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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Page 6 of 10

Meeting Report from the Genomic Standards Consortium (GSC) Workshop 9

Authors: Tanja Davidsen, Ramana Madupu, Peter Sterk, Dawn Field, George Garrity, Jack Gilbert, Frank Oliver Glöckner, Lynette Hirschman, Eugene Kolker, Renzo Kottmann, Nikos Kyrpides, Folker Meyer, Norman Morrison, Lynn Schriml, Tatiana Tatusova and John Wooley

Citation: Standards in Genomic Sciences 2010 3:3030216

Content type: Report

Published on: 31 December 2010
Genomic encyclopedia of sugar utilization pathways in the Shewanella genus

Authors: Dmitry A Rodionov, Chen Yang, Xiaoqing Li, Irina A Rodionova, Yanbing Wang, Anna Y Obraztsova, Olga P Zagnitko, Ross Overbeek, Margaret F Romine, Samantha Reed, James K Fredrickson, Kenneth H Nealson and Andrei L Osterman

Citation: BMC Genomics 2010 11:494

Content type: Research article

Published on: 13 September 2010
Molecular analysis of the diversity of vaginal microbiota associated with bacterial vaginosis

Authors: Zongxin Ling, Jianming Kong, Fang Liu, Haibin Zhu, Xiaoyi Chen, Yuezhu Wang, Lanjuan Li, Karen E Nelson, Yaxian Xia and Charlie Xiang

Citation: BMC Genomics 2010 11:488

Content type: Research article

Published on: 7 September 2010
VIGOR, an annotation program for small viral genomes

Authors: Shiliang Wang, Jaideep P Sundaram and David Spiro

Citation: BMC Bioinformatics 2010 11:451

Content type: Software

Published on: 7 September 2010
Digital expression profiling of novel diatom transcripts provides insight into their biological functions

Authors: Uma Maheswari, Kamel Jabbari, Jean-Louis Petit, Betina M Porcel, Andrew E Allen, Jean-Paul Cadoret, Alessandra De Martino, Marc Heijde, Raymond Kaas, Julie La Roche, Pascal J Lopez, Véronique Martin-Jézéquel, Agnès Meichenin, Thomas Mock, Micaela Schnitzler Parker, Assaf Vardi…

Citation: Genome Biology 2010 11:R85

Content type: Research

Published on: 25 August 2010
Distinguishing between cancer driver and passenger gene alteration candidates via cross-species comparison: a pilot study

Authors: Xinglai Ji, Jie Tang, Richard Halberg, Dana Busam, Steve Ferriera, Maria Marjorette O Peña, Chinnambally Venkataramu, Timothy J Yeatman and Shaying Zhao

Citation: BMC Cancer 2010 10:426

Content type: Research article

Published on: 13 August 2010
High throughput generation of promoter reporter (GFP) transgenic lines of low expressing genes in Arabidopsis and analysis of their expression patterns

Authors: Yong-Li Xiao, Julia C Redman, Erin L Monaghan, Jun Zhuang, Beverly A Underwood, William A Moskal, Wei Wang, Hank C Wu and Christopher D Town

Citation: Plant Methods 2010 6:18

Content type: Methodology

Published on: 6 August 2010
A proteogenomic update to Yersinia: enhancing genome annotation

Authors: Samuel H Payne, Shih-Ting Huang and Rembert Pieper

Citation: BMC Genomics 2010 11:460

Content type: Research article

Published on: 5 August 2010
A versatile palindromic amphipathic repeat coding sequence horizontally distributed among diverse bacterial and eucaryotic microbes

Authors: Kerstin Röske, Mark F Foecking, Shibu Yooseph, John I Glass, Michael J Calcutt and Kim S Wise

Citation: BMC Genomics 2010 11:430

Content type: Research article

Published on: 13 July 2010
Genome sequence of the necrotrophic plant pathogen Pythium ultimum reveals original pathogenicity mechanisms and effector repertoire

Authors: C André Lévesque, Henk Brouwer, Liliana Cano, John P Hamilton, Carson Holt, Edgar Huitema, Sylvain Raffaele, Gregg P Robideau, Marco Thines, Joe Win, Marcelo M Zerillo, Gordon W Beakes, Jeffrey L Boore, Dana Busam, Bernard Dumas, Steve Ferriera…

Citation: Genome Biology 2010 11:R73

Content type: Research

Published on: 13 July 2010
Response of the mosquito protein interaction network to dengue infection

Authors: Xiang Guo, Yao Xu, Guowu Bian, Andrew D Pike, Yan Xie and Zhiyong Xi

Citation: BMC Genomics 2010 11:380

Content type: Research article

Published on: 16 June 2010
Towards a comprehensive structural variation map of an individual human genome

Authors: Andy W Pang, Jeffrey R MacDonald, Dalila Pinto, John Wei, Muhammad A Rafiq, Donald F Conrad, Hansoo Park, Matthew E Hurles, Charles Lee, J Craig Venter, Ewen F Kirkness, Samuel Levy, Lars Feuk and Stephen W Scherer

Citation: Genome Biology 2010 11:R52

Content type: Research

Published on: 19 May 2010
The JCVI standard operating procedure for annotating prokaryotic metagenomic shotgun sequencing data

Authors: David M. Tanenbaum, Johannes Goll, Sean Murphy, Prateek Kumar, Nikhat Zafar, Mathangi Thiagarajan, Ramana Madupu, Tanja Davidsen, Leonid Kagan, Saul Kravitz, Douglas B. Rusch and Shibu Yooseph

Citation: Standards in Genomic Sciences 2010 2:2020229

Content type: OriginalPaper

Published on: 30 April 2010
Comparative analyses reveal distinct sets of lineage-specific genes within Arabidopsis thaliana

Authors: Haining Lin, Gaurav Moghe, Shu Ouyang, Amy Iezzoni, Shin-Han Shiu, Xun Gu and C Robin Buell

Citation: BMC Evolutionary Biology 2010 10:41

Content type: Research article

Published on: 12 February 2010
Sites Inferred by Metabolic Background Assertion Labeling (SIMBAL): adapting the Partial Phylogenetic Profiling algorithm to scan sequences for signatures that predict protein function

Authors: Jeremy D Selengut, Douglas B Rusch and Daniel H Haft

Citation: BMC Bioinformatics 2010 11:52

Content type: Methodology article

Published on: 26 January 2010
Single nucleotide polymorphisms for assessing genetic diversity in castor bean (Ricinus communis)

Authors: Jeffrey T Foster, Gerard J Allan, Agnes P Chan, Pablo D Rabinowicz, Jacques Ravel, Paul J Jackson and Paul Keim

Citation: BMC Plant Biology 2010 10:13

Content type: Research article

Published on: 18 January 2010
Potential impact of stress activated retrotransposons on genome evolution in a marine diatom

Authors: Florian Maumus, Andrew E Allen, Corinne Mhiri, Hanhua Hu, Kamel Jabbari, Assaf Vardi, Marie-Angèle Grandbastien and Chris Bowler

Citation: BMC Genomics 2009 10:624

Content type: Research article

Published on: 22 December 2009
Assessing the utility of whole-genome amplified serum DNA for array-based high throughput genotyping

Authors: Kristine L Bucasas, Gagan A Pandya, Sonal Pradhan, Robert D Fleischmann, Scott N Peterson and John W Belmont

Citation: BMC Genetics 2009 10:85

Content type: Research article

Published on: 18 December 2009
Whole genome single nucleotide polymorphism based phylogeny of Francisella tularensis and its application to the development of a strain typing assay

Authors: Gagan A Pandya, Michael H Holmes, Jeannine M Petersen, Sonal Pradhan, Svetlana A Karamycheva, Mark J Wolcott, Claudia Molins, Marcus Jones, Martin E Schriefer, Robert D Fleischmann and Scott N Peterson

Citation: BMC Microbiology 2009 9:213

Content type: Research article

Published on: 7 October 2009
Genome-scale comparison and constraint-based metabolic reconstruction of the facultative anaerobic Fe(III)-reducer Rhodoferax ferrireducens

Authors: Carla Risso, Jun Sun, Kai Zhuang, Radhakrishnan Mahadevan, Robert DeBoy, Wael Ismail, Susmita Shrivastava, Heather Huot, Sagar Kothari, Sean Daugherty, Olivia Bui, Christophe H Schilling, Derek R Lovley and Barbara A Methé

Citation: BMC Genomics 2009 10:447

Content type: Research article

Published on: 22 September 2009

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J Craig Venter Institute

J Craig Venter Institute's Articles

Meeting Report from the Genomic Standards Consortium (GSC) Workshop 9

Genomic encyclopedia of sugar utilization pathways in the Shewanella genus

Molecular analysis of the diversity of vaginal microbiota associated with bacterial vaginosis

VIGOR, an annotation program for small viral genomes

Digital expression profiling of novel diatom transcripts provides insight into their biological functions

Distinguishing between cancer driver and passenger gene alteration candidates via cross-species comparison: a pilot study

High throughput generation of promoter reporter (GFP) transgenic lines of low expressing genes in Arabidopsis and analysis of their expression patterns

A proteogenomic update to Yersinia: enhancing genome annotation

A versatile palindromic amphipathic repeat coding sequence horizontally distributed among diverse bacterial and eucaryotic microbes

Genome sequence of the necrotrophic plant pathogen Pythium ultimum reveals original pathogenicity mechanisms and effector repertoire

Response of the mosquito protein interaction network to dengue infection

Towards a comprehensive structural variation map of an individual human genome

The JCVI standard operating procedure for annotating prokaryotic metagenomic shotgun sequencing data

Comparative analyses reveal distinct sets of lineage-specific genes within Arabidopsis thaliana

Sites Inferred by Metabolic Background Assertion Labeling (SIMBAL): adapting the Partial Phylogenetic Profiling algorithm to scan sequences for signatures that predict protein function

Single nucleotide polymorphisms for assessing genetic diversity in castor bean (Ricinus communis)

Potential impact of stress activated retrotransposons on genome evolution in a marine diatom

Assessing the utility of whole-genome amplified serum DNA for array-based high throughput genotyping

Whole genome single nucleotide polymorphism based phylogeny of Francisella tularensis and its application to the development of a strain typing assay

Genome-scale comparison and constraint-based metabolic reconstruction of the facultative anaerobic Fe(III)-reducer Rhodoferax ferrireducens