Philip S Bernard
Affiliation: University of Utah
- Identification of conserved gene expression features between murine mammary carcinoma models and human breast tumorsJason I Herschkowitz
Lineberger Comprehensive Cancer Center
Genome Biol 8:R76. 2007..To address this need, we characterized mammary tumor gene expression profiles from 13 different murine models using DNA microarrays and compared the resulting data to those from human breast tumors...
- Classification and risk stratification of invasive breast carcinomas using a real-time quantitative RT-PCR assayLaurent Perreard
The ARUP Institute for Clinical and Experimental Pathology, SLC, Utah, USA
Breast Cancer Res 8:R23. 2006..The proliferation meta-gene offers an objective and quantitative measurement for grade and adds significant prognostic information to the biological subtypes...
- The molecular portraits of breast tumors are conserved across microarray platformsZhiyuan Hu
Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA
BMC Genomics 7:96. 2006..To overcome this problem we used publicly available breast cancer gene expression data sets and a novel approach to data fusion, in order to validate a new breast tumor intrinsic list...
- EGFR associated expression profiles vary with breast tumor subtypeKatherine A Hoadley
Curriculum in Genetics and Molecular Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
BMC Genomics 8:258. 2007..An EGFR-associated gene expression signature was identified in the basal-like SUM102 cell line and was used to classify a diverse set of sporadic breast tumors...
- Agreement in breast cancer classification between microarray and quantitative reverse transcription PCR from fresh-frozen and formalin-fixed, paraffin-embedded tissuesMichael Mullins
Department of Pathology, University of Utah School of Medicine, Salt Lake City, UT, USA
Clin Chem 53:1273-9. 2007....
- Real-time PCR technology for cancer diagnosticsPhilip S Bernard
Department of Pathology, University of Utah School of Medicine, 30 North 1900 East, Salt Lake City 84132, USA
Clin Chem 48:1178-85. 2002..The challenge for pathology will be the development and implementation of these molecular classifications for routine clinical practice...
- Molecular classification of melanoma using real-time quantitative reverse transcriptase-polymerase chain reactionTracey B Lewis
Research and Development, ARUP Laboratories Inc, Salt Lake City, Utah, USA
Cancer 104:1678-86. 2005..These markers could have diagnostic utility for the detection of melanoma micrometastasis in sentinel lymph nodes...
- Statistical modeling for selecting housekeeper genesAniko Szabo
Department of Oncological Sciences, Huntsman Cancer Institute, Salt Lake City, UT 84112, USA
Genome Biol 5:R59. 2004..We present appropriate models for selecting the best housekeepers to normalize quantitative data within a given tissue type (for example, breast cancer) and across different types of tissue samples...
- State of the science: molecular classifications of breast cancer for clinical diagnosticsJohn E Robison
Department of Pathology, University of Utah, Salt Lake City, UT 84112, USA
Clin Biochem 37:572-8. 2004..This manuscript reviews the current standards of care, presents progress that is being made in the development of genomic assays for breast cancer and discusses options for implementing these new tests into the clinical setting...
- Molecular portraits and the family tree of cancerChristine H Chung
Division of Hematology/Oncology, University of North Carolina at Chapel Hill, CB #7305, 3009 Old Clinic Building, Chapel Hill, North Carolina 27599, USA
Nat Genet 32:533-40. 2002..The early results are painting a detailed portrait of cancer that illustrates the individuality of each tumor and allows familial relationships to be recognized through the identification of cell types sharing common expression patterns...
- ESR1 gene amplification in breast cancer: a common phenomenon?Lindsay A Brown
Nat Genet 40:806-7; author reply 810-2. 2008
- Discriminate gene lists derived from cDNA microarray profiles of limited samples permit distinguishing mesenchymal neoplasia ex vivoDavid E Joyner
SAR Lab, Sarcoma Services, Department of Orthopedics, Huntsman Cancer Institute and Primary Children's Medical Center, University of Utah, Salt Lake City, UT 84112, USA
J Cancer Res Clin Oncol 131:137-46. 2005..CONCLUSIONS: Linear discriminate analysis of cDNA gene expression profiles partitioned mesenchymal tumor classes, even when constrained by limited sample sizes...
- Differentiating Ewing's sarcoma from other round blue cell tumors using a RT-PCR translocation panel on formalin-fixed paraffin-embedded tissuesTracey B Lewis
Research and Development, The ARUP Institute for Clinical and Experimental Pathology, Salt Lake City, UT, USA
Mod Pathol 20:397-404. 2007..Our real-time RT-PCR assay for detecting sarcoma translocations has high sensitivity and specificity for Ewing's sarcoma and has clinical utility in differentiating small round blue cell tumors in the clinical lab...
- Color multiplex polymerase chain reaction for quantitative analysis of epidermal growth factor receptor genes in colorectal adenocarcinomaLester J Layfield
Department of Pathology, University of Utah School of Medicine, and ARUP Laboratories, Inc, Salt Lake City, Utah 84132, USA
J Surg Oncol 83:227-31. 2003..Possible mechanisms for over expression of EGFR include gene amplification, transcriptional upregulation, or decreased degredation of the EGFR protein...
- Homogeneous amplification and mutation scanning of the p53 gene using fluorescent melting curvesHaleigh Millward
Idaho Technology Inc, Salt Lake City, UT 84105, USA
Clin Chem 48:1321-8. 2002..CONCLUSIONS: p53 mutation scanning by single-labeled hybridization probes is a homogeneous, rapid, and sensitive method with application in both research and clinical diagnostics...
- High-throughput amplicon scanning of the TP53 gene in breast cancer using high-resolution fluorescent melting curve analyses and automatic mutation callingRoy Bastien
Department of Pathology, University of Utah School of Medicine, Salt Lake City, Utah 84112 5550, USA
Hum Mutat 29:757-64. 2008..The TP53 scanning assay can be performed from a variety of specimen types with high sensitivity/specificity and could be used for clinical and research purposes...