Haibao Tang

Summary

Publications

  1. pmc An improved genome release (version Mt4.0) for the model legume Medicago truncatula
    Haibao Tang
    J, Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD, USA
    BMC Genomics 15:312. 2014
  2. pmc Profiling of gene duplication patterns of sequenced teleost genomes: evidence for rapid lineage-specific genome expansion mediated by recent tandem duplications
    Jianguo Lu
    Department of Fisheries and Allied Aquacultures and Program of Cell and Molecular Biosciences, Auburn University, Auburn, AL 36849, USA
    BMC Genomics 13:246. 2012
  3. pmc Altered patterns of fractionation and exon deletions in Brassica rapa support a two-step model of paleohexaploidy
    Haibao Tang
    Department of Plant and Microbial Biology, University of California, Berkeley, California 94720, USA
    Genetics 190:1563-74. 2012
  4. pmc A physical map for the Amborella trichopoda genome sheds light on the evolution of angiosperm genome structure
    Andrea Zuccolo
    Arizona Genomics Institute, School of Plant Sciences and BIO5 Institute for Collaborative Research, University of Arizona, 1657 East Helen Street, Tucson, AZ 85721, USA
    Genome Biol 12:R48. 2011
  5. pmc A draft physical map of a D-genome cotton species (Gossypium raimondii)
    Lifeng Lin
    Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30605, USA
    BMC Genomics 11:395. 2010
  6. pmc Screening synteny blocks in pairwise genome comparisons through integer programming
    Haibao Tang
    Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA
    BMC Bioinformatics 12:102. 2011
  7. pmc Finding and comparing syntenic regions among Arabidopsis and the outgroups papaya, poplar, and grape: CoGe with rosids
    Eric Lyons
    Department of Plant and Microbial Biology, University of California, Berkeley, California 94720, USA
    Plant Physiol 148:1772-81. 2008
  8. pmc Different gene families in Arabidopsis thaliana transposed in different epochs and at different frequencies throughout the rosids
    Margaret R Woodhouse
    Department of Plant and Microbial Biology, University of California, Berkeley, California 94720, USA
    Plant Cell 23:4241-53. 2011
  9. ncbi Gobe: an interactive, web-based tool for comparative genomic visualization
    Brent S Pedersen
    Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA
    Bioinformatics 27:1015-6. 2011
  10. pmc Comparative genomic analysis of C4 photosynthetic pathway evolution in grasses
    Xiyin Wang
    Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30602, USA
    Genome Biol 10:R68. 2009

Collaborators

  • Xi Yin Wang
  • Michael Freeling
  • Eric Lyons
  • Brent S Pedersen
  • James C Schnable
  • A H Paterson
  • Feng Cheng
  • Ray Ming
  • Damon Lisch
  • Andrea Zuccolo
  • Tae Ho Lee
  • Jianguo Lu
  • Margaret R Woodhouse
  • Rod A Wing
  • Kristi Collura
  • Dave Kudrna
  • James C Estill
  • John E Bowers
  • Yeisoo Yu
  • Lifeng Lin
  • Zhanjiang Liu
  • Joshua Lewis
  • Eric Peatman
  • Yuannian Jiao
  • Steve Rounsley
  • John E Carlson
  • Meizhong Luo
  • Zhiyong Xiong
  • Brad Barbazuk
  • Victor A Albert
  • Saravanaraj Ayyampalayam
  • Claude W dePamphilis
  • Jim Leebens-Mack
  • Jose Luis Goicoechea
  • Jill Duarte
  • Jeffrey Tomkins
  • Douglas E Soltis
  • Hong Ma
  • Dina Mandoli
  • Jody Banks
  • Srikar Chamala
  • J Chris Pires
  • Andre Chanderbali
  • Aswathy Sebastian
  • Pamela S Soltis
  • Wolfgang Golser
  • Jaime Olive
  • Kristen Chicola
  • Changsoo Kim
  • Daniel G Peterson
  • Jonathan F Wendel
  • Junkang Rong
  • Santhosh Karunakaran
  • Amy H Chen
  • Gary J Pierce
  • Cornelia Lemke
  • Mehboob ur Rahman
  • Lisa K Rainville
  • Marina Wissotski
  • Nabila Tabassum
  • Corrinne Grover
  • Ethan Epps
  • Rosana O Compton
  • Michele Braidotti
  • Eareana Um
  • Jennifer Ingles

Detail Information

Publications11

  1. pmc An improved genome release (version Mt4.0) for the model legume Medicago truncatula
    Haibao Tang
    J, Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD, USA
    BMC Genomics 15:312. 2014
    ..The initial sequencing approach was based on a BAC tiling path, culminating in a BAC-based assembly (Mt3.5) as well as an in-depth analysis of the genome published in 2011...
  2. pmc Profiling of gene duplication patterns of sequenced teleost genomes: evidence for rapid lineage-specific genome expansion mediated by recent tandem duplications
    Jianguo Lu
    Department of Fisheries and Allied Aquacultures and Program of Cell and Molecular Biosciences, Auburn University, Auburn, AL 36849, USA
    BMC Genomics 13:246. 2012
    ....
  3. pmc Altered patterns of fractionation and exon deletions in Brassica rapa support a two-step model of paleohexaploidy
    Haibao Tang
    Department of Plant and Microbial Biology, University of California, Berkeley, California 94720, USA
    Genetics 190:1563-74. 2012
    ..The triplication and subsequent mode of fractionation could influence the potential to generate morphological diversity--a hallmark of the Brassica genus...
  4. pmc A physical map for the Amborella trichopoda genome sheds light on the evolution of angiosperm genome structure
    Andrea Zuccolo
    Arizona Genomics Institute, School of Plant Sciences and BIO5 Institute for Collaborative Research, University of Arizona, 1657 East Helen Street, Tucson, AZ 85721, USA
    Genome Biol 12:R48. 2011
    ..A physical map, BAC end sequences and sample shotgun sequences provide a first view of the 870 Mbp Amborella genome...
  5. pmc A draft physical map of a D-genome cotton species (Gossypium raimondii)
    Lifeng Lin
    Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30605, USA
    BMC Genomics 11:395. 2010
    ..Toward the long-term goal of characterizing the spectrum of diversity among cotton genomes, the worldwide cotton community has prioritized the D genome progenitor Gossypium raimondii for complete sequencing...
  6. pmc Screening synteny blocks in pairwise genome comparisons through integer programming
    Haibao Tang
    Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA
    BMC Bioinformatics 12:102. 2011
    ..We call this "quota-based" screening of synteny blocks in order to appropriately fill a quota of syntenic relationships within one genome or between two genomes having WGD events...
  7. pmc Finding and comparing syntenic regions among Arabidopsis and the outgroups papaya, poplar, and grape: CoGe with rosids
    Eric Lyons
    Department of Plant and Microbial Biology, University of California, Berkeley, California 94720, USA
    Plant Physiol 148:1772-81. 2008
    ..This précis of an online tutorial, CoGe with Rosids (http://tinyurl.com/4a23pk), presents sample results graphically...
  8. pmc Different gene families in Arabidopsis thaliana transposed in different epochs and at different frequencies throughout the rosids
    Margaret R Woodhouse
    Department of Plant and Microbial Biology, University of California, Berkeley, California 94720, USA
    Plant Cell 23:4241-53. 2011
    ....
  9. ncbi Gobe: an interactive, web-based tool for comparative genomic visualization
    Brent S Pedersen
    Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA
    Bioinformatics 27:1015-6. 2011
    ..Gobe can be used without installation through our web service, or downloaded and customized with stylesheets and javascript callback functions...
  10. pmc Comparative genomic analysis of C4 photosynthetic pathway evolution in grasses
    Xiyin Wang
    Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30602, USA
    Genome Biol 10:R68. 2009
    ....
  11. pmc PGDD: a database of gene and genome duplication in plants
    Tae Ho Lee
    Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30602, USA
    Nucleic Acids Res 41:D1152-8. 2013
    ..In addition to the inclusion of new genomes as they become available, we are preparing new functions to enhance PGDD...