Works matching IS 13674803 AND DT 2015 AND VI 31 AND IP 20

Results: 36

Local versus global biological network alignment.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3155, doi. 10.1093/bioinformatics/btw348

By:

Lei Meng;
Striegel, Aaron;
Milenković, Tijana

Publication type:

Article

GORpipe: a query tool for working with sequence data based on a Genomic Ordered Relational (GOR) architecture.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3081, doi. 10.1093/bioinformatics/btw199

By:

Guðbjartsson, Hákon;
Georgsson, Guðmundur Fr.;
Guðjónsson, Sigurjón A.;
Valdimarsson, Ragnar þór;
Sigurðsson, Jóhann H.;
Stefánsson, Sigmar K.;
Másson, Gísli;
Magnússon, Gísli;
Pálmason, Vilmundur;
Stefánsson, Kári

Publication type:

Article

PEP_scaffolder: using (homologous) proteins to scaffold genomes.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3193, doi. 10.1093/bioinformatics/btw378

By:

Bai-Han Zhu;
Ying-Nan Song;
Wei Xue;
Gui-Cai Xu;
Jun Xiao;
Ming-Yuan Sun;
Xiao-Wen Sun;
Jiong-Tang Li

Publication type:

Article

NCC-AUC: an AUC optimization method to identify multi-biomarker panel for cancer prognosis from genomic and clinical data.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3330, doi. 10.1093/bioinformatics/btv374

By:

Meng Zou;
Zhaoqi Liu;
Xiang-Sun Zhang;
Yong Wang

Publication type:

Article

A note on the false discovery rate of novel peptides in proteogenomics.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3249, doi. 10.1093/bioinformatics/btv340

By:

Kun Zhang;
Yan Fu;
Wen-Feng Zeng;
Kun He;
Hao Chi;
Chao Liu;
Yan-Chang Li;
Yuan Gao;
Ping Xu;
Si-Min He

Publication type:

Article

Bandage: interactive visualization of de novo genome assemblies.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3350, doi. 10.1093/bioinformatics/btv383

By:

Wick, Ryan R.;
Schultz, Mark B.;
Zobel, Justin;
Holt, Kathryn E.

Publication type:

Article

Chimira: analysis of small RNA sequencing data and microRNA modifications.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3365, doi. 10.1093/bioinformatics/btv380

By:

Vitsios, Dimitrios M.;
Enright, Anton J.

Publication type:

Article

Assembling short reads from jumping libraries with large insert sizes.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3262, doi. 10.1093/bioinformatics/btv337

By:

Vasilinetc, Irina;
Prjibelski, Andrey D.;
Gurevich, Alexey;
Korobeynikov, Anton;
Pevzner, Pavel A.

Publication type:

Article

libRoadRunner: a high performance SBML simulation and analysis library.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3315, doi. 10.1093/bioinformatics/btv363

By:

Somogyi, Endre T.;
Bouteiller, Jean-Marie;
Glazier, James A.;
König, Matthias;
Medley, J. Kyle;
Swat, Maciej H.;
Sauro, Herbert M.

Publication type:

Article

Real-time multi-view deconvolution.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3398, doi. 10.1093/bioinformatics/btv387

By:

Schmid, Benjamin;
Huisken, Jan

Publication type:

Article

TPpred3 detects and discriminates mitochondrial and chloroplastic targeting peptides in eukaryotic proteins.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3269, doi. 10.1093/bioinformatics/btv367

By:

Savojardo, Castrense;
Martelli, Pier Luigi;
Fariselli, Piero;
Casadio, Rita

Publication type:

Article

JSBML 1.0: providing a smorgasbord of options to encode systems biology models.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3383, doi. 10.1093/bioinformatics/btv341

By:

Rodriguez, Nicolas;
Thomas, Alex;
Watanabe, Leandro;
Vazirabad, Ibrahim Y.;
Kofia, Victor;
Gómez, Harold F.;
Mittag, Florian;
Matthes, Jakob;
Rudolph, Jan;
Wrzodek, Finja;
Netz, Eugen;
Diamantikos, Alexander;
Eichner, Johannes;
Keller, Roland;
Wrzodek, Clemens;
Fröhlich, Sebastian;
Lewis, Nathan E.;
Myers, Chris J.;
Le Novère, Nicolas;
Palsson, Bernhard Ø.

Publication type:

Article

REDEMPTION: reduced dimension ensemble modeling and parameter estimation.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3387, doi. 10.1093/bioinformatics/btv365

By:

Yang Liu;
Manesso, Erica;
Gunawan, Rudiyanto

Publication type:

Article

Fast-SL: an efficient algorithm to identify synthetic lethal sets in metabolic networks.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3299, doi. 10.1093/bioinformatics/btv352

By:

Pratapa, Aditya;
Balachandran, Shankar;
Raman, Karthik

Publication type:

Article

Quantitative frame analysis and the annotation of GC-rich (and other) prokaryotic genomes. An application to Anaeromyxobacter dehalogenans.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3254, doi. 10.1093/bioinformatics/btv339

By:

Oden, Steve;
Brocchieri, Luciano

Publication type:

Article

LFQC: a lossless compression algorithm for FASTQ files.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3276, doi. 10.1093/bioinformatics/btv384

By:

Nicolae, Marius;
Pathak, Sudipta;
Rajasekaran, Sanguthevar

Publication type:

Article

MetaQuery: a web server for rapid annotation and quantitative analysis of specific genes in the human gut microbiome.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3368, doi. 10.1093/bioinformatics/btv382

By:

Nayfach, Stephen;
Fischbach, Michael A.;
Pollard, Katherine S.

Publication type:

Article

damidseq_pipeline: an automated pipeline for processing DamID sequencing datasets.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3371, doi. 10.1093/bioinformatics/btv386

By:

Marshall, Owen J.;
Brand, Andrea H.

Publication type:

Article

FoldNucleus: web server for the prediction of RNA and protein folding nuclei from their 3D structures.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3374, doi. 10.1093/bioinformatics/btv369

By:

Pereyaslavets, Leonid B.;
Sokolovsky, Igor V.;
Galzitskaya, Oxana V.

Publication type:

Article

IBS: an illustrator for the presentation and visualization of biological sequences.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3359, doi. 10.1093/bioinformatics/btv362

By:

Wenzhong Liu;
Yubin Xie;
Jiyong Ma;
Xiaotong Luo;
Peng Nie;
Zhixiang Zuo;
Lahrmann, Urs;
Qi Zhao;
Yueyuan Zheng;
Yong Zhao;
Yu Xue;
Jian Ren

Publication type:

Article

PPUS: a web server to predict PUS-specific pseudouridine sites.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3362, doi. 10.1093/bioinformatics/btv366

By:

Yan-Hui Li;
Gaigai Zhang;
Qinghua Cui

Publication type:

Article

An efficient Bayesian inference framework for coalescent-based nonparametric phylodynamics.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3282, doi. 10.1093/bioinformatics/btv378

By:

Shiwei Lan;
Palacios, Julia A.;
Karcher, Michael;
Minin, Vladimir N.;
Shahbaba, Babak

Publication type:

Article

GenomeD3Plot: a library for rich, interactive visualizations of genomic data in web applications.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3348, doi. 10.1093/bioinformatics/btv376

By:

Laird, Matthew R.;
Langille, Morgan G. I.;
Brinkman, Fiona S. L.

Publication type:

Article

MetaPathways v2.5: quantitative functional, taxonomic and usability improvements.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3345, doi. 10.1093/bioinformatics/btv361

By:

Konwar, Kishori M.;
Hanson, Niels W.;
Bhatia, Maya P.;
Dongjae Kim;
Shang-Ju Wu;
Hahn, Aria S.;
Morgan-Lang, Connor;
Hiu Kan Cheung;
Hallam, Steven J.

Publication type:

Article

Rchemcpp: a web service for structural analoging in ChEMBL, Drugbank and the Connectivity Map.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3392, doi. 10.1093/bioinformatics/btv373

By:

Klambauer, Günter;
Wischenbart, Martin;
Mahr, Michael;
Unterthiner, Thomas;
Mayr, Andreas;
Hochreiter, Sepp

Publication type:

Article

Forna (force-directed RNA): Simple and effective online RNA secondary structure diagrams.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3377, doi. 10.1093/bioinformatics/btv372

By:

Kerpedjiev, Peter;
Hammer, Stefan;
Hofacker, Ivo L.

Publication type:

Article

Sincell: an R/Bioconductor package for statistical assessment of cell-state hierarchies from single-cell RNA-seq.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3380, doi. 10.1093/bioinformatics/btv368

By:

Juliá, Miguel;
Telenti, Amalio;
Rausell, Antonio

Publication type:

Article

Change-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3356, doi. 10.1093/bioinformatics/btv359

By:

Gupta, Namita T.;
Vander Heiden, Jason A.;
Uduman, Mohamed;
Gadala-Maria, Daniel;
Yaari, Gur;
Kleinstein, Steven H.

Publication type:

Article

biRte: Bayesian inference of context-specific regulator activities and transcriptional networks.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3290, doi. 10.1093/bioinformatics/btv379

By:

Fröhlich, Holger

Publication type:

Article

Hyperscape: visualization for complex biological networks.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3390, doi. 10.1093/bioinformatics/btv385

By:

Cromar, Graham L.;
Zhao, Anthony;
Yang, Alex;
Parkinson, John

Publication type:

Article

Data Safe Havens in health research and healthcare.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3241, doi. 10.1093/bioinformatics/btv279

By:

Burton, Paul R.;
Murtagh, Madeleine J.;
Boyd, Andy;
Williams, James B.;
Dove, Edward S.;
Wallace, Susan E.;
Tassé, Anne-Marie;
Little, Julian;
Chisholm, Rex L.;
Gaye, Amadou;
Hveem, Kristian;
Brookes, Anthony J.;
Goodwin, Pat;
Fistein, Jon;
Bobrow, Martin;
Knoppers, Bartha M.

Publication type:

Article

IBiSS, a versatile and interactive tool for integrated sequence and 3D structure analysis of large macromolecular complexes.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3339, doi. 10.1093/bioinformatics/btv347

By:

Beinsteiner, Brice;
Michalon, Jonathan;
Klaholz, Bruno P.

Publication type:

Article

Investigating microbial co-occurrence patterns based on metagenomic compositional data.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3322, doi. 10.1093/bioinformatics/btv364

By:

Yuguang Ban;
Lingling An;
Hongmei Jiang

Publication type:

Article

AmyLoad: website dedicated to amyloidogenic protein fragments.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3395, doi. 10.1093/bioinformatics/btv375

By:

Wozniak, Pawel P.;
Kotulska, Malgorzata

Publication type:

Article

atSNP: transcription factor binding affinity testing for regulatory SNP detection.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3353, doi. 10.1093/bioinformatics/btv328

By:

Zuo, Chandler;
Sunyoung Shin;
Keleş, Sündüz

Publication type:

Article

TENET: topological feature-based target characterization in signalling networks.

Published in:

Bioinformatics, 2015, v. 31, n. 20, p. 3306, doi. 10.1093/bioinformatics/btv360

By:

Huey Eng Chua;
Bhowmick, Sourav S.;
Tucker-Kellogg, Lisa;
Dewey Jr, C. Forbes

Publication type:

Article