Brian Oliver

Summary

Affiliation: National Institutes of Health
Country: USA

Publications

  1. ncbi FlyGEM, a full transcriptome array platform for the Drosophila community
    Rick Johnston
    Incyte Genomics, Palo Alto, CA 94304, USA
    Genome Biol 5:R19. 2004
  2. ncbi Germline-dependent gene expression in distant non-gonadal somatic tissues of Drosophila
    Michael J Parisi
    Department of Biology, University of Pennsylvania, Philadelphia, PA, USA
    BMC Genomics 11:346. 2010
  3. ncbi How many genes in a genome?
    Brian Oliver
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes, Digestive and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, 50 South Dr, Bethesda, MD 20892 8028, USA
    Genome Biol 5:204. 2003
  4. ncbi Battle of the Xs
    Brian Oliver
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes, Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892 8028, USA
    Bioessays 26:543-8. 2004
  5. ncbi Gene expression neighborhoods
    Brian Oliver
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    J Biol 1:4. 2002
  6. ncbi Fly factory
    Brian Oliver
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda Maryland, 20892 USA
    Genome Res 12:1017-8. 2002
  7. ncbi Drosophila melanogaster, two years into the post-genomic era
    Brian Oliver
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Genome Biol 3:REPORTS4021. 2002
  8. ncbi A non-random walk through the genome
    Brian Oliver
    National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, Bethesda, MD 20892, USA
    Genome Biol 6:214. 2005
  9. ncbi Lipid profiles of female and male Drosophila
    Michael Parisi
    Section of Developmental Genomics, Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, 50 South Drive, Bethesda MD 20892, USA
    BMC Res Notes 4:198. 2011
  10. ncbi Suppression of distinct ovo phenotypes in the Drosophila female germline by maleless- and Sex-lethal
    B Oliver
    Laboratory of Cellular and Developmental Biology, NIDDK, National Institutes of Health, Bethesda, Maryland 20892, USA
    Dev Genet 23:335-46. 1998

Detail Information

Publications46

  1. ncbi FlyGEM, a full transcriptome array platform for the Drosophila community
    Rick Johnston
    Incyte Genomics, Palo Alto, CA 94304, USA
    Genome Biol 5:R19. 2004
    ..The array gene list has been extensively annotated and linked-out to other databases. Incyte and the NIH have made the platform available to the community via academic microarray facilities selected by an NIH committee...
  2. ncbi Germline-dependent gene expression in distant non-gonadal somatic tissues of Drosophila
    Michael J Parisi
    Department of Biology, University of Pennsylvania, Philadelphia, PA, USA
    BMC Genomics 11:346. 2010
    ..We know little about the coordinated regulation of gene expression patterns in distant somatic tissues that support the developmental cost of gamete production...
  3. ncbi How many genes in a genome?
    Brian Oliver
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes, Digestive and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, 50 South Dr, Bethesda, MD 20892 8028, USA
    Genome Biol 5:204. 2003
    ..A recent study has added perhaps 2,000 genes to the predicted total, and raises a number of questions about how genome annotation data should be stored and presented...
  4. ncbi Battle of the Xs
    Brian Oliver
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes, Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892 8028, USA
    Bioessays 26:543-8. 2004
    ..Recent microarray work in Drosophila and C. elegans clearly shows the opposite. Why is the X chromosome a highly disfavored location for genes with male-biased expression in these animals?..
  5. ncbi Gene expression neighborhoods
    Brian Oliver
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    J Biol 1:4. 2002
    ..The finding that neighboring eukaryotic genes are often expressed in similar patterns suggests the involvement of chromatin domains in the control of genes within a genomic neighborhood...
  6. ncbi Fly factory
    Brian Oliver
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda Maryland, 20892 USA
    Genome Res 12:1017-8. 2002
  7. ncbi Drosophila melanogaster, two years into the post-genomic era
    Brian Oliver
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Genome Biol 3:REPORTS4021. 2002
    ..A report on the 43rd Drosophila Research Conference held in San Diego, USA, 10-14 April 2002...
  8. ncbi A non-random walk through the genome
    Brian Oliver
    National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, Bethesda, MD 20892, USA
    Genome Biol 6:214. 2005
    ..It seems probable that this organization is related to chromatin and the structure of the nucleus...
  9. ncbi Lipid profiles of female and male Drosophila
    Michael Parisi
    Section of Developmental Genomics, Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, 50 South Drive, Bethesda MD 20892, USA
    BMC Res Notes 4:198. 2011
    ..abstract:..
  10. ncbi Suppression of distinct ovo phenotypes in the Drosophila female germline by maleless- and Sex-lethal
    B Oliver
    Laboratory of Cellular and Developmental Biology, NIDDK, National Institutes of Health, Bethesda, Maryland 20892, USA
    Dev Genet 23:335-46. 1998
    ..Thus, ovo+ is required for at least two distinct functions, one involving mle+, and one mediated by Sxl+ gene products. The existence of ovo+ functions independent of mle+ and Sxl+ is likely...
  11. ncbi Sex, dose, and equality
    Brian Oliver
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland, United States of America
    PLoS Biol 5:e340. 2007
  12. ncbi Core promoter sequences contribute to ovo-B regulation in the Drosophila melanogaster germline
    Beata Bielinska
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, Bethesda, Maryland 20892, USA
    Genetics 169:161-72. 2005
    ..This idea is further supported by the evolutionarily conserved organization of OVO binding sites at or near the start sites of ovo loci in other flies...
  13. ncbi Global analysis of X-chromosome dosage compensation
    Vaijayanti Gupta
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    J Biol 5:3. 2006
    ..Male germ cells lack MSL complexes, indicating that either germline X-chromosome dosage compensation is MSL-independent, or that germ cells do not carry out dosage compensation...
  14. ncbi Paucity of genes on the Drosophila X chromosome showing male-biased expression
    Michael Parisi
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, Bethesda, MD 20892-8028, USA
    Science 299:697-700. 2003
    ..These data indicate that the X chromosome is a disfavored location for genes selectively expressed in males...
  15. ncbi A survey of ovary-, testis-, and soma-biased gene expression in Drosophila melanogaster adults
    Michael Parisi
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, Bethesda, MD 20892, USA
    Genome Biol 5:R40. 2004
    ..Sexual dimorphism results in the formation of two types of individuals with specialized reproductive roles and is most evident in the germ cells and gonads...
  16. ncbi Expression in aneuploid Drosophila S2 cells
    Yu Zhang
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland, United States of America
    PLoS Biol 8:e1000320. 2010
    ..Our data indicate that expression dosage compensation dampens the effect of altered DNA copy number genome-wide. For the X chromosome, compensation includes fixed and dose-dependent components...
  17. ncbi Sex-specific DoublesexM expression in subsets of Drosophila somatic gonad cells
    Leonie U Hempel
    Laboratory of Cellular and Developmental Biology, NIDDK, National Institutes of Health, 50 South Drive, Bethesda MD 20892 USA
    BMC Dev Biol 7:113. 2007
    ..The male-specific DSXM represses genes involved in female development and activates genes involved in male development. Spatial and temporal control of dsx during embryogenesis is not well documented...
  18. ncbi Demasculinization of X chromosomes in the Drosophila genus
    David Sturgill
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, Bethesda Maryland 20892, USA
    Nature 450:238-41. 2007
    ....
  19. ncbi COPI complex is a regulator of lipid homeostasis
    Mathias Beller
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland, USA
    PLoS Biol 6:e292. 2008
    ..These data indicate that the COPI complex is an evolutionarily conserved regulator of lipid homeostasis, and highlight an interaction between vesicle transport systems and lipid droplets...
  20. ncbi Constraint and turnover in sex-biased gene expression in the genus Drosophila
    Yu Zhang
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, Bethesda, Maryland 20892, USA
    Nature 450:233-7. 2007
    ..This higher divergence and turnover of genes with male-biased expression may be due to high transcription rates in the male germline, greater functional pleiotropy of genes expressed in females, and/or sexual competition...
  21. ncbi Drosophila mojoless, a retroposed GSK-3, has functionally diverged to acquire an essential role in male fertility
    Rasika Kalamegham
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland, USA
    Mol Biol Evol 24:732-42. 2007
    ..We postulate that mjl has undergone functional diversification and is now under stabilizing selection in the Drosophila genus...
  22. ncbi An evolutionary consequence of dosage compensation on Drosophila melanogaster female X-chromatin structure?
    Yu Zhang
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892 8028, USA
    BMC Genomics 11:6. 2010
    ..The evolution of this system could result in neutral X chromatin changes that will be apparent in females...
  23. ncbi Drosophila OVO regulates ovarian tumor transcription by binding unusually near the transcription start site
    J Lu
    Laboratory of Cellular and Developmental Biology, NIDDK, National Institutes of Health, Bethesda, MD 20892 2715, USA
    Development 128:1671-86. 2001
    ..These data unambiguously identify otu as a direct OVO target gene and raise the tantalizing possibility that an OVO site, at the location normally occupied by basal components, functions as part of a specialized core promoter...
  24. ncbi Drosophila OVO zinc-finger protein regulates ovo and ovarian tumor target promoters
    J Lu
    The Laboratory of Cellular and Developmental Biology, NIDDK, National Institutes of Health, Bethesda Maryland 20892, USA
    Dev Genes Evol 208:213-22. 1998
    ..Our observation that two strong OVO-binding sites are at the initiator of the TATA-less ovo-B and ovarian tumor promoters raises the possibility that OVO proteins influence the nucleation of transcriptional pre-initiation complexes...
  25. ncbi Sex determination signals control ovo-B transcription in Drosophila melanogaster germ cells
    Justen Andrews
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland 20892, USA
    Genetics 160:537-45. 2002
    ..Thus, while somatic inductive signals and chromosome karyotype have overlapping regulatory influences, a 2X karyotype is a critical germline autonomous determinant of ovo-B function in the germline...
  26. ncbi The genomic 'inner fish' and a regulatory enigma in the vertebrates
    John Malone
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, Bethesda, MD 20892, USA
    J Biol 8:32. 2009
    ..It reveals a core set of genes with similar tissue-expression patterns yet no common regulatory signatures--a gene-expression paradox...
  27. ncbi Drosophila germline sex determination: integration of germline autonomous cues and somatic signals
    Leonie U Hempel
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, NIH, Bethesda, MD 20892, USA
    Curr Top Dev Biol 83:109-50. 2008
    ..A critical role of the germline sex determination pathway may therefore be to ensure the proper receipt and processing of signals from the niche...
  28. ncbi New AUG initiation codons in a long 5' UTR create four dominant negative alleles of the Drosophila C2H2 zinc-finger gene ovo
    J Andrews
    Laboratory of Cellular and Developmental Biology, NIDDK, National Institutes of Health, Bethesda, MD 20892, USA
    Dev Genes Evol 207:482-7. 1998
    ..These data suggest that ovoD mutations result in inappropriate expression of OVO-A in the female germline...
  29. ncbi OVO transcription factors function antagonistically in the Drosophila female germline
    J Andrews
    Laboratory of Cellular and Developmental Biology, NIDDK, National Institutes of Health, Bethesda MD, USA
    Development 127:881-92. 2000
    ..Our data indicate that tight regulation of antagonistic OVO-B and OVO-A isoforms is critical for germline formation and differentiation...
  30. ncbi Drosophila microarray platforms
    Vaijayanti Gupta
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes, Digestive Diseases and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, Bethesda, MD 20895, USA
    Brief Funct Genomic Proteomic 2:97-105. 2003
    ..Currently, researchers are using three main Drosophila array platform types, with elements composed of cDNA amplicons, oligonucleotides (short and long) or genomic amplicons. This paper provides a broad overview of these platforms...
  31. ncbi Comparative genomics of Drosophila and human core promoters
    Peter C FitzGerald
    Genome Analysis Unit, National Cancer Institute, National Institutes of Health, Bethesda, MD 20892, USA
    Genome Biol 7:R53. 2006
    ..CONCLUSION: Drosophila and human promoters use different DNA sequences to regulate gene expression, supporting the idea that evolution occurs by the modulation of gene regulation...
  32. ncbi The sex chromosome that refused to die
    John H Malone
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes, Digestive, and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, Bethesda, MD 20892, USA
    Bioessays 30:409-11. 2008
    ..melanogaster genome.1 These results show that variation on Y has an important influence on the deployment of the genome...
  33. ncbi Microarrays, deep sequencing and the true measure of the transcriptome
    John H Malone
    Laboratory of Cellular and Developmental Biology, National Institute of Digestive, Diabetes, and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    BMC Biol 9:34. 2011
    ..We conclude that microarrays remain useful and accurate tools for measuring expression levels, and RNA-Seq complements and extends microarray measurements...
  34. ncbi Genetic control of germline sexual dimorphism in Drosophila
    Brian Oliver
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland 20892, USA
    Int Rev Cytol 219:1-60. 2002
    ..The integration of these two pathways is not yet clear...
  35. ncbi Genetic interactions between Drosophila melanogaster menin and Jun/Fos
    Aniello Cerrato
    National Institute of Diabetes and Digestive and Kidney Diseases, Department of Health and Human Services, Bethesda, MD 20892, USA
    Dev Biol 298:59-70. 2006
    ..We observed complex genetic interactions between mnn1 and jun in different developmental settings. Our data support the idea that one function of menin is to modulate Jun activity in a manner dependent on the cellular context...
  36. ncbi Dosage compensation goes global
    Yu Zhang
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Curr Opin Genet Dev 17:113-20. 2007
    ..These approaches have resolved old controversies, suggested new questions, and promise to give us a more clear and comprehensive understanding of an old problem in molecular and cell biology...
  37. ncbi Menin molecular interactions: insights into normal functions and tumorigenesis
    S K Agarwal
    National Institute of Diabetes and Digestive and Kidney Diseases NIH, 9000 Rockville Pike, Bethesda, MD 20892 1802, USA
    Horm Metab Res 37:369-74. 2005
    ..Inactivation of menin switches its JunD partner from a downstream action of growth suppression to growth promotion. This is a plausible mechanism for menin tumorigenesis...
  38. ncbi Synthetic spike-in standards for RNA-seq experiments
    Lichun Jiang
    Section of Developmental Genomics, Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Genome Res 21:1543-51. 2011
    ..These quality metrics facilitate comparable analysis across different samples, protocols, and platforms...
  39. ncbi X for intersection: retrotransposition both on and off the X chromosome is more frequent
    Pavel P Khil
    Genetics and Biochemistry Branch and Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Trends Genet 21:3-7. 2005
    ..A new study addresses the differential distribution of retroposed genes in human and mouse genomes. Surprisingly, chromosome X is a major source and a preferred target for retrotransposition...
  40. ncbi Characterization of a MEN1 ortholog from Drosophila melanogaster
    S C Guru
    Genetics and Molecular Biology Branch, National Human Genome Research Institute, 49 Convent Drive, Bethesda, MD 20892, USA
    Gene 263:31-8. 2001
    ..The identification of the MEN1 ortholog from Drosophila melanogaster will provide an opportunity to utilize Drosophila genetics to enhance our understanding of the function of human menin...
  41. ncbi Mediation of Drosophila autosomal dosage effects and compensation by network interactions
    John H Malone
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, 50 South Drive, Bethesda, MD 20892, USA
    Genome Biol 13:r28. 2012
    ..While it is often assumed that reducing gene dose by half leads to two-fold less expression, there is partial autosomal dosage compensation in Drosophila, which may be mediated by feedback or buffering in expression networks...
  42. ncbi Functional conservation for lipid storage droplet association among Perilipin, ADRP, and TIP47 (PAT)-related proteins in mammals, Drosophila, and Dictyostelium
    Shinji Miura
    Membrane Regulation Section, Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland 20992 8028, USA
    J Biol Chem 277:32253-7. 2002
    ....
  43. ncbi One hundred years of high-throughput Drosophila research
    Mathias Beller
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Chromosome Res 14:349-62. 2006
    ..Several high-throughput techniques and experimental strategies highlighting the unbiased and integrative nature of Drosophila research during the last century will be discussed...
  44. ncbi Evolution of protein-coding genes in Drosophila
    Amanda M Larracuente
    Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA
    Trends Genet 24:114-23. 2008
    ....
  45. ncbi Evolution of genes and genomes on the Drosophila phylogeny
    Andrew G Clark
    Department of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853, USA
    Nature 450:203-18. 2007
    ..These may prove to underlie differences in the ecology and behaviour of these diverse species...
  46. ncbi Tiling DNA microarrays for fly genome cartography
    Brian Oliver
    Nat Genet 38:1101-2. 2006