Richard Gibbs

Summary

Affiliation: Texas Medical Center
Country: USA

Publications

  1. ncbi request reprint Human genetics. Primate shadow play
    Richard A Gibbs
    Department of Molecular and Human Genetics, Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA
    Science 299:1331-3. 2003
  2. pmc Large scale variation in Enterococcus faecalis illustrated by the genome analysis of strain OG1RF
    Agathe Bourgogne
    Division of Infectious Diseases, Department of Medicine, University of Texas Medical School, Houston, Texas 77030, USA
    Genome Biol 9:R110. 2008
  3. ncbi request reprint The DNA sequence, annotation and analysis of human chromosome 3
    Donna M Muzny
    Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA
    Nature 440:1194-8. 2006
  4. ncbi request reprint Genome sequence of the Brown Norway rat yields insights into mammalian evolution
    Richard A Gibbs
    Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, MS BCM226, One Baylor Plaza, Houston, Texas 77030, USA lt http www hgsc bcm tmc edu
    Nature 428:493-521. 2004
  5. ncbi request reprint Evolutionary and biomedical insights from the rhesus macaque genome
    Richard A Gibbs
    Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA
    Science 316:222-34. 2007
  6. pmc Complete genome sequence of Rickettsia typhi and comparison with sequences of other rickettsiae
    Michael P McLeod
    Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Alkek N1519, Houston, TX 77030 7783, USA
    J Bacteriol 186:5842-55. 2004
  7. pmc Identification of rat genes by TWINSCAN gene prediction, RT-PCR, and direct sequencing
    Jia Qian Wu
    Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 14:665-71. 2004
  8. pmc Genomic analysis of the nuclear receptor family: new insights into structure, regulation, and evolution from the rat genome
    Zhengdong Zhang
    Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 14:580-90. 2004
  9. pmc Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution
    Stephen Richards
    Human Genome Sequencing Center and Department of Molecular and Human Genetics, Baylor College of Medicine, Houston Texas 77030, USA
    Genome Res 15:1-18. 2005
  10. pmc A sequence-level map of chromosomal breakpoints in the MCF-7 breast cancer cell line yields insights into the evolution of a cancer genome
    Oliver A Hampton
    Bioinformatics Research Laboratory, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 19:167-77. 2009

Detail Information

Publications68

  1. ncbi request reprint Human genetics. Primate shadow play
    Richard A Gibbs
    Department of Molecular and Human Genetics, Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA
    Science 299:1331-3. 2003
  2. pmc Large scale variation in Enterococcus faecalis illustrated by the genome analysis of strain OG1RF
    Agathe Bourgogne
    Division of Infectious Diseases, Department of Medicine, University of Texas Medical School, Houston, Texas 77030, USA
    Genome Biol 9:R110. 2008
    ..Enterococcus faecalis has emerged as a major hospital pathogen. To explore its diversity, we sequenced E. faecalis strain OG1RF, which is commonly used for molecular manipulation and virulence studies...
  3. ncbi request reprint The DNA sequence, annotation and analysis of human chromosome 3
    Donna M Muzny
    Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA
    Nature 440:1194-8. 2006
    ....
  4. ncbi request reprint Genome sequence of the Brown Norway rat yields insights into mammalian evolution
    Richard A Gibbs
    Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, MS BCM226, One Baylor Plaza, Houston, Texas 77030, USA lt http www hgsc bcm tmc edu
    Nature 428:493-521. 2004
    ....
  5. ncbi request reprint Evolutionary and biomedical insights from the rhesus macaque genome
    Richard A Gibbs
    Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA
    Science 316:222-34. 2007
    ..The complete description of the macaque genome blueprint enhances the utility of this animal model for biomedical research and improves our understanding of the basic biology of the species...
  6. pmc Complete genome sequence of Rickettsia typhi and comparison with sequences of other rickettsiae
    Michael P McLeod
    Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Alkek N1519, Houston, TX 77030 7783, USA
    J Bacteriol 186:5842-55. 2004
    ..conorii) groups diverged. The three-way comparison allowed further in silico analysis of the SpoT split genes, leading us to propose that the stringent response system is still functional in these rickettsiae...
  7. pmc Identification of rat genes by TWINSCAN gene prediction, RT-PCR, and direct sequencing
    Jia Qian Wu
    Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 14:665-71. 2004
    ..Spliced sequences were amplified in 46 cases (34%). We conclude that this procedure for elucidating gene structures with native cDNA sequences is cost-effective and will become even more so as it is further optimized...
  8. pmc Genomic analysis of the nuclear receptor family: new insights into structure, regulation, and evolution from the rat genome
    Zhengdong Zhang
    Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 14:580-90. 2004
    ..Their higher nucleotide substitution rates may be related to the central role played by these two NRs in the metabolism of the foreign compounds and may have resulted from limited positive selection...
  9. pmc Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution
    Stephen Richards
    Human Genome Sequencing Center and Department of Molecular and Human Genetics, Baylor College of Medicine, Houston Texas 77030, USA
    Genome Res 15:1-18. 2005
    ..Overall, a pattern of repeat-mediated chromosomal rearrangement, and high coadaptation of both male genes and cis-regulatory sequences emerges as important themes of genome divergence between these species of Drosophila...
  10. pmc A sequence-level map of chromosomal breakpoints in the MCF-7 breast cancer cell line yields insights into the evolution of a cancer genome
    Oliver A Hampton
    Bioinformatics Research Laboratory, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 19:167-77. 2009
    ..We show that knock-down of SULF2 in cell lines causes tumorigenic phenotypes, including increased proliferation, enhanced survival, and increased anchorage-independent growth...
  11. ncbi request reprint The finished DNA sequence of human chromosome 12
    Steven E Scherer
    Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA
    Nature 440:346-51. 2006
    ..The rate of base substitutions in recent evolutionary history shows an overall slowing in hominids compared with primates and rodents...
  12. doi request reprint The complete genome of an individual by massively parallel DNA sequencing
    David A Wheeler
    Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA
    Nature 452:872-6. 2008
    ..This is the first genome sequenced by next-generation technologies. Therefore it is a pilot for the future challenges of 'personalized genome sequencing'...
  13. ncbi request reprint Genetics. The critical region in trisomy 21
    David L Nelson
    Department of Molecular and Human Genetics and the Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA
    Science 306:619-21. 2004
  14. ncbi request reprint Large-scale RT-PCR recovery of full-length cDNA clones
    Jia Qian Wu
    Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Biotechniques 36:690-6, 698-700. 2004
    ..This systematic gene recovery pipeline allows both rescue of predicted human and rat genes and provides insight into the complexity of the transcriptome through comparisons with existing data sets...
  15. ncbi request reprint Concatenation cDNA sequencing for transcriptome analysis
    Preethi H Gunaratne
    Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    C R Biol 326:971-7. 2003
    ..Using this concatenation cDNA sequencing platform, we have contributed more than 13000 full-length cDNA sequences from human and mouse to the Mammalian Gene Collection (MGC)...
  16. pmc Molecular evidence of HIV-1 transmission in a criminal case
    Michael L Metzker
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA
    Proc Natl Acad Sci U S A 99:14292-7. 2002
    ..Resampling of blood from the suspected transmission pair and independent sequencing by different laboratories provided precaution against laboratory error...
  17. pmc Dynamic building of a BAC clone tiling path for the Rat Genome Sequencing Project
    Rui Chen
    Department of Molecular and Human Genetics, Human Genome Sequencing Center, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 14:679-84. 2004
    ..Combined with the assembled BAC fingerprint map, a set of BAC clones that covered >97% of the genome was identified and used in the RGSP...
  18. pmc Bos taurus genome assembly
    Yue Liu
    Department of Molecular and Human Genetics, Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
    BMC Genomics 10:180. 2009
    ..The assembly method combines the BAC plus WGS local assembly used for the rat and sea urchin with the whole genome shotgun (WGS) only assembly used for many other animal genomes including the rhesus macaque...
  19. pmc Pooled genomic indexing of rhesus macaque
    Aleksandar Milosavljevic
    Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 15:292-301. 2005
    ..A further innovation, short-tag pooled genomic indexing (ST-PGI), was also introduced to further improve the economy of mapping by sequencing multiple, short, mapable tags within a single sequencing reaction...
  20. doi request reprint The genome of the model beetle and pest Tribolium castaneum
    Stephen Richards
    Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA
    Nature 452:949-55. 2008
    ..Systemic RNA interference in T. castaneum functions differently from that in Caenorhabditis elegans, but nevertheless offers similar power for the elucidation of gene function and identification of targets for selective insect control...
  21. pmc Metagenomic pyrosequencing and microbial identification
    Joseph F Petrosino
    Department of Molecular Virology and Microbiology, Baylor College of Medicine, Houston, TX, USA
    Clin Chem 55:856-66. 2009
    ..The Human Microbiome Project has ushered in a new era for human metagenomics and high-throughput next-generation sequencing strategies...
  22. pmc The Atlas genome assembly system
    Paul Havlak
    Human Genome Sequencing Center, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 14:721-32. 2004
    ..Atlas was used to assemble a draft DNA sequence of the rat genome; its major components including overlapper and split-scaffold are also being used in pure WGS projects...
  23. pmc Common and rare variants of DAOA in bipolar disorder
    Manjula Maheshwari
    Human Genome Sequencing Center, Departments of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
    Am J Med Genet B Neuropsychiatr Genet 150:960-6. 2009
    ..Our results suggest that DAOA does not have a major effect on BP susceptibility. However, DAOA may contribute to bipolar susceptibility in some specific families as evidenced by the STEPC analysis...
  24. pmc A SNP discovery method to assess variant allele probability from next-generation resequencing data
    Yufeng Shen
    The Human Genome Sequencing Center, Baylor College of Medicine, Houston, Texas 77030, USA
    Genome Res 20:273-80. 2010
    ..Validation results show that Atlas-SNP2 achieves a false-positive rate of lower than 10%, with an approximately 5% or lower false-negative rate...
  25. ncbi request reprint Genome-wide linkage disequilibrium and haplotype maps
    John W Belmont
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
    Am J Pharmacogenomics 4:253-62. 2004
    ..Significant challenges lie ahead in determining the best methods for the selection of markers in disease/phenotype studies, large-scale genotyping, and analysis of the resulting genetic data...
  26. doi request reprint Whole-genome sequencing in a patient with Charcot-Marie-Tooth neuropathy
    James R Lupski
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA
    N Engl J Med 362:1181-91. 2010
    ..We therefore aimed to assess the usefulness of human whole-genome sequencing for genetic diagnosis in a patient with Charcot-Marie-Tooth disease...
  27. pmc Whole exome capture in solution with 3 Gbp of data
    Matthew N Bainbridge
    Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA
    Genome Biol 11:R62. 2010
    ....
  28. pmc Novel microRNA candidates and miRNA-mRNA pairs in embryonic stem (ES) cells
    Peili Gu
    Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, Texas, United States of America
    PLoS ONE 3:e2548. 2008
    ..They can either continuously replenish themselves (self-renewal), or differentiate into cells that execute a limited number of specific actions (pluripotence)...
  29. ncbi request reprint Single nucleotide polymorphisms in genes for 2'-5'-oligoadenylate synthetase and RNase L inpatients hospitalized with West Nile virus infection
    Imtiaz Yakub
    Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA
    J Infect Dis 192:1741-8. 2005
    ..Genetic susceptibility to severe WNV disease in humans has not been determined...
  30. pmc Positive selection of a pre-expansion CAG repeat of the human SCA2 gene
    Fuli Yu
    Human Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA
    PLoS Genet 1:e41. 2005
    ..These results suggest that a recent positive selection of the pre-expansion SCA2 CAG repeat has occurred in Utah residents with European ancestry...
  31. doi request reprint Sequencing the full-length of the phosphatase and tensin homolog (PTEN) gene in hepatocellular carcinoma (HCC) using the 454 GS20 and Illumina GA DNA sequencing platforms
    Joel A Rodriguez
    Michael E DeBakey Department of Surgery, Baylor College of Medicine, Houston, TX 77030, USA
    World J Surg 33:647-52. 2009
    ..To sequence the whole gene (including introns and exons), we have taken advantage of new technologies that allow for rapid, inexpensive sequencing to great depth...
  32. pmc Basic principles and technologies for deciphering the genetic map of cancer
    Georgios Voidonikolas
    Michael E DeBakey Department of Surgery, Baylor College of Medicine, Houston, TX 77030, USA
    World J Surg 33:615-29. 2009
    ..We also describe the possible applications of the discovery of DNA changes to the approach of this disease and cite preliminary efforts where the knowledge has been translated into the clinical or preclinical setting...
  33. pmc Developing a tissue resource to characterize the genome of pancreatic cancer
    Georgios Voidonikolas
    Michael E DeBakey Department of Surgery, Baylor College of Medicine, 1709 Dryden, Suite 1500, Houston, TX 77030, USA
    World J Surg 33:723-31. 2009
    ..This article summarizes the basic principles that guide the creation of such a repository, including sample processing and preservation techniques, sample size and composition, and collection of clinical data elements...
  34. pmc Glass bead purification of plasmid template DNA for high throughput sequencing of mammalian genomes
    Debra A Dederich
    Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, 1 Baylor Plaza, ALKEK Building, N1409, Houston, TX 77030, USA
    Nucleic Acids Res 30:e32. 2002
    ..2% and 516 bases, respectively. The cost of this direct lysis/glass bead method in September 2001 was approximately 10 cents per clone, which is a significant cost saving in high throughput genomic sequencing efforts...
  35. pmc Pulmonary alveolar proteinosis caused by deletion of the GM-CSFRalpha gene in the X chromosome pseudoautosomal region 1
    Margarita Martinez-Moczygemba
    Department of Medicine, Texas A and M College of Medicine, Texas A and M Health Science Center, Houston, TX 77030, USA
    J Exp Med 205:2711-6. 2008
    ..Using a combination of cellular, molecular, and genomic approaches, we provide the first evidence that PAP can result from a genetic deficiency of the GM-CSFR alpha chain, encoded in the X-chromosome pseudoautosomal region 1...
  36. pmc A collagen-binding adhesin, Acb, and ten other putative MSCRAMM and pilus family proteins of Streptococcus gallolyticus subsp. gallolyticus (Streptococcus bovis Group, biotype I)
    Jouko Sillanpaa
    Division of Infectious Diseases, Department of Internal Medicine, University of Texas Medical School at Houston, Houston, Texas 77030, USA
    J Bacteriol 191:6643-53. 2009
    ..gallolyticus subsp. gallolyticus isolates may play an important role in the predominance of this subspecies in S. bovis endocarditis...
  37. ncbi request reprint Meeting the growing demands of genetic research
    Amy L McGuire
    Center for Medical Ethics and Health Policy, Baylor College of Medicine, USA
    J Law Med Ethics 34:809-12. 2006
  38. doi request reprint Microarray analysis of somatostatin receptor 5-regulated gene expression profiles in murine pancreas
    Sanjeet G Patel
    The Michael E DeBakey Department of Surgery, Baylor College of Medicine, 1709 Dryden Street, Suite 1500, Houston, TX 77030, USA
    World J Surg 33:630-7. 2009
    ..We hypothesized that SSTR5 mediates the inhibitory effect of somatostatin (SST) on insulin secretion and islet proliferation by regulating a specific set of pancreatic genes...
  39. ncbi request reprint Shedding genomic light on Aristotle's lantern
    Erica Sodergren
    Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Alkek N1519, Houston, TX 77030, USA
    Dev Biol 300:2-8. 2006
    ..Analysis of the basic deuterostome genetic complement supports the sea urchin's role as a model system for deuterostome and, by extension, chordate development...
  40. ncbi request reprint Genetics. No longer de-identified
    Amy L McGuire
    Center for Medical Ethics and Health Policy, Baylor College of Medicine, Baylor College of Medicine, One Baylor Plaza, Suite 310D, Houston, TX 77030, USA
    Science 312:370-1. 2006
  41. pmc What everybody should know about the rat genome and its online resources
    Simon N Twigger
    Medical College of Wisconsin, 8701 Watertown Plank Road, Milwaukee, Wisconsin 53226, USA
    Nat Genet 40:523-7. 2008
    ....
  42. pmc SNPdetector: a software tool for sensitive and accurate SNP detection
    Jinghui Zhang
    Laboratory of Population Genetics, National Cancer Institute, National Institutes of Health, Bethesda, Maryland, United States of America
    PLoS Comput Biol 1:e53. 2005
    ..SNPdetector runs on Unix/Linux platform and is available publicly (http://lpg.nci.nih.gov)...
  43. pmc Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
    Adam Siepel
    Center for Biomolecular Science and Engineering, University of California, Santa Cruz, Santa Cruz, California 95064, USA
    Genome Res 15:1034-50. 2005
    ..Noncoding HCEs also show strong statistical evidence of an enrichment for RNA secondary structure...
  44. pmc The DNA sequence of the human X chromosome
    Mark T Ross
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
    Nature 434:325-37. 2005
    ..Of this number, 168 have been explained by mutations in 113 X-linked genes, which in many cases were characterized with the aid of the DNA sequence...
  45. pmc The genome of the sea urchin Strongylocentrotus purpuratus
    Erica Sodergren
    Science 314:941-52. 2006
    ..This echinoderm genome provides an evolutionary outgroup for the chordates and yields insights into the evolution of deuterostomes...
  46. pmc The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)
    Daniela S Gerhard
    Genome Res 14:2121-7. 2004
    ..Recently, a rat cDNA component was added to the project, and ongoing frog (Xenopus) and zebrafish (Danio) cDNA projects were expanded to take advantage of the high-throughput MGC pipeline...
  47. pmc Polymorphisms at the G72/G30 gene locus, on 13q33, are associated with bipolar disorder in two independent pedigree series
    Eiji Hattori
    Department of Psychiatry, The University of Chicago, IL 60637, USA
    Am J Hum Genet 72:1131-40. 2003
    ..Taken together with the earlier report, this is the first demonstration of a novel gene(s), discovered through a positional approach, independently associated with both bipolar illness and schizophrenia...
  48. pmc Finishing a whole-genome shotgun: release 3 of the Drosophila melanogaster euchromatic genome sequence
    Susan E Celniker
    Berkeley Drosophila Genome Project, Department of Genome Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
    Genome Biol 3:RESEARCH0079. 2002
    ....
  49. ncbi request reprint Initial sequencing and comparative analysis of the mouse genome
    Robert H Waterston
    Genome Sequencing Center, Washington University School of Medicine, Campus Box 8501, 4444 Forest Park Avenue, St Louis, Missouri 63108, USA
    Nature 420:520-62. 2002
    ....
  50. pmc Recurrent duplication-driven transposition of DNA during hominoid evolution
    Matthew E Johnson
    Department of Genome Sciences and the Howard Hughes Medical Institute, University of Washington, Seattle, WA 98195, USA
    Proc Natl Acad Sci U S A 103:17626-31. 2006
    ..Our data support a model of duplication where the probability that a segment of DNA becomes duplicated is determined by its proximity to core duplicons, such as LCR16a...
  51. pmc Phylogenomic analysis reveals bees and wasps (Hymenoptera) at the base of the radiation of Holometabolous insects
    Joel Savard
    Abteilung für Evolutionsgenetik, Institut fur Genetik, Universitat zu Koln, Köln 50674, Germany
    Genome Res 16:1334-8. 2006
    ..We validate our results by meticulous examination of potential confounding factors. Phylogenomic approaches are thus able to resolve long-standing questions about the phylogeny of insects...
  52. pmc The genome of Apis mellifera: dialog between linkage mapping and sequence assembly
    Michel Solignac
    Genome Biol 8:403. 2007
    ..Each construct was used to control the quality of the other. The co-linearity of markers in the sequence and the map is almost perfect and argues in favor of the high quality of both...
  53. pmc Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome
    Elliott H Margulies
    Genome Technology Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA
    Genome Res 17:760-74. 2007
    ..Together, these findings demonstrate and quantify how many genomic functional elements await basic molecular characterization...
  54. pmc Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
    Ewan Birney
    Nature 447:799-816. 2007
    ..Together, these studies are defining a path for pursuit of a more comprehensive characterization of human genome function...
  55. pmc 28-way vertebrate alignment and conservation track in the UCSC Genome Browser
    Webb Miller
    Center for Comparative Genomics and Bioinformatics, Penn State University, University Park, Pennsylvania 16802, USA
    Genome Res 17:1797-808. 2007
    ..Each functional class has a distinctive period of stringent constraint, followed by decays that allow (for the case of regulatory regions) or reject (for coding regions and ultraconserved elements) insertions and deletions...
  56. pmc Characterizing the cancer genome in lung adenocarcinoma
    Barbara A Weir
    Department of Medical Oncology and Center for Cancer Genome Discovery, Dana Farber Cancer Institute, Boston, Massachusetts 02115, USA
    Nature 450:893-8. 2007
    ..More generally, our results indicate that many of the genes that are involved in lung adenocarcinoma remain to be discovered...
  57. ncbi request reprint Community annotation: procedures, protocols, and supporting tools
    Christine G Elsik
    Department of Animal Science, Texas A and M University, College Station, Texas 77843, USA
    Genome Res 16:1329-33. 2006
    ..We present annotation procedures, standard protocols, and tools used for sequence analysis, data submission, and data management. We also report lessons learned from this dispersed community annotation effort for a metazoan genome...
  58. pmc Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences
    Robert L Strausberg
    National Cancer Institute, Bethessda, MD 20892 2580, USA
    Proc Natl Acad Sci U S A 99:16899-903. 2002
    ..All MGC sequences and clones are available without restriction through public databases and clone distribution networks (see http:mgc.nci.nih.gov)...
  59. pmc Variation in GRM3 affects cognition, prefrontal glutamate, and risk for schizophrenia
    Michael F Egan
    Clinical Brain Disorders Branch, Intramural Research Program, National Institute of Mental Health NIH DHHS, Building 10, Center Drive, Bethesda, MD 20892, USA
    Proc Natl Acad Sci U S A 101:12604-9. 2004
    ..These convergent data point to a specific molecular pathway by which GRM3 genotype alters glutamate neurotransmission, prefrontal and hippocampal physiology and cognition, and thereby increased risk for schizophrenia...
  60. ncbi request reprint Direct selection of human genomic loci by microarray hybridization
    Thomas J Albert
    NimbleGen Systems Inc, 1 Science Court, Madison, Wisconsin 53711, USA
    Nat Methods 4:903-5. 2007
    ..These direct selection methods supersede multiplex PCR for the large-scale analysis of genomic regions...
  61. pmc Highly multiplexed molecular inversion probe genotyping: over 10,000 targeted SNPs genotyped in a single tube assay
    Paul Hardenbol
    ParAllele BioScience, Inc, South San Francisco, California 94080, USA
    Genome Res 15:269-75. 2005
    ..The results of this study demonstrate the suitability of this technology for comprehensive association studies that use targeted SNPs in indirect linkage disequilibrium studies or that directly screen for causative mutations...
  62. pmc A second generation human haplotype map of over 3.1 million SNPs
    Kelly A Frazer
    The Scripps Research Institute, 10550 North Torrey Pines Road MEM275, La Jolla, California 92037, USA
    Nature 449:851-61. 2007
    ..Finally, we demonstrate increased differentiation at non-synonymous, compared to synonymous, SNPs, resulting from systematic differences in the strength or efficacy of natural selection between populations...
  63. pmc Genome-wide detection and characterization of positive selection in human populations
    Pardis C Sabeti
    Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02139, USA
    Nature 449:913-8. 2007
    ....
  64. ncbi request reprint Trp modification signals a quorum
    Richard A Gibbs
    Nat Chem Biol 1:7-8. 2005
  65. pmc The complete genome sequence of Escherichia coli DH10B: insights into the biology of a laboratory workhorse
    Tim Durfee
    DNASTAR, Inc, Madison, Wisconsin 53705, USA
    J Bacteriol 190:2597-606. 2008
    ..Finally, while the sequence confirms most of the reported alleles, the sequence of deoR is wild type, necessitating reexamination of the assumed basis for the high transformability of DH10B...
  66. pmc Analysis of transcriptome data in the red flour beetle, Tribolium castaneum
    Yoonseong Park
    Department of Entomology, Kansas State University, Manhattan, KS 66506 4004, USA
    Insect Biochem Mol Biol 38:380-6. 2008
    ..We conservatively estimate that the current EST set represents more than 7,500 transcription units...
  67. ncbi request reprint Molecular targets for emerging anti-tumor therapies for neurofibromatosis type 1
    Joshua T Dilworth
    Department of Pharmacology, Wayne State University, Detroit, MI, USA
    Biochem Pharmacol 72:1485-92. 2006
    ....

Research Grants16

  1. 1/5: Elucidating the Genetic Architecture of Autism by Deep Genomic Sequencing
    Richard A Gibbs; Fiscal Year: 2010
    ....
  2. Sequencing, assembly and annotation of a second Drosoph*
    Richard Gibbs; Fiscal Year: 2002
    ..pseudoobscura genes are fully represented. Two innovations for computer analysis of large sequence data sets will be explored. The per read cost for this work will be less than $1.80. ..
  3. 1/5: Elucidating the Genetic Architecture of Autism by Deep Genomic Sequencing
    Richard Gibbs; Fiscal Year: 2009
    ....
  4. The Genetic and Genomic Study of MicroRNA in Bipolar and Schizophrenia
    Richard A Gibbs; Fiscal Year: 2010
    ..These findings will potentially enhance our understanding of the miRNA genes and their potential roles in etiology of BD and SZ. Development of new diagnoses and treatments may result. ..
  5. The Genetic and Genomic Study of MicroRNA in Bipolar and Schizophrenia
    Richard Gibbs; Fiscal Year: 2007
    ..These findings will potentially enhance our understanding of the miRNA genes and their potential roles in etiology of BD and SZ. Development of new diagnoses and treatments may result. ..
  6. Genomes and Genetics at the BCM-HGSC
    Richard Gibbs; Fiscal Year: 2007
    ..The program will rely heavily on the Genboree tool for integrated genomics and will use its unique architecture to enable proper management of sensitive DNA sequence data from patient sources. ..
  7. A Human Haplotype Map by a Highly Multiplexed Method
    Richard Gibbs; Fiscal Year: 2004
    ..abstract_text> ..
  8. CONTINUING MEGABASE SEQUENCING AT THE BCM HGSC
    Richard Gibbs; Fiscal Year: 2003
    ....
  9. SEQUENCING THE RAT GENOME
    Richard Gibbs; Fiscal Year: 2003
    ..The new sequence comparison methods will be appropriate for both finished and draft sequence studies. ..
  10. Draft Sequence of the Rat Genome
    Richard Gibbs; Fiscal Year: 2002
    ..Finishing the rat sequence will be speeded by the development of a BAC minimum-tiling path across >95% of the genuine. ..