Works matching IS 13674803 AND DT 2019 AND VI 35 AND IP 9

Results: 33

TIVAN: tissue-specific cis-eQTL single nucleotide variant annotation and prediction.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1573, doi. 10.1093/bioinformatics/bty872

By:

Chen, Li;
Wang, Ye;
Qin, Xiao;
Yao, Bing;
Mitra, Amit;
Wang, Xu

Publication type:

Article

TEPIC 2—an extended framework for transcription factor binding prediction and integrative epigenomic analysis.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1608, doi. 10.1093/bioinformatics/bty856

By:

Schmidt, Florian;
Kern, Fabian;
Ebert, Peter;
Baumgarten, Nina;
Schulz, Marcel H

Publication type:

Article

sRNAPrimerDB: comprehensive primer design and search web service for small non-coding RNAs.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1566, doi. 10.1093/bioinformatics/bty852

By:

Xie, Shengsong;
Liu, Xiangdong;
Li, Xinyun;
Miao, Yiliang;
Zhao, Shuhong;
Zhu, Qin;
Du, Xiaoyong;
Wang, Yunlong;
Fang, Yaping;
Qu, Wubin;
Li, Haiwei;
Xu, Zhong;
Li, Shijun;
Zhang, Lisheng;
Zhao, Changzhi;
Ma, Wubin;
Dong, Wuzi

Publication type:

Article

SemGen: a tool for semantics-based annotation and composition of biosimulation models.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1600, doi. 10.1093/bioinformatics/bty829

By:

Neal, Maxwell L;
Thompson, Christopher T;
Carlson, Brian E;
Kim, Karam G;
James, Ryan C;
Cook, Daniel L;
Gennari, John H

Publication type:

Article

SanXoT: a modular and versatile package for the quantitative analysis of high-throughput proteomics experiments.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1594, doi. 10.1093/bioinformatics/bty815

By:

Trevisan-Herraz, Marco;
García-Marqués, Fernando;
Jorge, Inmaculada;
Ezkurdia, Iakes;
Bonzon-Kulichenko, Elena;
Vázquez, Jesús;
Bagwan, Navratan;
Rodriguez, Jose Manuel

Publication type:

Article

RiboProP: a probabilistic ribosome positioning algorithm for ribosome profiling.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1486, doi. 10.1093/bioinformatics/bty854

By:

Zhao, Dengke;
Baez, William D;
Fredrick, Kurt;
Bundschuh, Ralf

Publication type:

Article

RETRACTED: LFQC: a lossless compression algorithm for FASTQ files.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. e1, doi. 10.1093/bioinformatics/btu701

By:

Pathak, Sudipta;
Rajasekaran, Sanguthevar

Publication type:

Article

QuagmiR: a cloud-based application for isomiR big data analytics.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1576, doi. 10.1093/bioinformatics/bty843

By:

Ros, Xavier Bofill-De;
Chen, Kevin;
Chen, Susanna;
Jiang, Minjie;
Gu, Shuo;
Tesic, Nikola;
Randjelovic, Dusan;
Skundric, Nikola;
Nesic, Svetozar;
Varjacic, Vojislav;
Williams, Elizabeth H;
Malhotra, Raunaq

Publication type:

Article

PySFD: comprehensive molecular insights from significant feature differences detected among many simulated ensembles.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1588, doi. 10.1093/bioinformatics/bty818

By:

Stolzenberg, Sebastian

Publication type:

Article

PRESM: personalized reference editor for somatic mutation discovery in cancer genomics.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1445, doi. 10.1093/bioinformatics/bty812

By:

Cao, Chen;
Mak, Lauren;
Gordon, Paul;
Long, Quan;
Jin, Guangxu;
Ye, Kai

Publication type:

Article

Presenting and sharing clinical data using the eTRIKS Standards Master Tree for tranSMART.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1562, doi. 10.1093/bioinformatics/bty809

By:

Barbosa-Silva, Adriano;
Bratfalean, Dorina;
Houston, Paul;
Becnel, Lauren B;
Gu, Wei;
Satagopam, Venkata;
Herzinger, Sascha;
Rege, Kavita;
Balling, Rudi;
Schneider, Reinhard;
Eifes, Serge;
Richard, Fabien;
Tielmann, Andreas;
Peeters, Paul

Publication type:

Article

PrecursorFinder: a customized biosynthetic precursor explorer.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1603, doi. 10.1093/bioinformatics/bty838

By:

Yuan, Le;
Tian, Yu;
Liu, Yanfang;
Ding, Shaozhen;
Hu, Qian-Nan;
Chen, Fu;
Zhang, Tong;
Tu, Weizhong;
Chen, Junni

Publication type:

Article

PlateDesigner: a web-based application for the design of microplate experiments.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1605, doi. 10.1093/bioinformatics/bty853

By:

Suprun, Maria;
Suárez-Fariñas, Mayte

Publication type:

Article

Pisces: an accurate and versatile variant caller for somatic and germline next-generation sequencing data.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1579, doi. 10.1093/bioinformatics/bty849

By:

Dunn, Tamsen;
Berry, Gwenn;
Emig-Agius, Dorothea;
Jiang, Yu;
Lei, Serena;
Iyer, Anita;
Udar, Nitin;
Chuang, Han-Yu;
Hegarty, Jeff;
Dickover, Michael;
Klotzle, Brandy;
Robbins, Justin;
Bibikova, Marina;
Strömberg, Michael;
Peeters, Marc

Publication type:

Article

On the viability of unsupervised T-cell receptor sequence clustering for epitope preference.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1461, doi. 10.1093/bioinformatics/bty821

By:

Meysman, Pieter;
Neuter, Nicolas De;
Gielis, Sofie;
Laukens, Kris;
Thi, Danh Bui;
Ogunjimi, Benson

Publication type:

Article

A novel approach for drug response prediction in cancer cell lines via network representation learning.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1527, doi. 10.1093/bioinformatics/bty848

By:

Yang, Jianghong;
Li, Ao;
Wang, Minghui;
Li, Yongqiang;
Guo, Xiangqian

Publication type:

Article

A new method bridging graph theory and residue co-evolutionary networks for specificity determinant positions detection.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1478, doi. 10.1093/bioinformatics/bty846

By:

Fonseca, Néli José da;
Afonso, Marcelo Querino Lima;
Oliveira, Lucas Carrijo de;
Bleicher, Lucas

Publication type:

Article

A natural upper bound to the accuracy of predicting protein stability changes upon mutations.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1513, doi. 10.1093/bioinformatics/bty880

By:

Montanucci, Ludovica;
Fariselli, Piero;
Martelli, Pier Luigi;
Ben-Tal, Nir

Publication type:

Article

Multimodal network diffusion predicts future disease–gene–chemical associations.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1536, doi. 10.1093/bioinformatics/bty858

By:

Lin, Chih-Hsu;
Konecki, Daniel M;
Liu, Meng;
Nassar, Huda;
Gleich, David F;
Wilson, Stephen J;
Wilkins, Angela D;
Lichtarge, Olivier

Publication type:

Article

MSPminer: abundance-based reconstitution of microbial pan-genomes from shotgun metagenomic data.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1544, doi. 10.1093/bioinformatics/bty830

By:

Oñate, Florian Plaza;
Chatelier, Emmanuelle Le;
Almeida, Mathieu;
Gauthier, Franck;
Ehrlich, S Dusko;
Cervino, Alessandra C L;
Pichaud, Matthieu;
Magoulès, Frédéric

Publication type:

Article

Misunderstood parameter of NCBI BLAST impacts the correctness of bioinformatics workflows.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1613, doi. 10.1093/bioinformatics/bty833

By:

Shah, Nidhi;
Pop, Mihai;
Nute, Michael G;
Warnow, Tandy

Publication type:

Article

MetaOmics: analysis pipeline and browser-based software suite for transcriptomic meta-analysis.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1597, doi. 10.1093/bioinformatics/bty825

By:

Ma, Tianzhou;
Li, Jia;
Song, Chi;
Oesterreich, Steffi;
Sibille, Etienne;
Huo, Zhiguang;
Kuo, Anche;
Zhu, Li;
Fang, Zhou;
Liu, Peng;
Rahman, Tanbin;
Park, Yongseok;
Tseng, George C;
Zeng, Xiangrui;
Lin, Chien-Wei;
Liu, Silvia;
Wang, Lin;
Chang, Lun-Ching;
Kim, Sunghwan

Publication type:

Article

LION LBD: a literature-based discovery system for cancer biology.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1553, doi. 10.1093/bioinformatics/bty845

By:

Pyysalo, Sampo;
Baker, Simon;
Haselwimmer, Stefan;
Shah, Tejas;
Guo, Yufan;
Korhonen, Anna;
Ali, Imran;
Högberg, Johan;
Stenius, Ulla;
Young, Andrew;
Narita, Masashi

Publication type:

Article

Learning and Imputation for Mass-spec Bias Reduction (LIMBR).

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1518, doi. 10.1093/bioinformatics/bty828

By:

Crowell, Alexander M;
Dunlap, Jay C;
Greene, Casey S;
Loros, Jennifer J

Publication type:

Article

Large-scale prediction of binding affinity in protein–small ligand complexes: the PRODIGY-LIG web server.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1585, doi. 10.1093/bioinformatics/bty816

By:

Vangone, Anna;
Schaarschmidt, Joerg;
Koukos, Panagiotis;
Geng, Cunliang;
Citro, Nevia;
Trellet, Mikael E;
Xue, Li C;
Bonvin, Alexandre M J J

Publication type:

Article

iTerm-PseKNC: a sequence-based tool for predicting bacterial transcriptional terminators.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1469, doi. 10.1093/bioinformatics/bty827

By:

Feng, Chao-Qin;
Zhang, Zhao-Yue;
Zhu, Xiao-Juan;
Lin, Hao;
Lin, Yan;
Chen, Wei;
Tang, Hua

Publication type:

Article

Inferring disease-associated long non-coding RNAs using genome-wide tissue expression profiles.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1494, doi. 10.1093/bioinformatics/bty859

By:

Pan, Xiaoyong;
Jensen, Lars Juhl;
Gorodkin, Jan

Publication type:

Article

High precision protein functional site detection using 3D convolutional neural networks.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1503, doi. 10.1093/bioinformatics/bty813

By:

Torng, Wen;
Altman, Russ B

Publication type:

Article

The EVcouplings Python framework for coevolutionary sequence analysis.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1582, doi. 10.1093/bioinformatics/bty862

By:

Hopf, Thomas A;
Green, Anna G;
Mersmann, Sophia;
Ingraham, John B;
Toth-Petroczy, Agnes;
Brock, Kelly;
Riesselman, Adam J;
Kang, Chan;
Marks, Debora S;
Schubert, Benjamin;
Schärfe, Charlotta P I;
Palmedo, Perry;
Sheridan, Robert;
Draizen, Eli J;
Dallago, Christian;
Sander, Chris

Publication type:

Article

De novo pattern discovery enables robust assessment of functional consequences of non-coding variants.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1453, doi. 10.1093/bioinformatics/bty826

By:

Yang, Hai;
Chen, Rui;
Wang, Quan;
Wei, Qiang;
Ji, Ying;
Zheng, Guangze;
Li, Bingshan;
Zhong, Xue;
Cox, Nancy J

Publication type:

Article

Colocalization analyses of genomic elements: approaches, recommendations and challenges.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1615, doi. 10.1093/bioinformatics/bty835

By:

Kanduri, Chakravarthi;
Sandve, Geir Kjetil;
Bock, Christoph;
Gundersen, Sveinung;
Hovig, Eivind

Publication type:

Article

CANDI: an R package and Shiny app for annotating radiographs and evaluating computer-aided diagnosis.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1610, doi. 10.1093/bioinformatics/bty855

By:

Badgeley, Marcus A;
Liu, Manway;
Snyder, Thomas M;
Glicksberg, Benjamin S;
Shervey, Mark;
Dudley, Joel T;
Zech, John;
Shameer, Khader;
Lehar, Joseph;
Oermann, Eric K;
McConnell, Michael V

Publication type:

Article

AbPredict 2: a server for accurate and unstrained structure prediction of antibody variable domains.

Published in:

Bioinformatics, 2019, v. 35, n. 9, p. 1591, doi. 10.1093/bioinformatics/bty822

By:

Lapidoth, Gideon;
Fleishman, Sarel J;
Parker, Jake;
Prilusky, Jaime

Publication type:

Article