J Craig Venter Institute

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Founded in 1992, J. Craig Venter Institute is a not-for-profit research institute whose primary research interests are in structural, functional and comparative analysis of genomes and gene products from a wide variety of organisms

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J Craig Venter Institute's Articles

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Highly efficient hypothesis testing methods for regression-type tests with correlated observations and heterogeneous variance structure

Authors: Yun Zhang, Gautam Bandyopadhyay, David J. Topham, Ann R. Falsey and Xing Qiu

Citation: BMC Bioinformatics 2019 20:185

Content type: Methodology article Published on: 15 April 2019
OMeta: an ontology-based, data-driven metadata tracking system

Authors: Indresh Singh, Mehmet Kuscuoglu, Derek M. Harkins, Granger Sutton, Derrick E. Fouts and Karen E. Nelson

Citation: BMC Bioinformatics 2019 20:8

Content type: Software Published on: 7 January 2019
Visualization-assisted binning of metagenome assemblies reveals potential new pathogenic profiles in idiopathic travelers’ diarrhea

Authors: Qiyun Zhu, Christopher L. Dupont, Marcus B. Jones, Kevin M. Pham, Zhi-Dong Jiang, Herbert L. DuPont and Sarah K. Highlander

Citation: Microbiome 2018 6:201

Content type: Research Published on: 8 November 2018
Exome-wide analysis of bi-allelic alterations identifies a Lynch phenotype in The Cancer Genome Atlas

Authors: Alexandra R. Buckley, Trey Ideker, Hannah Carter, Olivier Harismendy and Nicholas J. Schork

Citation: Genome Medicine 2018 10:69

Content type: Research Published on: 14 September 2018
PanACEA: a bioinformatics tool for the exploration and visualization of bacterial pan-chromosomes

Authors: Thomas H. Clarke, Lauren M. Brinkac, Jason M. Inman, Granger Sutton and Derrick E. Fouts

Citation: BMC Bioinformatics 2018 19:246

Content type: Software Published on: 27 June 2018
DNA assembly with error correction on a droplet digital microfluidics platform

Authors: Yuliya Khilko, Philip D. Weyman, John I. Glass, Mark D. Adams, Melanie A. McNeil and Peter B. Griffin

Citation: BMC Biotechnology 2018 18:37

Content type: Methodology article Published on: 1 June 2018
Two inhibitors of yeast plasma membrane ATPase 1 (ScPma1p): toward the development of novel antifungal therapies

Authors: Sabine Ottilie, Gregory M. Goldgof, Andrea L. Cheung, Jennifer L. Walker, Edgar Vigil, Kenneth E. Allen, Yevgeniya Antonova-Koch, Carolyn W. Slayman, Yo Suzuki and Jacob D. Durrant

Citation: Journal of Cheminformatics 2018 10:6

Content type: Research article Published on: 20 February 2018
Latent tuberculosis infection and associated risk indicators in pastoral communities in southern Ethiopia: a community based cross-sectional study

Authors: Takele Teklu, Mengistu Legesse, Girmay Medhin, Aboma Zewude, Mahlet Chanyalew, Martha Zewdie, Biniam Wondale, Milkessa Haile-Mariam, Rembert Pieper and Gobena Ameni

Citation: BMC Public Health 2018 18:266

Content type: Research article Published on: 17 February 2018
Cell type discovery and representation in the era of high-content single cell phenotyping

Authors: Trygve Bakken, Lindsay Cowell, Brian D. Aevermann, Mark Novotny, Rebecca Hodge, Jeremy A. Miller, Alexandra Lee, Ivan Chang, Jamison McCorrison, Bali Pulendran, Yu Qian, Nicholas J. Schork, Roger S. Lasken, Ed S. Lein and Richard H. Scheuermann

Citation: BMC Bioinformatics 2017 18(Suppl 17):559

Content type: Research Published on: 21 December 2017

This article is part of a Supplement: Volume 18 Supplement 17
VDJPipe: a pipelined tool for pre-processing immune repertoire sequencing data

Authors: Scott Christley, Mikhail K. Levin, Inimary T. Toby, John M. Fonner, Nancy L. Monson, William H. Rounds, Florian Rubelt, Walter Scarborough, Richard H. Scheuermann and Lindsay G. Cowell

Citation: BMC Bioinformatics 2017 18:448

Content type: Software Published on: 11 October 2017
Nontuberculosis mycobacteria are the major causes of tuberculosis like lesions in cattle slaughtered at Bahir Dar Abattoir, northwestern Ethiopia

Authors: Anwar Nuru, Aboma Zewude, Temesgen Mohammed, Biniam Wondale, Laikemariam Teshome, Muluwork Getahun, Gezahegne Mamo, Girmay Medhin, Rembert Pieper and Gobena Ameni

Citation: BMC Veterinary Research 2017 13:237

Content type: Research article Published on: 15 August 2017
Erratum to: Genomic innovations, transcriptional plasticity and gene loss underlying the evolution and divergence of two highly polyphagous and invasive Helicoverpa pest species

Authors: S. L. Pearce, D. F. Clarke, P. D. East, S. Elfekih, K. H. J. Gordon, L. S. Jermiin, A. McGaughran, J. G. Oakeshott, A. Papanicolaou, O. P. Perera, R. V. Rane, S. Richards, W. T. Tay, T. K. Walsh, A. Anderson, C. J. Anderson…

Citation: BMC Biology 2017 15:69

Content type: Erratum Published on: 15 August 2017

The original article was published in BMC Biology 2017 15:63
Strategies for optimizing BioNano and Dovetail explored through a second reference quality assembly for the legume model, Medicago truncatula

Authors: Karen M. Moll, Peng Zhou, Thiruvarangan Ramaraj, Diego Fajardo, Nicholas P. Devitt, Michael J. Sadowsky, Robert M. Stupar, Peter Tiffin, Jason R. Miller, Nevin D. Young, Kevin A. T. Silverstein and Joann Mudge

Citation: BMC Genomics 2017 18:578

Content type: Research article Published on: 4 August 2017
Genomic innovations, transcriptional plasticity and gene loss underlying the evolution and divergence of two highly polyphagous and invasive Helicoverpa pest species

Authors: S. L. Pearce, D. F. Clarke, P. D. East, S. Elfekih, K. H. J. Gordon, L. S. Jermiin, A. McGaughran, J. G. Oakeshott, A. Papanikolaou, O. P. Perera, R. V. Rane, S. Richards, W. T. Tay, T. K. Walsh, A. Anderson, C. J. Anderson…

Citation: BMC Biology 2017 15:63

Content type: Research article Published on: 31 July 2017

The Erratum to this article has been published in BMC Biology 2017 15:69
The house spider genome reveals an ancient whole-genome duplication during arachnid evolution

Authors: Evelyn E. Schwager, Prashant P. Sharma, Thomas Clarke, Daniel J. Leite, Torsten Wierschin, Matthias Pechmann, Yasuko Akiyama-Oda, Lauren Esposito, Jesper Bechsgaard, Trine Bilde, Alexandra D. Buffry, Hsu Chao, Huyen Dinh, HarshaVardhan Doddapaneni, Shannon Dugan, Cornelius Eibner…

Citation: BMC Biology 2017 15:62

Content type: Research article Published on: 31 July 2017
Hybrid assembly with long and short reads improves discovery of gene family expansions

Authors: Jason R. Miller, Peng Zhou, Joann Mudge, James Gurtowski, Hayan Lee, Thiruvarangan Ramaraj, Brian P. Walenz, Junqi Liu, Robert M. Stupar, Roxanne Denny, Li Song, Namrata Singh, Lyza G. Maron, Susan R. McCouch, W. Richard McCombie, Michael C. Schatz…

Citation: BMC Genomics 2017 18:541

Content type: Methodology article Published on: 19 July 2017
Pan-cancer analysis reveals technical artifacts in TCGA germline variant calls

Authors: Alexandra R. Buckley, Kristopher A. Standish, Kunal Bhutani, Trey Ideker, Roger S. Lasken, Hannah Carter, Olivier Harismendy and Nicholas J. Schork

Citation: BMC Genomics 2017 18:458

Content type: Research article Published on: 12 June 2017
Utilization of defined microbial communities enables effective evaluation of meta-genomic assemblies

Authors: William W. Greenwald, Niels Klitgord, Victor Seguritan, Shibu Yooseph, J. Craig Venter, Chad Garner, Karen E. Nelson and Weizhong Li

Citation: BMC Genomics 2017 18:296

Content type: Research article Published on: 13 April 2017
Exploring structural variation and gene family architecture with De Novo assemblies of 15 Medicago genomes

Authors: Peng Zhou, Kevin A. T. Silverstein, Thiruvarangan Ramaraj, Joseph Guhlin, Roxanne Denny, Junqi Liu, Andrew D. Farmer, Kelly P. Steele, Robert M. Stupar, Jason R. Miller, Peter Tiffin, Joann Mudge and Nevin D. Young

Citation: BMC Genomics 2017 18:261

Content type: Research article Published on: 27 March 2017
Molecular typing of Mycobacterium tuberculosis complex isolated from pulmonary tuberculosis patients in central Ethiopia

Authors: Zufan Bedewi, Adane Worku, Yalemtsehay Mekonnen, Getnet Yimer, Girmay Medhin, Gezahegne Mamo, Rembert Pieper and Gobena Ameni

Citation: BMC Infectious Diseases 2017 17:184

Content type: Research article Published on: 1 March 2017

J Craig Venter Institute

J Craig Venter Institute's Articles

Highly efficient hypothesis testing methods for regression-type tests with correlated observations and heterogeneous variance structure

OMeta: an ontology-based, data-driven metadata tracking system

Visualization-assisted binning of metagenome assemblies reveals potential new pathogenic profiles in idiopathic travelers’ diarrhea

Exome-wide analysis of bi-allelic alterations identifies a Lynch phenotype in The Cancer Genome Atlas

PanACEA: a bioinformatics tool for the exploration and visualization of bacterial pan-chromosomes

DNA assembly with error correction on a droplet digital microfluidics platform

Two inhibitors of yeast plasma membrane ATPase 1 (ScPma1p): toward the development of novel antifungal therapies

Latent tuberculosis infection and associated risk indicators in pastoral communities in southern Ethiopia: a community based cross-sectional study

Cell type discovery and representation in the era of high-content single cell phenotyping

VDJPipe: a pipelined tool for pre-processing immune repertoire sequencing data

Nontuberculosis mycobacteria are the major causes of tuberculosis like lesions in cattle slaughtered at Bahir Dar Abattoir, northwestern Ethiopia

Erratum to: Genomic innovations, transcriptional plasticity and gene loss underlying the evolution and divergence of two highly polyphagous and invasive Helicoverpa pest species

Strategies for optimizing BioNano and Dovetail explored through a second reference quality assembly for the legume model, Medicago truncatula

Genomic innovations, transcriptional plasticity and gene loss underlying the evolution and divergence of two highly polyphagous and invasive Helicoverpa pest species

The house spider genome reveals an ancient whole-genome duplication during arachnid evolution

Hybrid assembly with long and short reads improves discovery of gene family expansions

Pan-cancer analysis reveals technical artifacts in TCGA germline variant calls

Utilization of defined microbial communities enables effective evaluation of meta-genomic assemblies

Exploring structural variation and gene family architecture with De Novo assemblies of 15 Medicago genomes

Molecular typing of Mycobacterium tuberculosis complex isolated from pulmonary tuberculosis patients in central Ethiopia