Works matching IS 13674803 AND DT 2019 AND VI 35 AND IP 21

Results: 75

Performance of gene expression analyses using de novo assembled transcripts in polyploid species.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4314, doi. 10.1093/bioinformatics/btz620

By:

Chen, Ling-Yun;
Morales-Briones, Diego F;
Passow, Courtney N;
Yang, Ya

Publication type:

Article

Nanopype: a modular and scalable nanopore data processing pipeline.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4536, doi. 10.1093/bioinformatics/btz547

By:

Giesselmann, Pay;
Hetzel, Sara;
Müller, Franz-Josef;
Meissner, Alexander;
Kretzmer, Helene

Publication type:

Article

PgpRules: a decision tree based prediction server for P-glycoprotein substrates and inhibitors.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4535, doi. 10.1093/bioinformatics/btz546

By:

Wang, Pei-Hua;
Tu, Yi-Shu;
Tseng, Yufeng J

Publication type:

Article

Haplotype assembly of autotetraploid potato using integer linear programing.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4534, doi. 10.1093/bioinformatics/btz511

By:

Siragusa, Enrico;
Haiminen, Niina;
Finkers, Richard;
Visser, Richard;
Parida, Laxmi

Publication type:

Article

simuG: a general-purpose genome simulator.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4442, doi. 10.1093/bioinformatics/btz424

By:

Yue, Jia-Xing;
Liti, Gianni

Publication type:

Article

PathFXweb: a web application for identifying drug safety and efficacy phenotypes.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4504, doi. 10.1093/bioinformatics/btz419

By:

Wilson, Jennifer L;
Wong, Mike;
Chalke, Ajinkya;
Stepanov, Nicholas;
Petkovic, Dragutin;
Altman, Russ B

Publication type:

Article

CytoPacq: a web-interface for simulating multi-dimensional cell imaging.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4531, doi. 10.1093/bioinformatics/btz417

By:

Wiesner, David;
Svoboda, David;
Maška, Martin;
Kozubek, Michal

Publication type:

Article

SPar-K: a method to partition NGS signal data.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4440, doi. 10.1093/bioinformatics/btz416

By:

Groux, Romain;
Bucher, Philipp

Publication type:

Article

MetaQUBIC: a computational pipeline for gene-level functional profiling of metagenome and metatranscriptome.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4474, doi. 10.1093/bioinformatics/btz414

By:

Ma, Anjun;
Sun, Minxuan;
McDermaid, Adam;
Liu, Bingqiang;
Ma, Qin

Publication type:

Article

Entrezpy: a Python library to dynamically interact with the NCBI Entrez databases.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4511, doi. 10.1093/bioinformatics/btz385

By:

Buchmann, Jan P;
Holmes, Edward C

Publication type:

Article

HyAsP, a greedy tool for plasmids identification.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4436, doi. 10.1093/bioinformatics/btz413

By:

Müller, Robert;
Chauve, Cedric

Publication type:

Article

TPES: tumor purity estimation from SNVs.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4433, doi. 10.1093/bioinformatics/btz406

By:

Locallo, Alessio;
Prandi, Davide;
Fedrizzi, Tarcisio;
Demichelis, Francesca

Publication type:

Article

ntEdit: scalable genome sequence polishing.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4430, doi. 10.1093/bioinformatics/btz400

By:

Warren, René L;
Coombe, Lauren;
Mohamadi, Hamid;
Zhang, Jessica;
Jaquish, Barry;
Isabel, Nathalie;
Jones, Steven J M;
Bousquet, Jean;
Bohlmann, Joerg;
Birol, Inanç

Publication type:

Article

MyelinJ: an ImageJ macro for high throughput analysis of myelinating cultures.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4528, doi. 10.1093/bioinformatics/btz403

By:

Whitehead, Michael J;
McCanney, George A;
Willison, Hugh J;
Barnett, Susan C

Publication type:

Article

YeastSpotter: accurate and parameter-free web segmentation for microscopy images of yeast cells.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4525, doi. 10.1093/bioinformatics/btz402

By:

Lu, Alex X;
Zarin, Taraneh;
Hsu, Ian S;
Moses, Alan M

Publication type:

Article

PatientExploreR: an extensible application for dynamic visualization of patient clinical history from electronic health records in the OMOP common data model.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4515, doi. 10.1093/bioinformatics/btz409

By:

Glicksberg, Benjamin S;
Oskotsky, Boris;
Thangaraj, Phyllis M;
Giangreco, Nicholas;
Badgeley, Marcus A;
Johnson, Kipp W;
Datta, Debajyoti;
Rudrapatna, Vivek A;
Rappoport, Nadav;
Shervey, Mark M;
Miotto, Riccardo;
Goldstein, Theodore C;
Rutenberg, Eugenia;
Frazier, Remi;
Lee, Nelson;
Israni, Sharat;
Larsen, Rick;
Percha, Bethany;
Li, Li;
Dudley, Joel T

Publication type:

Article

epiTAD: a web application for visualizing chromosome conformation capture data in the context of genetic epidemiology.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4462, doi. 10.1093/bioinformatics/btz387

By:

Creed, Jordan H;
Aden-Buie, Garrick;
Monteiro, Alvaro N;
Gerke, Travis A

Publication type:

Article

INDRA-IPM: interactive pathway modeling using natural language with automated assembly.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4501, doi. 10.1093/bioinformatics/btz289

By:

Todorov, Petar V;
Gyori, Benjamin M;
Bachman, John A;
Sorger, Peter K

Publication type:

Article

Tibanna: software for scalable execution of portable pipelines on the cloud.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4424, doi. 10.1093/bioinformatics/btz379

By:

Lee, Soohyun;
Johnson, Jeremy;
Vitzthum, Carl;
Kırlı, Koray;
Alver, Burak H;
Park, Peter J

Publication type:

Article

Hayai-Annotation Plants: an ultra-fast and comprehensive functional gene annotation system in plants.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4427, doi. 10.1093/bioinformatics/btz380

By:

Ghelfi, Andrea;
Shirasawa, Kenta;
Hirakawa, Hideki;
Isobe, Sachiko

Publication type:

Article

Cram-JS: reference-based decompression in node and the browser.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4451, doi. 10.1093/bioinformatics/btz384

By:

Buels, Robert;
Dider, Shihab;
Diesh, Colin;
Robinson, James;
Holmes, Ian

Publication type:

Article

SPLATCHE3: simulation of serial genetic data under spatially explicit evolutionary scenarios including long-distance dispersal.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4480, doi. 10.1093/bioinformatics/btz311

By:

Currat, Mathias;
Arenas, Miguel;
Quilodràn, Claudio S;
Excoffier, Laurent;
Ray, Nicolas

Publication type:

Article

Graphical data mining of cancer mechanisms with SEMA.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4413, doi. 10.1093/bioinformatics/btz303

By:

Solmaz, Mustafa;
Lane, Adam;
Gonen, Bilal;
Akmamedova, Ogulsheker;
Gunes, Mehmet H;
Komurov, Kakajan

Publication type:

Article

G-OnRamp: a Galaxy-based platform for collaborative annotation of eukaryotic genomes.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4422, doi. 10.1093/bioinformatics/btz309

By:

Liu, Yating;
Sargent, Luke;
Leung, Wilson;
Elgin, Sarah C R;
Goecks, Jeremy

Publication type:

Article

gpart: human genome partitioning and visualization of high-density SNP data by identifying haplotype blocks.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4419, doi. 10.1093/bioinformatics/btz308

By:

Kim, Sun Ah;
Brossard, Myriam;
Roshandel, Delnaz;
Paterson, Andrew D;
Bull, Shelley B;
Yoo, Yun Joo

Publication type:

Article

RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4453, doi. 10.1093/bioinformatics/btz305

By:

Kozlov, Alexey M;
Darriba, Diego;
Flouri, Tomáš;
Morel, Benoit;
Stamatakis, Alexandros

Publication type:

Article

icHET: interactive visualization of cytoplasmic heteroplasmy.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4411, doi. 10.1093/bioinformatics/btz300

By:

Phan, Vinhthuy;
Pham, Diem-Trang;
Melton, Caroline;
Ramsey, Adam J;
Daigle, Bernie J;
Mandel, Jennifer R

Publication type:

Article

ORCA: a comprehensive bioinformatics container environment for education and research.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4448, doi. 10.1093/bioinformatics/btz278

By:

Jackman, Shaun D;
Mozgacheva, Tatyana;
Chen, Susie;
O'Huiginn, Brendan;
Bailey, Lance;
Birol, Inanc;
Jones, Steven J M

Publication type:

Article

MINERVA API and plugins: opening molecular network analysis and visualization to the community.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4496, doi. 10.1093/bioinformatics/btz286

By:

Hoksza, David;
Gawron, Piotr;
Ostaszewski, Marek;
Smula, Ewa;
Schneider, Reinhard

Publication type:

Article

clustermq enables efficient parallelization of genomic analyses.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4493, doi. 10.1093/bioinformatics/btz284

By:

Schubert, Michael

Publication type:

Article

RNA-align: quick and accurate alignment of RNA 3D structures based on size-independent TM-score<sub>RNA</sub>.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4459, doi. 10.1093/bioinformatics/btz282

By:

Gong, Sha;
Zhang, Chengxin;
Zhang, Yang

Publication type:

Article

The barcode, UMI, set format and BUStools.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4472, doi. 10.1093/bioinformatics/btz279

By:

Melsted, Páll;
Ntranos, Vasilis;
Pachter, Lior

Publication type:

Article

sbgntikz—a TikZ library to draw SBGN maps.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4499, doi. 10.1093/bioinformatics/btz287

By:

Rougny, Adrien

Publication type:

Article

TractaViewer: a genome-wide tool for preliminary assessment of therapeutic target druggability.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4509, doi. 10.1093/bioinformatics/btz270

By:

Pearson, Neil;
Malki, Karim;
Evans, David;
Vidler, Lewis;
Ruble, Cara;
Scherschel, James;
Eastwood, Brian;
Collier, David A

Publication type:

Article

PyPore: a python toolbox for nanopore sequencing data handling.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4445, doi. 10.1093/bioinformatics/btz269

By:

Semeraro, Roberto;
Magi, Alberto

Publication type:

Article

Overlap graph-based generation of haplotigs for diploids and polyploids.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4281, doi. 10.1093/bioinformatics/btz255

By:

Baaijens, Jasmijn A;
Schönhuth, Alexander

Publication type:

Article

A learning-based framework for miRNA-disease association identification using neural networks.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4364, doi. 10.1093/bioinformatics/btz254

By:

Peng, Jiajie;
Hui, Weiwei;
Li, Qianqian;
Chen, Bolin;
Hao, Jianye;
Jiang, Qinghua;
Shang, Xuequn;
Wei, Zhongyu

Publication type:

Article

Identifying centromeric satellites with dna-brnn.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4408, doi. 10.1093/bioinformatics/btz264

By:

Li, Heng

Publication type:

Article

SolidBin: improving metagenome binning with semi-supervised normalized cut.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4229, doi. 10.1093/bioinformatics/btz253

By:

Wang, Ziye;
Wang, Zhengyang;
Lu, Yang Young;
Sun, Fengzhu;
Zhu, Shanfeng

Publication type:

Article

The EntOptLayout Cytoscape plug-in for the efficient visualization of major protein complexes in protein–protein interaction and signalling networks.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4490, doi. 10.1093/bioinformatics/btz257

By:

Ágg, Bence;
Császár, Andrea;
Szalay-Bekő, Máté;
Veres, Dániel V;
Mizsei, Réka;
Ferdinandy, Péter;
Csermely, Péter;
Kovács, István A

Publication type:

Article

IsoformSwitchAnalyzeR: analysis of changes in genome-wide patterns of alternative splicing and its functional consequences.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4469, doi. 10.1093/bioinformatics/btz247

By:

Vitting-Seerup, Kristoffer;
Sandelin, Albin

Publication type:

Article

Spliceogen: an integrative, scalable tool for the discovery of splice-altering variants.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4405, doi. 10.1093/bioinformatics/btz263

By:

Monger, Steven;
Troup, Michael;
Ip, Eddie;
Dunwoodie, Sally L;
Giannoulatou, Eleni

Publication type:

Article

Biomedical image augmentation using Augmentor.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4522, doi. 10.1093/bioinformatics/btz259

By:

Bloice, Marcus D;
Roth, Peter M;
Holzinger, Andreas

Publication type:

Article

multiPhATE: bioinformatics pipeline for functional annotation of phage isolates.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4402, doi. 10.1093/bioinformatics/btz258

By:

Zhou, Carol L Ecale;
Malfatti, Stephanie;
Kimbrel, Jeffrey;
Philipson, Casandra;
McNair, Katelyn;
Hamilton, Theron;
Edwards, Robert;
Souza, Brian

Publication type:

Article

HiCNN: a very deep convolutional neural network to better enhance the resolution of Hi-C data.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4222, doi. 10.1093/bioinformatics/btz251

By:

Liu, Tong;
Wang, Zheng

Publication type:

Article

Lipid Mini-On: mining and ontology tool for enrichment analysis of lipidomic data.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4507, doi. 10.1093/bioinformatics/btz250

By:

Clair, Geremy;
Reehl, Sarah;
Stratton, Kelly G;
Monroe, Matthew E;
Tfaily, Malak M;
Ansong, Charles;
Kyle, Jennifer E

Publication type:

Article

Accounting for ambiguity in ancestral sequence reconstruction.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4290, doi. 10.1093/bioinformatics/btz249

By:

Oliva, A;
Pulicani, S;
Lefort, V;
Bréhélin, L;
Gascuel, O;
Guindon, S

Publication type:

Article

ASICS: an R package for a whole analysis workflow of 1D <sup>1</sup>H NMR spectra.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4356, doi. 10.1093/bioinformatics/btz248

By:

Lefort, Gaëlle;
Liaubet, Laurence;
Canlet, Cécile;
Tardivel, Patrick;
Père, Marie-Christine;
Quesnel, Hélène;
Paris, Alain;
Iannuccelli, Nathalie;
Vialaneix, Nathalie;
Servien, Rémi

Publication type:

Article

Variant Score Ranker—a web application for intuitive missense variant prioritization.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4478, doi. 10.1093/bioinformatics/btz252

By:

Du, Juanjiangmeng;
Sudarsanam, Monica;
Pérez-Palma, Eduardo;
Ganna, Andrea;
Francioli, Laurent;
Iqbal, Sumaiya;
Niestroj, Lisa-Marie;
Leu, Costin;
Weisburd, Ben;
Poterba, Tim;
Nürnberg, Peter;
Daly, Mark J;
Palotie, Aarno;
May, Patrick;
Lal, Dennis

Publication type:

Article

PEPred-Suite: improved and robust prediction of therapeutic peptides using adaptive feature representation learning.

Published in:

Bioinformatics, 2019, v. 35, n. 21, p. 4272, doi. 10.1093/bioinformatics/btz246

By:

Wei, Leyi;
Zhou, Chen;
Su, Ran;
Zou, Quan

Publication type:

Article