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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Prokaryotic Super Program Advisory Committee DOE Joint Genome Institute, Walnut Creek, CA, March 27, 2013

Authors: George M. Garrity, Jill Banfield, Jonathan Eisen, Niels van der Lelie, Trina McMahon, Doug Rusch, Edward DeLong, Mary Ann Moran, Cameron Currie, Jed Furhman, Steve Hallam, Phil Hugenholtz, Nancy Moran, Karen Nelson, Richard Roberts and Ramunas Stepanauskas

Citation: Standards in Genomic Sciences 2013 8:8030561

Content type: OriginalPaper Published on: 30 July 2013
GenePattern flow cytometry suite

Authors: Josef Spidlen, Aaron Barsky, Karin Breuer, Peter Carr, Marc-Danie Nazaire, Barbara Allen Hill, Yu Qian, Ted Liefeld, Michael Reich, Jill P Mesirov, Peter Wilkinson, Richard H Scheuermann, Rafick-Pierre Sekaly and Ryan R Brinkman

Citation: Source Code for Biology and Medicine 2013 8:14

Content type: Methodology Published on: 3 July 2013
Dual organism design cycle reveals small subunit substitutions that improve [NiFe] hydrogenase hydrogen evolution

Authors: Isaac T Yonemoto, Christopher W Matteri, Thao Amy Nguyen, Hamilton O Smith and Philip D Weyman

Citation: Journal of Biological Engineering 2013 7:17

Content type: Research Published on: 2 July 2013
Pyrosequencing analysis of the human microbiota of healthy Chinese undergraduates

Authors: Zongxin Ling, Xia Liu, Yueqiu Luo, Li Yuan, Karen E Nelson, Yuezhu Wang, Charlie Xiang and Lanjuan Li

Citation: BMC Genomics 2013 14:390

Content type: Research article Published on: 10 June 2013
Evolution of a reassortant North American gull influenza virus lineage: drift, shift and stability

Authors: Jeffrey S Hall, Joshua L TeSlaa, Sean W Nashold, Rebecca A Halpin, Timothy Stockwell, David E Wentworth, Vivien Dugan and Hon S Ip

Citation: Virology Journal 2013 10:179

Content type: Research Published on: 6 June 2013
Whole genome sequencing and comparative genomic analyses of two Vibrio cholerae O139 Bengal-specific Podovirusesto other N4-like phages reveal extensive genetic diversity

Authors: Derrick E Fouts, Jochen Klumpp, Kimberly A Bishop-Lilly, Mathumathi Rajavel, Kristin M Willner, Amy Butani, Matthew Henry, Biswajit Biswas, Manrong Li, M John Albert, Martin J Loessner, Richard Calendar and Shanmuga Sozhamannan

Citation: Virology Journal 2013 10:165

Content type: Research Published on: 28 May 2013
Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn.)

Authors: Ray Ming, Robert VanBuren, Yanling Liu, Mei Yang, Yuepeng Han, Lei-Ting Li, Qiong Zhang, Min-Jeong Kim, Michael C Schatz, Michael Campbell, Jingping Li, John E Bowers, Haibao Tang, Eric Lyons, Ann A Ferguson, Giuseppe Narzisi…

Citation: Genome Biology 2013 14:R41

Content type: Research Published on: 10 May 2013
Rapid research response to the 2009 A(H1N1)pdm09 influenza pandemic (Revised)

Authors: Wendy A Keitel, Pedro A Piedra, Robert L Atmar, Gail Demmler, Hana M El Sahly, Jill Barrett, Rebecca A Halpin, Rosanna Lagos, Susan Fisher-Hoch and Flor Munoz

Citation: BMC Research Notes 2013 6:177

Content type: Short Report Published on: 3 May 2013
Analysis of whole genome sequences of 16 strains of rubella virus from the United States, 1961–2009

Authors: Emily Abernathy, Min-hsin Chen, Jayati Bera, Susmita Shrivastava, Ewen Kirkness, Qi Zheng, William Bellini and Joseph Icenogle

Citation: Virology Journal 2013 10:32

Content type: Research Published on: 25 January 2013
Comparative genomic analysis and phylogenetic position of Theileria equi

Authors: Lowell S Kappmeyer, Mathangi Thiagarajan, David R Herndon, Joshua D Ramsay, Elisabet Caler, Appolinaire Djikeng, Joseph J Gillespie, Audrey OT Lau, Eric H Roalson, Joana C Silva, Marta G Silva, Carlos E Suarez, Massaro W Ueti, Vishvanath M Nene, Robert H Mealey, Donald P Knowles…

Citation: BMC Genomics 2012 13:603

Content type: Research article Published on: 9 November 2012
Whole transcriptome analysis of the silicon response of the diatom Thalassiosira pseudonana

Authors: Roshan Prakash Shrestha, Benoit Tesson, Trina Norden-Krichmar, Stephen Federowicz, Mark Hildebrand and Andrew E Allen

Citation: BMC Genomics 2012 13:499

Content type: Research article Published on: 20 September 2012
Integrated next-generation sequencing of 16S rDNA and metaproteomics differentiate the healthy urine microbiome from asymptomatic bacteriuria in neuropathic bladder associated with spinal cord injury

Authors: Derrick E Fouts, Rembert Pieper, Sebastian Szpakowski, Hans Pohl, Susan Knoblach, Moo-Jin Suh, Shih-Ting Huang, Inger Ljungberg, Bruce M Sprague, Sarah K Lucas, Manolito Torralba, Karen E Nelson and Suzanne L Groah

Citation: Journal of Translational Medicine 2012 10:174

Content type: Research Published on: 28 August 2012
A Multilocus Sequence Typing System (MLST) reveals a high level of diversity and a genetic component to Entamoeba histolytica virulence

Authors: Carol A Gilchrist, Ibne Karim M Ali, Mamun Kabir, Faisal Alam, Sana Scherbakova, Eric Ferlanti, Gareth D Weedall, Neil Hall, Rashidul Haque, William A Petri Jr and Elisabet Caler

Citation: BMC Microbiology 2012 12:151

Content type: Research article Published on: 27 July 2012
How do alignment programs perform on sequencing data with varying qualities and from repetitive regions?

Authors: Xiaoqing Yu, Kishore Guda, Joseph Willis, Martina Veigl, Zhenghe Wang, Sanford Markowitz, Mark D Adams and Shuying Sun

Citation: BioData Mining 2012 5:6

Content type: Research Published on: 18 June 2012
Profiling of gene duplication patterns of sequenced teleost genomes: evidence for rapid lineage-specific genome expansion mediated by recent tandem duplications

Authors: Jianguo Lu, Eric Peatman, Haibao Tang, Joshua Lewis and Zhanjiang Liu

Citation: BMC Genomics 2012 13:246

Content type: Research article Published on: 15 June 2012
Comparative genome analysis of 19 Ureaplasma urealyticum and Ureaplasma parvumstrains

Authors: Vanya Paralanov, Jin Lu, Lynn B Duffy, Donna M Crabb, Susmita Shrivastava, Barbara A Methé, Jason Inman, Shibu Yooseph, Li Xiao, Gail H Cassell, Ken B Waites and John I Glass

Citation: BMC Microbiology 2012 12:88

Content type: Research article Published on: 30 May 2012
A novel k-mer mixture logistic regression for methylation susceptibility modeling of CpG dinucleotides in human gene promoters

Authors: Youngik Yang, Kenneth Nephew and Sun Kim

Citation: BMC Bioinformatics 2012 13(Suppl 3):S15

Content type: Proceedings Published on: 21 March 2012

This article is part of a Supplement: Volume 13 Supplement 3
Cloud BioLinux: pre-configured and on-demand bioinformatics computing for the genomics community

Authors: Konstantinos Krampis, Tim Booth, Brad Chapman, Bela Tiwari, Mesude Bicak, Dawn Field and Karen E Nelson

Citation: BMC Bioinformatics 2012 13:42

Content type: Software Published on: 19 March 2012
ProPhylo: partial phylogenetic profiling to guide protein family construction and assignment of biological process

Authors: Malay K Basu, Jeremy D Selengut and Daniel H Haft

Citation: BMC Bioinformatics 2011 12:434

Content type: Software Published on: 9 November 2011
Comparative genomics of the pathogenic ciliate Ichthyophthirius multifiliis, its free-living relatives and a host species provide insights into adoption of a parasitic lifestyle and prospects for disease control

Authors: Robert S Coyne, Linda Hannick, Dhanasekaran Shanmugam, Jessica B Hostetler, Daniel Brami, Vinita S Joardar, Justin Johnson, Diana Radune, Irtisha Singh, Jonathan H Badger, Ujjwal Kumar, Milton Saier, Yufeng Wang, Hong Cai, Jianying Gu, Michael W Mather…

Citation: Genome Biology 2011 12:R100

Content type: Research Published on: 17 October 2011

J Craig Venter Institute

J Craig Venter Institute's Articles

Prokaryotic Super Program Advisory Committee DOE Joint Genome Institute, Walnut Creek, CA, March 27, 2013

GenePattern flow cytometry suite

Dual organism design cycle reveals small subunit substitutions that improve [NiFe] hydrogenase hydrogen evolution

Pyrosequencing analysis of the human microbiota of healthy Chinese undergraduates

Evolution of a reassortant North American gull influenza virus lineage: drift, shift and stability

Whole genome sequencing and comparative genomic analyses of two Vibrio cholerae O139 Bengal-specific Podovirusesto other N4-like phages reveal extensive genetic diversity

Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn.)

Rapid research response to the 2009 A(H1N1)pdm09 influenza pandemic (Revised)

Analysis of whole genome sequences of 16 strains of rubella virus from the United States, 1961–2009

Comparative genomic analysis and phylogenetic position of Theileria equi

Whole transcriptome analysis of the silicon response of the diatom Thalassiosira pseudonana

Integrated next-generation sequencing of 16S rDNA and metaproteomics differentiate the healthy urine microbiome from asymptomatic bacteriuria in neuropathic bladder associated with spinal cord injury

A Multilocus Sequence Typing System (MLST) reveals a high level of diversity and a genetic component to Entamoeba histolytica virulence

How do alignment programs perform on sequencing data with varying qualities and from repetitive regions?

Profiling of gene duplication patterns of sequenced teleost genomes: evidence for rapid lineage-specific genome expansion mediated by recent tandem duplications

Comparative genome analysis of 19 Ureaplasma urealyticum and Ureaplasma parvumstrains

A novel k-mer mixture logistic regression for methylation susceptibility modeling of CpG dinucleotides in human gene promoters

Cloud BioLinux: pre-configured and on-demand bioinformatics computing for the genomics community

ProPhylo: partial phylogenetic profiling to guide protein family construction and assignment of biological process

Comparative genomics of the pathogenic ciliate Ichthyophthirius multifiliis, its free-living relatives and a host species provide insights into adoption of a parasitic lifestyle and prospects for disease control