btz906

By:

Adam, Krisztian;
Gyorgypal, Zoltan;
Hegedus, Zoltan

Publication type:

Article

Struo: a pipeline for building custom databases for common metagenome profilers.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2314, doi. 10.1093/bioinformatics/btz899

By:

de la Cuesta-Zuluaga, Jacobo;
Ley, Ruth E;
Youngblut, Nicholas D

Publication type:

Article

The use of missing values in proteomic data-independent acquisition mass spectrometry to enable disease activity discrimination.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2217, doi. 10.1093/bioinformatics/btz898

By:

McGurk, Kathryn A;
Dagliati, Arianna;
Chiasserini, Davide;
Lee, Dave;
Plant, Darren;
Baricevic-Jones, Ivona;
Kelsall, Janet;
Eineman, Rachael;
Reed, Rachel;
Geary, Bethany;
Unwin, Richard D;
Nicolaou, Anna;
Keavney, Bernard D;
Barton, Anne;
Whetton, Anthony D;
Geifman, Nophar

Publication type:

Article

APTANI<sup>2</sup>: update of aptamer selection through sequence-structure analysis.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2266, doi. 10.1093/bioinformatics/btz897

By:

Caroli, Jimmy;
Forcato, Mattia;
Bicciato, Silvio

Publication type:

Article

Incorporating heterogeneous sampling probabilities in continuous phylogeographic inference — Application to H5N1 spread in the Mekong region.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2098, doi. 10.1093/bioinformatics/btz882

By:

Dellicour, Simon;
Lemey, Philippe;
Artois, Jean;
Lam, Tommy T;
Fusaro, Alice;
Monne, Isabella;
Cattoli, Giovanni;
Kuznetsov, Dmitry;
Xenarios, Ioannis;
Dauphin, Gwenaelle;
Kalpravidh, Wantanee;
Dobschuetz, Sophie Von;
Claes, Filip;
Newman, Scott H;
Suchard, Marc A;
Baele, Guy;
Gilbert, Marius

Publication type:

Article

Easy-HLA: a validated web application suite to reveal the full details of HLA typing.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2157, doi. 10.1093/bioinformatics/btz875

By:

Geffard, Estelle;
Limou, Sophie;
Walencik, Alexandre;
Daya, Michelle;
Watson, Harold;
Torgerson, Dara;
Barnes, Kathleen C;
CAAPA, on behalf of;
Gautier, Anne Cesbron;
Gourraud, Pierre-Antoine;
Vince, Nicolas

Publication type:

Article

PyIOmica: longitudinal omics analysis and trend identification.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2306, doi. 10.1093/bioinformatics/btz896

By:

Domanskyi, Sergii;
Piermarocchi, Carlo;
Mias, George I

Publication type:

Article

Detection of differentially methylated CpG sites between tumor samples with uneven tumor purities.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2017, doi. 10.1093/bioinformatics/btz885

By:

Zhang, Weiwei;
Li, Ziyi;
Wei, Nana;
Wu, Hua-Jun;
Zheng, Xiaoqi

Publication type:

Article

pyDockEneRes: per-residue decomposition of protein–protein docking energy.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2284, doi. 10.1093/bioinformatics/btz884

By:

Romero-Durana, Miguel;
Jiménez-García, Brian;
Fernández-Recio, Juan

Publication type:

Article

Proactive visual and statistical analysis of genomic data in Epiviz.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2195, doi. 10.1093/bioinformatics/btz883

By:

Cui, Zhe;
Kancherla, Jayaram;
Chang, Kyle W;
Elmqvist, Niklas;
Bravo, Héctor Corrada

Publication type:

Article

Antibody complementarity determining region design using high-capacity machine learning.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2126, doi. 10.1093/bioinformatics/btz895

By:

Liu, Ge;
Zeng, Haoyang;
Mueller, Jonas;
Carter, Brandon;
Wang, Ziheng;
Schilz, Jonas;
Horny, Geraldine;
Birnbaum, Michael E;
Ewert, Stefan;
Gifford, David K

Publication type:

Article

psSubpathway: a software package for flexible identification of phenotype-specific subpathways in cancer progression.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2303, doi. 10.1093/bioinformatics/btz894

By:

Han, Junwei;
Han, Xudong;
Kong, Qingfei;
Cheng, Liang

Publication type:

Article

Predicting synthetic lethal interactions using heterogeneous data sources.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2209, doi. 10.1093/bioinformatics/btz893

By:

Liany, Herty;
Jeyasekharan, Anand;
Rajan, Vaibhav

Publication type:

Article

pydca v1.0: a comprehensive software for direct coupling analysis of RNA and protein sequences.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2264, doi. 10.1093/bioinformatics/btz892

By:

Zerihun, Mehari B;
Pucci, Fabrizio;
Peter, Emanuel K;
Schug, Alexander

Publication type:

Article

NextPolish: a fast and efficient genome polishing tool for long-read assembly.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2253, doi. 10.1093/bioinformatics/btz891

By:

Hu, Jiang;
Fan, Junpeng;
Sun, Zongyi;
Liu, Shanlin

Publication type:

Article

RocaSec: a standalone GUI-based package for robust co-evolutionary analysis of proteins.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2262, doi. 10.1093/bioinformatics/btz890

By:

Quadeer, Ahmed A;
Morales-Jimenez, David;
McKay, Matthew R

Publication type:

Article

CellBench: R/Bioconductor software for comparing single-cell RNA-seq analysis methods.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2288, doi. 10.1093/bioinformatics/btz889

By:

Su, Shian;
Tian, Luyi;
Dong, Xueyi;
Hickey, Peter F;
Freytag, Saskia;
Ritchie, Matthew E

Publication type:

Article

Organoid model of mammographic density displays a higher frequency of aberrant colony formations with radiation exposure.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 1989, doi. 10.1093/bioinformatics/btz888

By:

Cheng, Qingsu;
Parvin, Bahram

Publication type:

Article

Using deep learning to associate human genes with age-related diseases.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2202, doi. 10.1093/bioinformatics/btz887

By:

Fabris, Fabio;
Palmer, Daniel;
Salama, Khalid M;
Magalhães, João Pedro de;
Freitas, Alex A

Publication type:

Article

Designing a general method for predicting the regulatory relationships between long noncoding RNAs and protein-coding genes based on multi-omics characteristics.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2025, doi. 10.1093/bioinformatics/btz886

By:

Zhang, Yuwei;
Yi, Tianfei;
Ji, Huihui;
Zhao, Guofang;
Xi, Yang;
Dong, Changzheng;
Zhang, Lina;
Zhang, Xiaohong;
Zhao, Jinshun;
Liao, Qi

Publication type:

Article

SimRVSequences: an R package to simulate genetic sequence data for pedigrees.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2295, doi. 10.1093/bioinformatics/btz881

By:

Nieuwoudt, Christina;
Brooks-Wilson, Angela;
Graham, Jinko

Publication type:

Article

NeoFuse: predicting fusion neoantigens from RNA sequencing data.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2260, doi. 10.1093/bioinformatics/btz879

By:

Fotakis, Georgios;
Rieder, Dietmar;
Haider, Marlene;
Trajanoski, Zlatko;
Finotello, Francesca

Publication type:

Article

Accurate detection of short and long active ORFs using Ribo-seq data.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2053, doi. 10.1093/bioinformatics/btz878

By:

Choudhary, Saket;
Li, Wenzheng;
Smith, Andrew D.

Publication type:

Article

Cerebro: interactive visualization of scRNA-seq data.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2311, doi. 10.1093/bioinformatics/btz877

By:

Hillje, Roman;
Pelicci, Pier Giuseppe;
Luzi, Lucilla

Publication type:

Article

CATHER: a novel threading algorithm with predicted contacts.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2119, doi. 10.1093/bioinformatics/btz876

By:

Du, Zongyang;
Pan, Shuo;
Wu, Qi;
Peng, Zhenling;
Yang, Jianyi

Publication type:

Article

CoMM-S<sup>2</sup>: a collaborative mixed model using summary statistics in transcriptome-wide association studies.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2009, doi. 10.1093/bioinformatics/btz880

By:

Yang, Yi;
Shi, Xingjie;
Jiao, Yuling;
Huang, Jian;
Chen, Min;
Zhou, Xiang;
Sun, Lei;
Lin, Xinyi;
Yang, Can;
Liu, Jin

Publication type:

Article

A fast and memory-efficient implementation of the transfer bootstrap.

Published in:

Bioinformatics, 2020, v. 36, n. 7, p. 2280, doi. 10.1093/bioinformatics/btz874

By:

Lutteropp, Sarah;
Kozlov, Alexey M;
Stamatakis, Alexandros

Publication type:

Article