Works matching IS 13674803 AND DT 2020 AND VI 36 AND IP 2

Results: 42

Topology-independent and global protein structure alignment through an FFT-based algorithm.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 478, doi. 10.1093/bioinformatics/btz609

By:

Wen, Zeyu;
He, Jiahua;
Huang, Sheng-You

Publication type:

Article

circMeta: a unified computational framework for genomic feature annotation and differential expression analysis of circular RNAs.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 539, doi. 10.1093/bioinformatics/btz606

By:

Chen, Li;
Wang, Feng;
Bruggeman, Emily C;
Li, Chao;
Yao, Bing

Publication type:

Article

The influence of heterogeneous codon frequencies along sequences on the estimation of molecular adaptation.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 430, doi. 10.1093/bioinformatics/btz558

By:

Amparo, Roberto Del;
Vicens, Alberto;
Arenas, Miguel

Publication type:

Article

Identification of expression signatures for non-small-cell lung carcinoma subtype classification.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 339, doi. 10.1093/bioinformatics/btz557

By:

Su, Ran;
Zhang, Jiahang;
Liu, Xiaofeng;
Wei, Leyi

Publication type:

Article

ArtiFuse—computational validation of fusion gene detection tools without relying on simulated reads.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 373, doi. 10.1093/bioinformatics/btz613

By:

Sorn, Patrick;
Holtsträter, Christoph;
Löwer, Martin;
Sahin, Ugur;
Weber, David

Publication type:

Article

Predicting the effects of SNPs on transcription factor binding affinity.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 364, doi. 10.1093/bioinformatics/btz612

By:

Nishizaki, Sierra S;
Ng, Natalie;
Dong, Shengcheng;
Porter, Robert S;
Morterud, Cody;
Williams, Colten;
Asman, Courtney;
Switzenberg, Jessica A;
Boyle, Alan P

Publication type:

Article

MM-6mAPred: identifying DNA N6-methyladenine sites based on Markov model.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 388, doi. 10.1093/bioinformatics/btz556

By:

Pian, Cong;
Zhang, Guangle;
Li, Fei;
Fan, Xiaodan

Publication type:

Article

RAG-Web: RNA structure prediction/design using RNA-As-Graphs.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 647, doi. 10.1093/bioinformatics/btz611

By:

Meng, Grace;
Tariq, Marva;
Jain, Swati;
Elmetwaly, Shereef;
Schlick, Tamar

Publication type:

Article

VirtualCytometry: a webserver for evaluating immune cell differentiation using single-cell RNA sequencing data.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 546, doi. 10.1093/bioinformatics/btz610

By:

Kim, Kyungsoo;
Yang, Sunmo;
Ha, Sang-Jun;
Lee, Insuk

Publication type:

Article

DNA Rchitect: an R based visualizer for network analysis of chromatin interaction data.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 644, doi. 10.1093/bioinformatics/btz608

By:

Ramirez, R N;
Bedirian, K;
Gray, S M;
Diallo, A

Publication type:

Article

Context awareness and embedding for biomedical event extraction.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 637, doi. 10.1093/bioinformatics/btz607

By:

Yan, Shankai;
Wong, Ka-Chun

Publication type:

Article

gwasrapidd: an R package to query, download and wrangle GWAS catalog data.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 649, doi. 10.1093/bioinformatics/btz605

By:

Magno, Ramiro;
Maia, Ana-Teresa

Publication type:

Article

Discovering protein drug targets using knowledge graph embeddings.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 603, doi. 10.1093/bioinformatics/btz600

By:

Mohamed, Sameh K;
Nováček, Vít;
Nounu, Aayah

Publication type:

Article

Non-parametric individual treatment effect estimation for survival data with random forests.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 629, doi. 10.1093/bioinformatics/btz602

By:

Tabib, Sami;
Larocque, Denis

Publication type:

Article

DeepGOPlus: improved protein function prediction from sequence.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 422, doi. 10.1093/bioinformatics/btz595

By:

Kulmanov, Maxat;
Hoehndorf, Robert

Publication type:

Article

Gaussian mixture copulas for high-dimensional clustering and dependency-based subtyping.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 621, doi. 10.1093/bioinformatics/btz599

By:

Kasa, Siva Rajesh;
Bhattacharya, Sakyajit;
Rajan, Vaibhav

Publication type:

Article

DEEPCON: protein contact prediction using dilated convolutional neural networks with dropout.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 470, doi. 10.1093/bioinformatics/btz593

By:

Adhikari, Badri

Publication type:

Article

ACTINN: automated identification of cell types in single cell RNA sequencing.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 533, doi. 10.1093/bioinformatics/btz592

By:

Ma, Feiyang;
Pellegrini, Matteo

Publication type:

Article

P-value evaluation, variability index and biomarker categorization for adaptively weighted Fisher's meta-analysis method in omics applications.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 524, doi. 10.1093/bioinformatics/btz589

By:

Huo, Zhiguang;
Tang, Shaowu;
Park, Yongseok;
Tseng, George

Publication type:

Article

Identifying small-effect genetic associations overlooked by the conventional fixed-effect model in a large-scale meta-analysis of coronary artery disease.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 552, doi. 10.1093/bioinformatics/btz590

By:

Magosi, Lerato E;
Goel, Anuj;
Hopewell, Jemma C;
Farrall, Martin

Publication type:

Article

MOOMIN – Mathematical explOration of 'Omics data on a MetabolIc Network.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 514, doi. 10.1093/bioinformatics/btz584

By:

Pusa, Taneli;
Ferrarini, Mariana Galvão;
Andrade, Ricardo;
Mary, Arnaud;
Marchetti-Spaccamela, Alberto;
Stougie, Leen;
Sagot, Marie-France

Publication type:

Article

THETA: a new genotypic approach for predicting HIV-1 CRF02-AG coreceptor usage.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 416, doi. 10.1093/bioinformatics/btz585

By:

Dimeglio, Chloé;
Raymond, Stéphanie;
Jeanne, Nicolas;
Reynes, Christelle;
Carcenac, Romain;
Lefebvre, Caroline;
Cazabat, Michelle;
Nicot, Florence;
Delobel, Pierre;
Izopet, Jacques

Publication type:

Article

pourRNA—a time- and memory-efficient approach for the guided exploration of RNA energy landscapes.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 462, doi. 10.1093/bioinformatics/btz583

By:

Entzian, Gregor;
Raden, Martin

Publication type:

Article

Efficient parameterization of large-scale dynamic models based on relative measurements.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 594, doi. 10.1093/bioinformatics/btz581

By:

Schmiester, Leonard;
Schälte, Yannik;
Fröhlich, Fabian;
Hasenauer, Jan;
Weindl, Daniel

Publication type:

Article

DR-SIP: protocols for higher order structure modeling with distance restraints- and cyclic symmetry-imposed packing.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 449, doi. 10.1093/bioinformatics/btz579

By:

Chan, Justin;
Zou, Jinhao;
Ortiz, Christopher Llynard;
Chien, Chi-Hong Chang;
Pan, Rong-Long;
Yang, Lee-Wei

Publication type:

Article

MetaBMF: a scalable binning algorithm for large-scale reference-free metagenomic studies.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 356, doi. 10.1093/bioinformatics/btz577

By:

Ma, Terry;
Xiao, Di;
Xing, Xin

Publication type:

Article

How sequence alignment scores correspond to probability models.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 408, doi. 10.1093/bioinformatics/btz576

By:

Frith, Martin C

Publication type:

Article

Haplotype-aware graph indexes.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 400, doi. 10.1093/bioinformatics/btz575

By:

Sirén, Jouni;
Garrison, Erik;
Novak, Adam M;
Paten, Benedict;
Durbin, Richard

Publication type:

Article

Bayesian inference of distributed time delay in transcriptional and translational regulation.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 586, doi. 10.1093/bioinformatics/btz574

By:

Choi, Boseung;
Cheng, Yu-Yu;
Cinar, Selahattin;
Ott, William;
Bennett, Matthew R;
Josić, Krešimir;
Kim, Jae Kyoung

Publication type:

Article

BioNorm: deep learning-based event normalization for the curation of reaction databases.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 611, doi. 10.1093/bioinformatics/btz571

By:

Lou, Peiliang;
Yepes, Antonio Jimeno;
Zhang, Zai;
Zheng, Qinghua;
Zhang, Xiangrong;
Li, Chen

Publication type:

Article

QPARSE: searching for long-looped or multimeric G-quadruplexes potentially distinctive and druggable.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 393, doi. 10.1093/bioinformatics/btz569

By:

Berselli, Michele;
Lavezzo, Enrico;
Toppo, Stefano

Publication type:

Article

Estimating and testing the microbial causal mediation effect with high-dimensional and compositional microbiome data.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 347, doi. 10.1093/bioinformatics/btz565

By:

Wang, Chan;
Hu, Jiyuan;
Blaser, Martin J;
Li, Huilin

Publication type:

Article

ISoLDE: a data-driven statistical method for the inference of allelic imbalance in datasets with reciprocal crosses.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 504, doi. 10.1093/bioinformatics/btz564

By:

Reynès, Christelle;
Kister, Guilhem;
Rohmer, Marine;
Bouschet, Tristan;
Varrault, Annie;
Dubois, Emeric;
Rialle, Stéphanie;
Journot, Laurent;
Sabatier, Robert

Publication type:

Article

ATEN: And/Or tree ensemble for inferring accurate Boolean network topology and dynamics.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 578, doi. 10.1093/bioinformatics/btz563

By:

Shi, Ning;
Zhu, Zexuan;
Tang, Ke;
Parker, David;
He, Shan

Publication type:

Article

Integrating distal and proximal information to predict gene expression via a densely connected convolutional neural network.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 496, doi. 10.1093/bioinformatics/btz562

By:

Zeng, Wanwen;
Wang, Yong;
Jiang, Rui

Publication type:

Article

GSMA: an approach to identify robust global and test Gene Signatures using Meta-Analysis.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 487, doi. 10.1093/bioinformatics/btz561

By:

Shafi, Adib;
Nguyen, Tin;
Peyvandipour, Azam;
Draghici, Sorin

Publication type:

Article

Look4TRs: a de novo tool for detecting simple tandem repeats using self-supervised hidden Markov models.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 380, doi. 10.1093/bioinformatics/btz551

By:

Velasco, Alfredo;
James, Benjamin T;
Wells, Vincent D;
Girgis, Hani Z

Publication type:

Article

Identifying emerging phenomenon in long temporal phenotyping experiments.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 568, doi. 10.1093/bioinformatics/btz559

By:

Peng, Jiajie;
Lu, Junya;
Hoh, Donghee;
Dina, Ayesha S;
Shang, Xuequn;
Kramer, David M;
Chen, Jin

Publication type:

Article

Toward perfect reads: self-correction of short reads via mapping on de Bruijn graphs.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 651, doi. 10.1093/bioinformatics/btz548

By:

Limasset, Antoine;
Flot, Jean-François;
Peterlongo, Pierre

Publication type:

Article

Bayesian estimation of genetic regulatory effects in high-throughput reporter assays.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 331, doi. 10.1093/bioinformatics/btz545

By:

Majoros, William H;
Kim, Young-Sook;
Barrera, Alejandro;
Li, Fan;
Wang, Xingyan;
Cunningham, Sarah J;
Johnson, Graham D;
Guo, Cong;
Lowe, William L;
Scholtens, Denise M;
Hayes, M Geoffrey;
Reddy, Timothy E;
Allen, Andrew S

Publication type:

Article

Artificial intelligence-based multi-objective optimization protocol for protein structure refinement.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 437, doi. 10.1093/bioinformatics/btz544

By:

Wang, Di;
Geng, Ling;
Zhao, Yu-Jun;
Yang, Yang;
Huang, Yan;
Zhang, Yang;
Shen, Hong-Bin

Publication type:

Article

Comparison of single and module-based methods for modeling gene regulatory networks.

Published in:

Bioinformatics, 2020, v. 36, n. 2, p. 558, doi. 10.1093/bioinformatics/btz549

By:

Hernaez, Mikel;
Blatti, Charles;
Gevaert, Olivier

Publication type:

Article