Pamela Paris

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 Detection of recurrent rearrangement breakpoints from copy number data
    Anna Ritz
    Department of Computer Science, Brown University, Providence, RI, USA
    BMC Bioinformatics 12:114. 2011
  3. pmc A group of genome-based biomarkers that add to a Kattan nomogram for predicting progression in men with high-risk prostate cancer
    Pamela L Paris
    Department of Urology, Helen Diller Family Comprehensive Cancer, and Helen Diller Family Comprehensive Cancer Biostatistics Core, University of California at San Francisco, California 94143, USA
    Clin Cancer Res 16:195-202. 2010
  4. doi request reprint Functional phenotyping and genotyping of circulating tumor cells from patients with castration resistant prostate cancer
    Pamela L Paris
    Department of Urology, University of California at San Francisco, San Francisco, CA 94115, USA
    Cancer Lett 277:164-73. 2009
  5. ncbi request reprint Whole genome scanning identifies genotypes associated with recurrence and metastasis in prostate tumors
    Pamela L Paris
    Comprehensive Cancer Center, University of California at San Francisco, 94115, USA
    Hum Mol Genet 13:1303-13. 2004
  6. ncbi request reprint Integration of high-resolution array comparative genomic hybridization analysis of chromosome 16q with expression array data refines common regions of loss at 16q23-qter and identifies underlying candidate tumor suppressor genes in prostate cancer
    J E Vivienne Watson
    Collins Lab, UCSF Comprehensive Cancer Center, University of California, 2340 Sutter Street, San Francisco, USA
    Oncogene 23:3487-94. 2004
  7. ncbi request reprint Evolution of 8p loss in transformed human prostate epithelial cells
    Jill A Macoska
    Department of Urology, University of Michigan, 1500 East Medical Center Drive, Ann Arbor, MI 48109 0944, USA
    Cancer Genet Cytogenet 154:36-43. 2004
  8. pmc Genomic profiling of hormone-naïve lymph node metastases in patients with prostate cancer
    Pamela L Paris
    Department of Urology, University of California at San Francisco Comprehensive Cancer Center, San Francisco, CA 94115, USA
    Neoplasia 8:1083-9. 2006
  9. pmc High-resolution analysis of paraffin-embedded and formalin-fixed prostate tumors using comparative genomic hybridization to genomic microarrays
    Pamela L Paris
    Comprehensive Cancer Center, University of California at San Francisco, San Francisco, California 94115, USA
    Am J Pathol 162:763-70. 2003
  10. pmc High resolution oligonucleotide CGH using DNA from archived prostate tissue
    Pamela L Paris
    Department of Urology, Comprehensive Cancer Center, University of California at San Francisco, San Francisco, California 94143, USA
    Prostate 67:1447-55. 2007

Research Grants

Collaborators

Detail Information

Publications12

  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 Detection of recurrent rearrangement breakpoints from copy number data
    Anna Ritz
    Department of Computer Science, Brown University, Providence, RI, USA
    BMC Bioinformatics 12:114. 2011
    ..Typically, the interior of a recurrent CNV is examined for genes or other loci associated with a phenotype. However, in some cases, such as gene truncations and fusion genes, the target of variant lies at the boundary of the variant...
  3. pmc A group of genome-based biomarkers that add to a Kattan nomogram for predicting progression in men with high-risk prostate cancer
    Pamela L Paris
    Department of Urology, Helen Diller Family Comprehensive Cancer, and Helen Diller Family Comprehensive Cancer Biostatistics Core, University of California at San Francisco, California 94143, USA
    Clin Cancer Res 16:195-202. 2010
    ..Nomograms that use clinical and pathologic variables are often used for risk prediction. Favorable outcomes exist even among men classified by nomograms as being at high risk of recurrence...
  4. doi request reprint Functional phenotyping and genotyping of circulating tumor cells from patients with castration resistant prostate cancer
    Pamela L Paris
    Department of Urology, University of California at San Francisco, San Francisco, CA 94115, USA
    Cancer Lett 277:164-73. 2009
    ..Copy number profiles for CRPC CTCs were similar to paired solid tumor DNA, and distinct from corresponding DNA from the residual CAM-depleted blood. CAM CTC enrichment may allow cellular and genetic analyses in prostate cancer...
  5. ncbi request reprint Whole genome scanning identifies genotypes associated with recurrence and metastasis in prostate tumors
    Pamela L Paris
    Comprehensive Cancer Center, University of California at San Francisco, 94115, USA
    Hum Mol Genet 13:1303-13. 2004
    ..Moreover, comparison with an independent set of metastases revealed approximately 40 candidate markers associated with metastatic potential. Copy number aberrations at these loci may define metastatic genotypes...
  6. ncbi request reprint Integration of high-resolution array comparative genomic hybridization analysis of chromosome 16q with expression array data refines common regions of loss at 16q23-qter and identifies underlying candidate tumor suppressor genes in prostate cancer
    J E Vivienne Watson
    Collins Lab, UCSF Comprehensive Cancer Center, University of California, 2340 Sutter Street, San Francisco, USA
    Oncogene 23:3487-94. 2004
    ....
  7. ncbi request reprint Evolution of 8p loss in transformed human prostate epithelial cells
    Jill A Macoska
    Department of Urology, University of Michigan, 1500 East Medical Center Drive, Ann Arbor, MI 48109 0944, USA
    Cancer Genet Cytogenet 154:36-43. 2004
    ..Taken together, these studies illustrate a potential mechanism and functional role for 8p loss in human prostate tumorigenesis...
  8. pmc Genomic profiling of hormone-naïve lymph node metastases in patients with prostate cancer
    Pamela L Paris
    Department of Urology, University of California at San Francisco Comprehensive Cancer Center, San Francisco, CA 94115, USA
    Neoplasia 8:1083-9. 2006
    ..Matched primaries and lymph node metastases showed very similar copy number profiles that are distinct from primary tumors that fail to metastasize...
  9. pmc High-resolution analysis of paraffin-embedded and formalin-fixed prostate tumors using comparative genomic hybridization to genomic microarrays
    Pamela L Paris
    Comprehensive Cancer Center, University of California at San Francisco, San Francisco, California 94115, USA
    Am J Pathol 162:763-70. 2003
    ..We present a straightforward protocol and demonstrate the utility of archived tissue for array comparative genomic hybridization with a 2400 element BAC array that provides high-resolution detection of both deletions and amplifications...
  10. pmc High resolution oligonucleotide CGH using DNA from archived prostate tissue
    Pamela L Paris
    Department of Urology, Comprehensive Cancer Center, University of California at San Francisco, San Francisco, California 94143, USA
    Prostate 67:1447-55. 2007
    ..There is an urgent need for high-resolution tools that perform well using archived tissue for biomarker discovery and tools that can translate into the clinic...
  11. ncbi request reprint Molecular analysis of WFDC1/ps20 gene in prostate cancer
    J E Vivienne Watson
    Comprehensive Cancer Center, University of California, San Francisco, California, USA
    Prostate 61:192-9. 2004
    ..It maps to chromosome 16q23.1, a region of frequent loss of heterozygosity, familial association, and genomic loss in prostate cancer. We, therefore, chose to examine WFDC1/ps20 for mutations and expression changes in prostate cancer...
  12. pmc Decoding the fine-scale structure of a breast cancer genome and transcriptome
    Stanislav Volik
    Department of Urology, and Cancer Research Institute, University of California San Francisco Comprehensive Cancer Center, San Francisco, California 94115, USA
    Genome Res 16:394-404. 2006
    ..Given these properties, ESP could play an important role in a tumor genome project...

Research Grants1

  1. CaP Metastasis Biomarkers: Validation/Genomics/Biology
    Pamela Paris; Fiscal Year: 2009
    ..von Eschenbach. ..