Works matching IS 13674803 AND DT 2019 AND VI 35 AND IP 19

Results: 56

GREP: genome for REPositioning drugs.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3821, doi. 10.1093/bioinformatics/btz166

By:

Sakaue, Saori;
Okada, Yukinori

Publication type:

Article

Evolution of biosequence search algorithms: a brief survey.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3547, doi. 10.1093/bioinformatics/btz272

By:

Kucherov, Gregory

Publication type:

Article

Is the Bombali virus pathogenic in humans?

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3553, doi. 10.1093/bioinformatics/btz267

By:

Martell, Henry J;
Masterson, Stuart G;
McGreig, Jake E;
Michaelis, Martin;
Wass, Mark N

Publication type:

Article

PyFeat: a Python-based effective feature generation tool for DNA, RNA and protein sequences.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3831, doi. 10.1093/bioinformatics/btz165

By:

Muhammod, Rafsanjani;
Ahmed, Sajid;
Farid, Dewan Md;
Shatabda, Swakkhar;
Sharma, Alok;
Dehzangi, Abdollah

Publication type:

Article

A Gaussian process model and Bayesian variable selection for mapping function-valued quantitative traits with incomplete phenotypic data.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3684, doi. 10.1093/bioinformatics/btz164

By:

Vanhatalo, Jarno;
Li, Zitong;
Sillanpää, Mikko J

Publication type:

Article

ngsLD: evaluating linkage disequilibrium using genotype likelihoods.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3855, doi. 10.1093/bioinformatics/btz200

By:

Fox, Emma A;
Wright, Alison E;
Fumagalli, Matteo;
Vieira, Filipe G

Publication type:

Article

phylostratr: a framework for phylostratigraphy.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3617, doi. 10.1093/bioinformatics/btz171

By:

Arendsee, Zebulun;
Li, Jing;
Singh, Urminder;
Seetharam, Arun;
Dorman, Karin;
Wurtele, Eve Syrkin

Publication type:

Article

Gene-based association tests using GWAS summary statistics.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3701, doi. 10.1093/bioinformatics/btz172

By:

Svishcheva, Gulnara R;
Belonogova, Nadezhda M;
Zorkoltseva, Irina V;
Kirichenko, Anatoly V;
Axenovich, Tatiana I

Publication type:

Article

DEFOR: depth- and frequency-based somatic copy number alteration detector.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3824, doi. 10.1093/bioinformatics/btz170

By:

Zhang, He;
Zhan, Xiaowei;
Brugarolas, James;
Xie, Yang

Publication type:

Article

VIMCO: variational inference for multiple correlated outcomes in genome-wide association studies.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3693, doi. 10.1093/bioinformatics/btz167

By:

Shi, Xingjie;
Jiao, Yuling;
Yang, Yi;
Cheng, Ching-Yu;
Yang, Can;
Lin, Xinyi;
Liu, Jin

Publication type:

Article

Automated exploration of gene ontology term and pathway networks with ClueGO-REST.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3864, doi. 10.1093/bioinformatics/btz163

By:

Mlecnik, Bernhard;
Galon, Jérôme;
Bindea, Gabriela

Publication type:

Article

Bit-parallel sequence-to-graph alignment.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3599, doi. 10.1093/bioinformatics/btz162

By:

Rautiainen, Mikko;
Mäkinen, Veli;
Marschall, Tobias

Publication type:

Article

Integration of methylation QTL and enhancer–target gene maps with schizophrenia GWAS summary results identifies novel genes.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3576, doi. 10.1093/bioinformatics/btz161

By:

Wu, Chong;
Pan, Wei

Publication type:

Article

FORESEE: a tool for the systematic comparison of translational drug response modeling pipelines.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3846, doi. 10.1093/bioinformatics/btz145

By:

Turnhoff, Lisa-Katrin;
Esfahani, Ali Hadizadeh;
Montazeri, Maryam;
Kusch, Nina;
Schuppert, Andreas

Publication type:

Article

Surrogate minimal depth as an importance measure for variables in random forests.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3663, doi. 10.1093/bioinformatics/btz149

By:

Seifert, Stephan;
Gundlach, Sven;
Szymczak, Silke

Publication type:

Article

Interoperable and scalable data analysis with microservices: applications in metabolomics.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3752, doi. 10.1093/bioinformatics/btz160

By:

Khoonsari, Payam Emami;
Moreno, Pablo;
Bergmann, Sven;
Burman, Joachim;
Capuccini, Marco;
Carone, Matteo;
Cascante, Marta;
Atauri, Pedro de;
Foguet, Carles;
Gonzalez-Beltran, Alejandra N;
Hankemeier, Thomas;
Haug, Kenneth;
He, Sijin;
Herman, Stephanie;
Johnson, David;
Kale, Namrata;
Larsson, Anders;
Neumann, Steffen;
Peters, Kristian;
Pireddu, Luca

Publication type:

Article

DECO: decompose heterogeneous population cohorts for patient stratification and discovery of sample biomarkers using omic data profiling.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3651, doi. 10.1093/bioinformatics/btz148

By:

Campos-Laborie, F J;
Risueño, A;
Ortiz-Estévez, M;
Rosón-Burgo, B;
Droste, C;
Fontanillo, C;
Loos, R;
Sánchez-Santos, J M;
Trotter, M W;
Rivas, J De Las

Publication type:

Article

SPIM workflow manager for HPC.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3875, doi. 10.1093/bioinformatics/btz140

By:

Kožusznik, Jan;
Bainar, Petr;
Klímová, Jana;
Krumnikl, Michal;
Moravec, Pavel;
Svatoň, Václav;
Tomančák, Pavel

Publication type:

Article

aphid: an R package for analysis with profile hidden Markov models.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3829, doi. 10.1093/bioinformatics/btz159

By:

Wilkinson, Shaun P

Publication type:

Article

MetaMarker: a pipeline for de novo discovery of novel metagenomic biomarkers.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3812, doi. 10.1093/bioinformatics/btz123

By:

Koohi-Moghadam, Mohamad;
Borad, Mitesh J;
Tran, Nhan L;
Swanson, Kristin R;
Boardman, Lisa A;
Sun, Hongzhe;
Wang, Junwen

Publication type:

Article

Dr.VAE: improving drug response prediction via modeling of drug perturbation effects.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3743, doi. 10.1093/bioinformatics/btz158

By:

Rampášek, Ladislav;
Hidru, Daniel;
Smirnov, Petr;
Haibe-Kains, Benjamin;
Goldenberg, Anna

Publication type:

Article

TeraPCA: a fast and scalable software package to study genetic variation in tera-scale genotypes.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3679, doi. 10.1093/bioinformatics/btz157

By:

Bose, Aritra;
Kalantzis, Vassilis;
Kontopoulou, Eugenia-Maria;
Elkady, Mai;
Paschou, Peristera;
Drineas, Petros

Publication type:

Article

A new computational drug repurposing method using established disease–drug pair knowledge.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3672, doi. 10.1093/bioinformatics/btz156

By:

Saberian, Nafiseh;
Peyvandipour, Azam;
Donato, Michele;
Ansari, Sahar;
Draghici, Sorin

Publication type:

Article

Enhancing the prediction of disease–gene associations with multimodal deep learning.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3735, doi. 10.1093/bioinformatics/btz155

By:

Luo, Ping;
Li, Yuanyuan;
Tian, Li-Ping;
Wu, Fang-Xiang

Publication type:

Article

VERA: agent-based modeling transmission of antibiotic resistance between human pathogens and gut microbiota.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3803, doi. 10.1093/bioinformatics/btz154

By:

Glushchenko, Oksana E;
Prianichnikov, Nikita A;
Olekhnovich, Evgenii I;
Manolov, Alexander I;
Tyakht, Alexander V;
Starikova, Elizaveta V;
Odintsova, Vera E;
Kostryukova, Elena S;
Ilina, Elena I

Publication type:

Article

mirtronDB: a mirtron knowledge base.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3873, doi. 10.1093/bioinformatics/btz153

By:

Fonseca, Bruno Henrique Ribeiro Da;
Domingues, Douglas Silva;
Paschoal, Alexandre Rossi

Publication type:

Article

AutoDock Bias: improving binding mode prediction and virtual screening using known protein–ligand interactions.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3836, doi. 10.1093/bioinformatics/btz152

By:

Arcon, Juan Pablo;
Modenutti, Carlos P;
Avendaño, Demian;
Lopez, Elias D;
Defelipe, Lucas A;
Ambrosio, Francesca Alessandra;
Turjanski, Adrian G;
Forli, Stefano;
Marti, Marcelo A

Publication type:

Article

VHost-Classifier: virus-host classification using natural language processing.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3867, doi. 10.1093/bioinformatics/btz151

By:

Kitson, Ezra;
Suttle, Curtis A

Publication type:

Article

RECAP reveals the true statistical significance of ChIP-seq peak calls.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3592, doi. 10.1093/bioinformatics/btz150

By:

Chitpin, Justin G;
Awdeh, Aseel;
Perkins, Theodore J

Publication type:

Article

SW-Tandem: a highly efficient tool for large-scale peptide identification with parallel spectrum dot product on Sunway TaihuLight.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3861, doi. 10.1093/bioinformatics/btz147

By:

Li, Chuang;
Li, Kenli;
Chen, Tao;
Zhu, Yunping;
He, Qiang

Publication type:

Article

Nucleotide Archival Format (NAF) enables efficient lossless reference-free compression of DNA sequences.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3826, doi. 10.1093/bioinformatics/btz144

By:

Kryukov, Kirill;
Ueda, Mahoko Takahashi;
Nakagawa, So;
Imanishi, Tadashi

Publication type:

Article

Using association signal annotations to boost similarity network fusion.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3718, doi. 10.1093/bioinformatics/btz124

By:

Ruan, Peifeng;
Wang, Ya;
Shen, Ronglai;
Wang, Shuang

Publication type:

Article

Functional geometry of protein interactomes.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3727, doi. 10.1093/bioinformatics/btz146

By:

Malod-Dognin, Noël;
Pržulj, Nataša

Publication type:

Article

metagenomeFeatures: an R package for working with 16S rRNA reference databases and marker-gene survey feature data.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3870, doi. 10.1093/bioinformatics/btz136

By:

Olson, Nathan D;
Shah, Nidhi;
Kancherla, Jayaram;
Wagner, Justin;
Paulson, Joseph N;
Bravo, Hector Corrada

Publication type:

Article

Aggrescan3D standalone package for structure-based prediction of protein aggregation properties.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3834, doi. 10.1093/bioinformatics/btz143

By:

Kuriata, Aleksander;
Iglesias, Valentin;
Kurcinski, Mateusz;
Ventura, Salvador;
Kmiecik, Sebastian

Publication type:

Article

Anduril 2: upgraded large-scale data integration framework.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3815, doi. 10.1093/bioinformatics/btz133

By:

Cervera, Alejandra;
Rantanen, Ville;
Ovaska, Kristian;
Laakso, Marko;
Nuñez-Fontarnau, Javier;
Alkodsi, Amjad;
Casado, Julia;
Facciotto, Chiara;
Häkkinen, Antti;
Louhimo, Riku;
Karinen, Sirkku;
Zhang, Kaiyang;
Lavikka, Kari;
Lyly, Lauri;
Singh, Maninder Pal;
Hautaniemi, Sampsa

Publication type:

Article

MeSHProbeNet: a self-attentive probe net for MeSH indexing.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3794, doi. 10.1093/bioinformatics/btz142

By:

Xun, Guangxu;
Jha, Kishlay;
Yuan, Ye;
Wang, Yaqing;
Zhang, Aidong

Publication type:

Article

Destin: toolkit for single-cell analysis of chromatin accessibility.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3818, doi. 10.1093/bioinformatics/btz141

By:

Urrutia, Eugene;
Chen, Li;
Zhou, Haibo;
Jiang, Yuchao

Publication type:

Article

Inter-Modular Linkers play a crucial role in governing the biosynthesis of non-ribosomal peptides.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3584, doi. 10.1093/bioinformatics/btz127

By:

Farag, Sherif;
Bleich, Rachel M;
Shank, Elizabeth A;
Isayev, Olexandr;
Bowers, Albert A;
Tropsha, Alexander

Publication type:

Article

SinNLRR: a robust subspace clustering method for cell type detection by non-negative and low-rank representation.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3642, doi. 10.1093/bioinformatics/btz139

By:

Zheng, Ruiqing;
Li, Min;
Liang, Zhenlan;
Wu, Fang-Xiang;
Pan, Yi;
Wang, Jianxin

Publication type:

Article

deTS: tissue-specific enrichment analysis to decode tissue specificity.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3842, doi. 10.1093/bioinformatics/btz138

By:

Pei, Guangsheng;
Dai, Yulin;
Zhao, Zhongming;
Jia, Peilin

Publication type:

Article

BioMethyl: an R package for biological interpretation of DNA methylation data.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3635, doi. 10.1093/bioinformatics/btz137

By:

Wang, Yue;
Franks, Jennifer M;
Whitfield, Michael L;
Cheng, Chao

Publication type:

Article

CausalTAB: the PSI-MITAB 2.8 updated format for signalling data representation and dissemination.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3779, doi. 10.1093/bioinformatics/btz132

By:

Perfetto, L;
Acencio, M L;
Bradley, G;
Cesareni, G;
Toro, N Del;
Fazekas, D;
Hermjakob, H;
Korcsmaros, T;
Kuiper, M;
Lægreid, A;
Surdo, P Lo;
Lovering, R C;
Orchard, S;
Porras, P;
Thomas, P D;
Touré, V;
Zobolas, J;
Licata, L

Publication type:

Article

Benefits of dimension reduction in penalized regression methods for high-dimensional grouped data: a case study in low sample size.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3628, doi. 10.1093/bioinformatics/btz135

By:

Ajana, Soufiane;
Acar, Niyazi;
Bretillon, Lionel;
Hejblum, Boris P;
Jacqmin-Gadda, Hélène;
Delcourt, Cécile;
Group, for the BLISAR Study

Publication type:

Article

Missing value estimation methods for DNA methylation data.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3786, doi. 10.1093/bioinformatics/btz134

By:

Lena, Pietro Di;
Sala, Claudia;
Prodi, Andrea;
Nardini, Christine

Publication type:

Article

Easybiotics: a GUI for 3D physical modelling of multi-species bacterial populations.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3859, doi. 10.1093/bioinformatics/btz131

By:

Naylor, Jonathan;
Fellermann, Harold;
Krasnogor, Natalio

Publication type:

Article

G2P: a Genome-Wide-Association-Study simulation tool for genotype simulation, phenotype simulation and power evaluation.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3852, doi. 10.1093/bioinformatics/btz126

By:

Tang, You;
Liu, Xiaolei

Publication type:

Article

LIONS: analysis suite for detecting and quantifying transposable element initiated transcription from RNA-seq.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3839, doi. 10.1093/bioinformatics/btz130

By:

Babaian, Artem;
Thompson, I Richard;
Lever, Jake;
Gagnier, Liane;
Karimi, Mohammad M;
Mager, Dixie L

Publication type:

Article

Parameter balancing: consistent parameter sets for kinetic metabolic models.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3857, doi. 10.1093/bioinformatics/btz129

By:

Lubitz, Timo;
Liebermeister, Wolfram

Publication type:

Article

Brain annotation toolbox: exploring the functional and genetic associations of neuroimaging results.

Published in:

Bioinformatics, 2019, v. 35, n. 19, p. 3771, doi. 10.1093/bioinformatics/btz128

By:

Liu, Zhaowen;
Rolls, Edmund T;
Liu, Zhi;
Zhang, Kai;
Yang, Ming;
Du, Jingnan;
Gong, Weikang;
Cheng, Wei;
Dai, Fei;
Wang, He;
Ugurbil, Kamil;
Zhang, Jie;
Feng, Jianfeng

Publication type:

Article