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 4 of 11

Draft genome sequences for the obligate bacterial predators Bacteriovorax spp. of four phylogenetic clusters

Authors: Huan Chen, Lauren M Brinkac, Pamela Mishra, Nan Li, Despoina S Lymperopoulou, Tamar L Dickerson, Nadine Gordon-Bradley, Henry N Williams and Jonathan H Badger

Citation: Standards in Genomic Sciences 2015 10:11

Content type: Short genome report Published on: 24 March 2015
Recombinase-mediated cassette exchange (RMCE) system for functional genomics studies in Mycoplasma mycoides

Authors: Vladimir N Noskov, Li Ma, Stephen Chen and Ray-Yuan Chuang

Citation: Biological Procedures Online 2015 17:6

Content type: Methodology Published on: 2 March 2015
Optical mapping in plant comparative genomics

Authors: Haibao Tang, Eric Lyons and Christopher D Town

Citation: GigaScience 2015 4:3

Content type: Review Published on: 10 February 2015
A systematic evaluation of high-dimensional, ensemble-based regression for exploring large model spaces in microbiome analyses

Authors: Jyoti Shankar, Sebastian Szpakowski, Norma V Solis, Stephanie Mounaud, Hong Liu, Liliana Losada, William C Nierman and Scott G Filler

Citation: BMC Bioinformatics 2015 16:31

Content type: Research Article Published on: 1 February 2015
ALLMAPS: robust scaffold ordering based on multiple maps

Authors: Haibao Tang, Xingtan Zhang, Chenyong Miao, Jisen Zhang, Ray Ming, James C Schnable, Patrick S Schnable, Eric Lyons and Jianguo Lu

Citation: Genome Biology 2015 16:3

Content type: Method Published on: 13 January 2015
Protective variant associated with alcohol dependence in a Mexican American cohort

Authors: Trina M Norden-Krichmar, Ian R Gizer, Kirk C Wilhelmsen, Nicholas J Schork and Cindy L Ehlers

Citation: BMC Medical Genetics 2014 15:136

Content type: Research article Published on: 21 December 2014
Genomic and transcriptomic differences in community acquired methicillin resistant Staphylococcus aureus USA300 and USA400 strains

Authors: Marcus B Jones, Christopher P Montgomery, Susan Boyle-Vavra, Kenneth Shatzkes, Rosslyn Maybank, Bryan C Frank, Scott N Peterson and Robert S Daum

Citation: BMC Genomics 2014 15:1145

Content type: Research article Published on: 19 December 2014
Single cell genomics of bacterial pathogens: outlook for infectious disease research

Authors: Jeffrey S McLean and Roger S Lasken

Citation: Genome Medicine 2014 6:108

Content type: Comment Published on: 20 November 2014
MicroRNA-940 suppresses prostate cancer migration and invasion by regulating MIEN1

Authors: Smrithi Rajendiran, Anil V Parwani, Richard J Hare, Subhamoy Dasgupta, Rhonda K Roby and Jamboor K Vishwanatha

Citation: Molecular Cancer 2014 13:250

Content type: Research Published on: 19 November 2014
A novel approach for multi-domain and multi-gene family identification provides insights into evolutionary dynamics of disease resistance genes in core eudicot plants

Authors: Johannes A Hofberger, Beifei Zhou, Haibao Tang, Jonathan DG Jones and M Eric Schranz

Citation: BMC Genomics 2014 15:966

Content type: Research article Published on: 8 November 2014
ProbeAlign: incorporating high-throughput sequencing-based structure probing information into ncRNA homology search

Authors: Ping Ge, Cuncong Zhong and Shaojie Zhang

Citation: BMC Bioinformatics 2014 15(Suppl 9):S15

Content type: Proceedings Published on: 10 September 2014

This article is part of a Supplement: Volume 15 Supplement 9
A broad survey reveals substitution tolerance of residues ligating FeS clusters in [NiFe] hydrogenase

Authors: Isaac T Yonemoto, Benjamin R Clarkson, Hamilton O Smith and Philip D Weyman

Citation: BMC Biochemistry 2014 15:10

Content type: Research article Published on: 17 June 2014
Transcriptome and methylome profiling reveals relics of genome dominance in the mesopolyploid Brassica oleracea

Authors: Isobel AP Parkin, Chushin Koh, Haibao Tang, Stephen J Robinson, Sateesh Kagale, Wayne E Clarke, Chris D Town, John Nixon, Vivek Krishnakumar, Shelby L Bidwell, France Denoeud, Harry Belcram, Matthew G Links, Jérémy Just, Carling Clarke, Tricia Bender…

Citation: Genome Biology 2014 15:R77

Content type: Research Published on: 10 June 2014
An improved genome release (version Mt4.0) for the model legume Medicago truncatula

Authors: Haibao Tang, Vivek Krishnakumar, Shelby Bidwell, Benjamin Rosen, Agnes Chan, Shiguo Zhou, Laurent Gentzbittel, Kevin L Childs, Mark Yandell, Heidrun Gundlach, Klaus FX Mayer, David C Schwartz and Christopher D Town

Citation: BMC Genomics 2014 15:312

Content type: Research article Published on: 27 April 2014
Non-synonymous variations in cancer and their effects on the human proteome: workflow for NGS data biocuration and proteome-wide analysis of TCGA data

Authors: Charles Cole, Konstantinos Krampis, Konstantinos Karagiannis, Jonas S Almeida, William J Faison, Mona Motwani, Quan Wan, Anton Golikov, Yang Pan, Vahan Simonyan and Raja Mazumder

Citation: BMC Bioinformatics 2014 15:28

Content type: Methodology article Published on: 27 January 2014
Community differentiation of the cutaneous microbiota in psoriasis

Authors: Alexander V Alekseyenko, Guillermo I Perez-Perez, Aieska De Souza, Bruce Strober, Zhan Gao, Monika Bihan, Kelvin Li, Barbara A Methé and Martin J Blaser

Citation: Microbiome 2013 1:31

Content type: Research Published on: 23 December 2013
Assembly of eukaryotic algal chromosomes in yeast

Authors: Bogumil J Karas, Bhuvan Molparia, Jelena Jablanovic, Wolfgang J Hermann, Ying-Chi Lin, Christopher L Dupont, Christian Tagwerker, Isaac T Yonemoto, Vladimir N Noskov, Ray-Yuan Chuang, Andrew E Allen, John I Glass, Clyde A Hutchison III, Hamilton O Smith, J Craig Venter and Philip D Weyman

Citation: Journal of Biological Engineering 2013 7:30

Content type: Methodology Published on: 10 December 2013
The dynamics of functional classes of plant genes in rediploidized ancient polyploids

Authors: Eric CH Chen, Carlos Fernando Buen Abad Najar, Chunfang Zheng, Alex Brandts, Eric Lyons, Haibao Tang, Lorenzo Carretero-Paulet, Victor A Albert and David Sankoff

Citation: BMC Bioinformatics 2013 14(Suppl 15):S19

Content type: Proceedings Published on: 15 October 2013

This article is part of a Supplement: Volume 14 Supplement 15
An in vitrobiofilm model system maintaining a highly reproducible species and metabolic diversity approaching that of the human oral microbiome

Authors: Anna Edlund, Youngik Yang, Adam P Hall, Lihong Guo, Renate Lux, Xuesong He, Karen E Nelson, Kenneth H Nealson, Shibu Yooseph, Wenyuan Shi and Jeffrey S McLean

Citation: Microbiome 2013 1:25

Content type: Methodology Published on: 2 October 2013
The genome and transcriptome of the enteric parasite Entamoeba invadens, a model for encystation

Authors: Gretchen M Ehrenkaufer, Gareth D Weedall, Daryl Williams, Hernan A Lorenzi, Elisabet Caler, Neil Hall and Upinder Singh

Citation: Genome Biology 2013 14:R77

Content type: Research Published on: 26 July 2013

J Craig Venter Institute

J Craig Venter Institute's Articles

Draft genome sequences for the obligate bacterial predators Bacteriovorax spp. of four phylogenetic clusters

Recombinase-mediated cassette exchange (RMCE) system for functional genomics studies in Mycoplasma mycoides

Optical mapping in plant comparative genomics

A systematic evaluation of high-dimensional, ensemble-based regression for exploring large model spaces in microbiome analyses

ALLMAPS: robust scaffold ordering based on multiple maps

Protective variant associated with alcohol dependence in a Mexican American cohort

Genomic and transcriptomic differences in community acquired methicillin resistant Staphylococcus aureus USA300 and USA400 strains

Single cell genomics of bacterial pathogens: outlook for infectious disease research

MicroRNA-940 suppresses prostate cancer migration and invasion by regulating MIEN1

A novel approach for multi-domain and multi-gene family identification provides insights into evolutionary dynamics of disease resistance genes in core eudicot plants

ProbeAlign: incorporating high-throughput sequencing-based structure probing information into ncRNA homology search

A broad survey reveals substitution tolerance of residues ligating FeS clusters in [NiFe] hydrogenase

Transcriptome and methylome profiling reveals relics of genome dominance in the mesopolyploid Brassica oleracea

An improved genome release (version Mt4.0) for the model legume Medicago truncatula

Non-synonymous variations in cancer and their effects on the human proteome: workflow for NGS data biocuration and proteome-wide analysis of TCGA data

Community differentiation of the cutaneous microbiota in psoriasis

Assembly of eukaryotic algal chromosomes in yeast

The dynamics of functional classes of plant genes in rediploidized ancient polyploids

An in vitrobiofilm model system maintaining a highly reproducible species and metabolic diversity approaching that of the human oral microbiome

The genome and transcriptome of the enteric parasite Entamoeba invadens, a model for encystation