pypi: build | Projects | Ecosyste.ms: Papers

10.12688/gatesopenres.12832.2

DataPackageR: Reproducible data preprocessing, standardization and sharing using R/Bioconductor for collaborative data analysis
Cited by: 7
Author(s): Greg Finak, Bryan T. Mayer, William J. Fulp, Paul Obrecht, Alicia Sato, Eva Yin-han Chung, Drienna Holman, Raphaël Gottardo
Software Mentions: 19
Published: over 6 years ago

10.3389/fninf.2020.00027

NWB Query Engines: Tools to Search Data Stored in Neurodata Without Borders Format
Cited by: 2
Author(s): Petr Ježek, Jeffery L. Teeters, Friedrich T. Sommer
Software Mentions: 9
Published: about 4 years ago

10.1186/s12859-018-2287-y

miRge 2.0 for comprehensive analysis of microRNA sequencing data
Cited by: 54
Author(s): Yin Lu, Alexander S. Baras, Marc K. Halushka
Software Mentions: 9
Published: over 6 years ago

10.1038/sdata.2017.149

Building a locally diploid genome and transcriptome of the diatom Fragilariopsis cylindrus
Cited by: 12
Author(s): Pirita Paajanen, Jan Strauss, Cock van Oosterhout, Mark McMullan, Matt Clark, Thomas Möck
Software Mentions: 7
Published: about 7 years ago

10.12688/f1000research.6536.1

A reanalysis of mouse ENCODE comparative gene expression data
Cited by: 90
Author(s): Yoav Gilad, Orna Mizrahi-Man
Software Mentions: 5
Published: over 9 years ago

10.3389/fmicb.2020.587306

An Improved Sequencing-Based Bioinformatics Pipeline to Track the Distribution and Clonal Architecture of Proviral Integration Sites
Cited by: 4
Author(s): Nicolas Rosewick, Vincent Hahaut, Keith Durkin, Maria Artesi, Snehal D. Karpe, Jérôme Wayet, Philip Griebel, Natasa Arsic, Ambroise Marçais, Olivier Hermine, Arsène Burny, Michel Georges, Anne Van den Broeke
Software Mentions: 5
Published: about 4 years ago

10.1002/1878-0261.12491

A 17 gene panel for non‐small‐cell lung cancer prognosis identified through integrative epigenomic‐transcriptomic analyses of hypoxia‐induced epithelial–mesenchymal transition
Cited by: 21
Author(s): Yue‐Lei Chen, Yihe Zhang, Junwen Wang, Na Chen, Weiying Fang, Jianing Zhong, Yi Liu, Rui Qin, Xinxin Yu, Zhen Sun, Fei Gao
Software Mentions: 5
Published: over 5 years ago

10.1371/journal.pone.0181671

Broad-range lytic bacteriophages that kill Staphylococcus aureus local field strains
Cited by: 36
Author(s): Virginia Abatángelo, Natalia Peressutti Bacci, Carina Andrea Boncompain, Ariel Fernando Amadío, Soledad Telma Carrasco, Cristian Alejandro Suárez, Héctor Ricardo Morbidoni
Software Mentions: 4
Published: over 7 years ago

10.1107/S2059798321001765

Protein identification from electron cryomicroscopy maps by automated model building and side-chain matching
Cited by: 7
Author(s): Thomas C. Terwilliger, Oleg V. Sobolev, Pavel V. Afonine, Paul D. Adams, Chin-Ming Ho, Xiaorun Li, Z. Hong Zhou
Software Mentions: 4
Published: over 3 years ago

10.1371/journal.pone.0100018

Transcriptome Profiling Reveals Higher Vertebrate Orthologous of Intra-Cytoplasmic Pattern Recognition Receptors in Grey Bamboo Shark
Cited by: 18
Author(s): Tirumurugaan Krishnaswamy Gopalan, Pradheepa Gururaj, Ravi P. Gupta, Gopal Dhinakar Raj, Preeti Rajesh, Balachandran Chidambaram, Aravindan Kalyanasundaram, R. Amri
Software Mentions: 4
Published: over 10 years ago

10.1186/s12920-019-0580-x

A comprehensive genome-wide profiling comparison between HBV and HCV infected hepatocellular carcinoma
Cited by: 21
Author(s): Suofeng Sun, Yuan Li, Sun‐Young Han, Huiying Jia, Xiuling Li, Xiaofang Li
Software Mentions: 3
Published: about 5 years ago

10.3390/genes11030299

The Increase of Simple Sequence Repeats during Diversification of Marchantiidae, An Early Land Plant Lineage, Leads to the First Known Expansion of Inverted Repeats in the Evolutionarily-Stable Structure of Liverwort Plastomes
Cited by: 7
Author(s): Jakub Sawicki, Alina Bączkiewicz, Katarzyna Buczkowska, Piotr Górski, Katarzyna Krawczyk, Patryk Mizia, Kamil Myszczyński, Monika Ślipiko, Monika Szczecińska
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-019-43141-6

CRISPR-Cas9 Editing in Maize: Systematic Evaluation of Off-target Activity and Its Relevance in Crop Improvement
Cited by: 62
Author(s): Joshua K. Young, Gina Zastrow-Hayes, Stéphane Deschamps, Sergei Svitashev, Mindaugas Zaremba, Ananta Acharya, Sushmitha Paulraj, Brooke D. Peterson-Burch, Chris Schwartz, Vesna Djukanovic, Brian Lenderts, Lanie Feigenbutz, Limin Wang, Clara M. Alarcon, Virginijus Šikšnys, Gregory D. May, N. Doane Chilcoat, Sandeep Kumar
Software Mentions: 3
Published: over 5 years ago

10.1186/2041-1480-4-6

The 3rd DBCLS BioHackathon: improving life science data integration with Semantic Web technologies
Cited by: 27
Author(s): Toshiaki Katayama, Mark D. Wilkinson, Gos Micklem, Seiichiro Kawashima, Atsuko Yamaguchi, Mitsuteru Nakao, Yasunori Yamamoto, Shinobu Okamoto, Kenta Oouchida, Hong Woo Chun, Jan Aerts, Hammad Afzal, Erick Antezana, Kazuharu Arakawa, Bruno Aranda, François Belleau, Jerven Bolleman, Raoul Jean Pierre Bonnal, Brad Chapman, Peter J. A. Cock, Tore Eriksson, Paul M. Gordon, Naohisa Goto, Kazuhiro Hayashi, Heiko Horn, Ryosuke Ishiwata, Eli Kaminuma, Arek Kasprzyk, Hideya Kawaji, Nobuhiro Kido, Young Joo Kim, Akira R. Kinjo, Fumikazu Konishi, Kyung Hoon Kwon, Alberto Labarga, Anna‐Lena Lamprecht, Yuling Lin, Pierre Livet, Luke McCarthy, Hideyuki Morita, Katsuhiko Murakami, Koji Nagao, Kozo Nishida, Kunihiro Nishimura, Tatsuya Nishizawa, Soichi Ogishima, Keiichiro Ono, Kazuki Oshita, Keun Joon Park, Pjotr Prins, Taro Saito, Matthias Samwald, Venkata Satagopam, Yasumasa Shigemoto, Richard N. Smith, Andrea Splendiani, Hideaki Sugawara, James Taylor, Rutger A. Vos, David Withers, Chisato Yamasaki, Christian M. Zmasek, Shoko Kawamoto, Kosaku Okubo, Kiyoshi Asai, Toshihisa Takagi
Software Mentions: 3
Published: almost 12 years ago

10.3389/fgene.2020.558189

Genome-Wide Assessment of DNA Methylation in Chicken Cardiac Tissue Exposed to Different Incubation Temperatures and CO2 Levels
Cited by: 10
Author(s): Ryan J. Corbett, M.F.W. te Pas, H. van den Brand, M.A.M. Groenen, R.P.M.A. Crooijmans, Catherine W. Ernst, Ole Madsen
Software Mentions: 2
Published: about 4 years ago

10.3390/ijms21082962

Cholesterol Transport in Wild-Type NPC1 and P691S: Molecular Dynamics Simulations Reveal Changes in Dynamical Behavior
Cited by: 9
Author(s): Nadia Elghobashi-Meinhardt
Software Mentions: 1
Published: over 4 years ago

10.1186/1471-2164-15-610

GACT: a Genome build and Allele definition Conversion Tool for SNP imputation and meta-analysis in genetic association studies
Cited by: 8
Author(s): Arvis Sulovari, Dawei Li
Software Mentions: 1
Published: almost 11 years ago

10.1093/bioinformatics/btt254

A poor man’s BLASTX—high-throughput metagenomic protein database search using PAUDA
Cited by: 49
Author(s): Daniel H. Huson, Chao Xie
Software Mentions: 1
Published: over 11 years ago

10.3390/molecules25010082

Advances in Structure Modeling Methods for Cryo-Electron Microscopy Maps
Cited by: 24
Author(s): Eman Alnabati, Daisuke Kihara
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0225976

The transcriptome analysis of the Arabidopsis thaliana in response to the Vibrio vulnificus by RNA-sequencing
Cited by: 4
Author(s): Yongsoon Park, Seon‐Kyu Kim, Seon‐Young Kim, Kyung Mo Kim, Choong‐Min Ryu
Software Mentions: 1
Published: almost 5 years ago

10.1002/ece3.7973

Can functional genomic diversity provide novel insights into mechanisms of community assembly? A pilot study from an invaded alpine streambed
Cited by: 0
Author(s): Hannah E. Marx, Marta Carboni, Rolland Douzet, Christophe Perrier, Franck Delbart, Wilfried Thuiller, Sébastien Lavergne, David C. Tank
Software Mentions: 1
Published: over 3 years ago

Ecosyste.ms: Papers

Projects: pypi: build

Papers Mentioning build 21