Colin C Collins

Summary

Affiliation: University of California
Country: USA

Publications

  1. pmc A sequence-based survey of the complex structural organization of tumor genomes
    Benjamin J Raphael
    Department of Computer Science and Center for Computational Molecular Biology, Brown University, Waterman Street, Providence, RI 02912 1910, USA
    Genome Biol 9:R59. 2008
  2. pmc A BAC clone fingerprinting approach to the detection of human genome rearrangements
    Martin Krzywinski
    BC Cancer Agency Genome Sciences Centre, West 7th Avenue, Vancouver, British Columbia, Canada V5Z 4S6
    Genome Biol 8:R224. 2007
  3. pmc Comprehensive genome sequence analysis of a breast cancer amplicon
    C Collins
    University of California San Francisco Cancer Center, San Francisco, California 94143 0808, USA
    Genome Res 11:1034-42. 2001
  4. ncbi Integrated genomic and epigenomic analyses pinpoint biallelic gene inactivation in tumors
    Giuseppe Zardo
    Comprehensive Cancer Center, University of California, San Francisco, San Francisco, California 94115, USA
    Nat Genet 32:453-8. 2002
  5. ncbi Chromosome arm 20q gains and other genomic alterations in colorectal cancer metastatic to liver, as analyzed by comparative genomic hybridization and fluorescence in situ hybridization
    W M Korn
    Cancer Center, University of California San Francisco, 94143, USA
    Genes Chromosomes Cancer 25:82-90. 1999
  6. ncbi Genome changes and gene expression in human solid tumors
    J W Gray
    UCSF Cancer Center, 2340 Sutter Street, University of California San Francisco, San Francisco, CA 94143 0808, USA
    Carcinogenesis 21:443-52. 2000
  7. ncbi Quantitative mapping of amplicon structure by array CGH identifies CYP24 as a candidate oncogene
    D G Albertson
    1 Cancer Research Institute, University of California, San Francisco, Box 0808, San Francisco, California, USA
    Nat Genet 25:144-6. 2000
  8. ncbi Substance abuse prevention: moving from science to policy
    S F Morin
    AIDS Policy Research Center, University of California, San Francisco 94105, USA
    Addict Behav 25:975-83. 2000
  9. ncbi Genome sequence and splice site analysis of low-fidelity DNA polymerases H and I involved in replication of damaged DNA
    J E Cleaver
    UCSF Cancer Center, Box 0808, Room N431, University of California at San Francisco, San Francisco, CA 94143 0808, USA
    Genomics 82:561-70. 2003
  10. pmc The transcription factor ZNF217 is a prognostic biomarker and therapeutic target during breast cancer progression
    Laurie E Littlepage
    Department of Anatomy, University of California, San Francisco, CA 94143, USA
    Cancer Discov 2:638-51. 2012

Research Grants

Collaborators

Detail Information

Publications19

  1. pmc A sequence-based survey of the complex structural organization of tumor genomes
    Benjamin J Raphael
    Department of Computer Science and Center for Computational Molecular Biology, Brown University, Waterman Street, Providence, RI 02912 1910, USA
    Genome Biol 9:R59. 2008
    ..The genomes of many epithelial tumors exhibit extensive chromosomal rearrangements. All classes of genome rearrangements can be identified using end sequencing profiling, which relies on paired-end sequencing of cloned tumor genomes...
  2. pmc A BAC clone fingerprinting approach to the detection of human genome rearrangements
    Martin Krzywinski
    BC Cancer Agency Genome Sciences Centre, West 7th Avenue, Vancouver, British Columbia, Canada V5Z 4S6
    Genome Biol 8:R224. 2007
    ..Our method has compelling potential for use as a whole-genome method for the identification and characterization of human genome rearrangements...
  3. pmc Comprehensive genome sequence analysis of a breast cancer amplicon
    C Collins
    University of California San Francisco Cancer Center, San Francisco, California 94143 0808, USA
    Genome Res 11:1034-42. 2001
    ....
  4. ncbi Integrated genomic and epigenomic analyses pinpoint biallelic gene inactivation in tumors
    Giuseppe Zardo
    Comprehensive Cancer Center, University of California, San Francisco, San Francisco, California 94115, USA
    Nat Genet 32:453-8. 2002
    ..Our results show that most aberrant methylation events are focal and independent of deletions, and the rare convergence of these mechanisms can pinpoint biallelic gene inactivation without the use of positional cloning...
  5. ncbi Chromosome arm 20q gains and other genomic alterations in colorectal cancer metastatic to liver, as analyzed by comparative genomic hybridization and fluorescence in situ hybridization
    W M Korn
    Cancer Center, University of California San Francisco, 94143, USA
    Genes Chromosomes Cancer 25:82-90. 1999
    ..By FISH, we identified subregions on chromosome arm 20q that are frequently involved in DNA amplifications in colorectal cancer and that may harbor candidate proto-oncogenes...
  6. ncbi Genome changes and gene expression in human solid tumors
    J W Gray
    UCSF Cancer Center, 2340 Sutter Street, University of California San Francisco, San Francisco, CA 94143 0808, USA
    Carcinogenesis 21:443-52. 2000
    ..This review covers several commonly used large-scale genome and gene expression analysis techniques, outlines genomic approaches to gene discovery and summarizes information that has come from large-scale analyses of human solid tumors...
  7. ncbi Quantitative mapping of amplicon structure by array CGH identifies CYP24 as a candidate oncogene
    D G Albertson
    1 Cancer Research Institute, University of California, San Francisco, Box 0808, San Francisco, California, USA
    Nat Genet 25:144-6. 2000
    ..The putative oncogene ZNF217 (ref. 5) mapped to one peak, and CYP24 (encoding vitamin D 24 hydroxylase), whose overexpression is likely to lead to abrogation of growth control mediated by vitamin D, mapped to the other...
  8. ncbi Substance abuse prevention: moving from science to policy
    S F Morin
    AIDS Policy Research Center, University of California, San Francisco 94105, USA
    Addict Behav 25:975-83. 2000
    ..This paper suggests several direct ways in which prevention science can influence public policy and thus move prevention science to more effective substance abuse prevention policy...
  9. ncbi Genome sequence and splice site analysis of low-fidelity DNA polymerases H and I involved in replication of damaged DNA
    J E Cleaver
    UCSF Cancer Center, Box 0808, Room N431, University of California at San Francisco, San Francisco, CA 94143 0808, USA
    Genomics 82:561-70. 2003
    ..This analysis explains previous observations of tissue-specific skipping during mRNA processing, resulting in the loss of the transcription start site in exon II, in human tissues...
  10. pmc The transcription factor ZNF217 is a prognostic biomarker and therapeutic target during breast cancer progression
    Laurie E Littlepage
    Department of Anatomy, University of California, San Francisco, CA 94143, USA
    Cancer Discov 2:638-51. 2012
    ..Because ZNF217 is amplified in numerous cancers, these results have implications for other cancers...
  11. ncbi DNA polymerase eta undergoes alternative splicing, protects against UV sensitivity and apoptosis, and suppresses Mre11-dependent recombination
    M Thakur
    UCSF Comprehensive Cancer Center, University of California, San Francisco, California 94115, USA
    Genes Chromosomes Cancer 32:222-35. 2001
    ..In normal cells, the predominant mechanism of replication of UV damage involves pol eta-dependent bypass, and Mre11-dependent recombination that acts is a secondary, backup mechanism when cells are severely depleted of pol eta...
  12. ncbi Biallelic inactivation of the thyroid hormone receptor beta1 gene in early stage breast cancer
    Zheng Li
    Geraldine Brush Cancer Research Institute, California Pacific Medical Center, San Francisco, California 94115, USA
    Cancer Res 62:1939-43. 2002
    ..The observation of early, frequent, and multiple mechanisms of TRbeta1 inactivation suggests a potential role for this gene in the suppression of breast tumorigenesis...
  13. ncbi Design considerations for array CGH to oligonucleotide arrays
    R A Baldocchi
    University of California at San Francisco Cancer Center, San Francisco, California, USA
    Cytometry A 67:129-36. 2005
    ..However, hybridization to some oligonucleotides is not sufficiently high to allow precise analysis of that portion of the genome...
  14. pmc Zf9, a Kruppel-like transcription factor up-regulated in vivo during early hepatic fibrosis
    V Ratziu
    University of California, San Francisco, CA 94143, USA
    Proc Natl Acad Sci U S A 95:9500-5. 1998
    ..schneider cells. Our results suggest that Zf9 may be an important signal in hepatic stellate cell activation after liver injury...
  15. pmc An oncogenic role for the multiple endocrine neoplasia type 1 gene in prostate cancer
    P L Paris
    Department of Urology, University of California at San Francisco Comprehensive Cancer Center, UCSF, San Francisco, CA 94143, USA
    Prostate Cancer Prostatic Dis 12:184-91. 2009
    ..Here, we demonstrate an oncogenic role for MEN1 in prostate cancer using a variety of independent assays...
  16. ncbi Preliminary evaluation of prostate cancer metastatic risk biomarkers
    P L Paris
    Comprehensive Cancer Center, University of California, San Francisco, CA 94143, USA
    Int J Biol Markers 20:141-5. 2005
    ..The classification accuracy for the Kattan nomogram was 75%. Therefore, validation of GEMCaP is warranted in a larger, appropriately designed cohort...
  17. ncbi Genome scanning with array CGH delineates regional alterations in mouse islet carcinomas
    G Hodgson
    Cancer Genetics and Breast Oncology Programs, UCSF Cancer Center, University of California at San Francisco, Box 0808, San Francisco, California 94143-0808, USA
    Nat Genet 29:459-64. 2001
    ..We also show that irradiation and genetic background influence the spectrum of aberrations present in these tumors...
  18. pmc Identification of a gene encoding an acyl CoA:diacylglycerol acyltransferase, a key enzyme in triacylglycerol synthesis
    S Cases
    Gladstone Institute of Cardiovascular Disease, University of California, San Francisco, CA 94143, USA
    Proc Natl Acad Sci U S A 95:13018-23. 1998
    ..The identification of this cDNA encoding a DGAT will greatly facilitate studies of cellular glycerolipid metabolism and its regulation...
  19. ncbi Cloning, mapping, and in vivo localization of a human member of the PKCI-1 protein family (PRKCNH1)
    P M Brzoska
    Department of Radiation Oncology, University of California, San Francisco, California, 94143, USA
    Genomics 36:151-6. 1996
    ..The cytoplasmic localization of hPKCI-1 is consistent with a postulated role in mediating a membrane-derived signal in response to ionizing radiation...

Research Grants5

  1. Development of ESP: Structural & Functional Oncogenomics
    Colin Collins; Fiscal Year: 2005
    ..abstract_text> ..
  2. CaP Metastasis Biomarkers: Validation/Genomics/Biology
    Colin Collins; Fiscal Year: 2007
    ..von Eschenbach. ..