Open Access Research article

Expression profiling of formalin-fixed paraffin-embedded primary breast tumors using cancer-specific and whole genome gene panels on the DASL® platform

Monica M Reinholz1*, Jeanette E Eckel-Passow2, S Keith Anderson2, Yan W Asmann2, Michael A Zschunke1, Ann L Oberg2, Ann E McCullough3, Amylou C Dueck4, Beiyun Chen1, Craig S April5, Eliza Wickham-Garcia5, Robert B Jenkins1, Julie M Cunningham1, Jin Jen6, Edith A Perez7, Jian-Bing Fan5 and Wilma L Lingle1

Author Affiliations

1 Department of Laboratory Medicine and Pathology, Mayo Clinic, 200 First St SW, Rochester, Minnesota, 55905, USA

2 Division of Biomedical Statistics and Informatics Mayo Clinic, 200 First St SW, Rochester, Minnesota, 55905, USA

3 Department of Pathology, Mayo Clinic, 13400 E. Shea Blvd, Scottsdale, Arizona, 85259, USA

4 Section of Biostatistics, 13400 E. Shea Blvd, Scottsdale, Arizona, 85259, USA

5 Department of Scientific Research, Illumina Inc., 9885 Towne Centre Drive, San Diego, California, 92121, USA

6 Division of Pulmonary and Critical Care Medicine, Mayo Clinic, 200 First St SW, Rochester, Minnesota, 55905, USA

7 Division of Hematology and Oncology, Mayo Clinic, 4500 San Pablo Road, Jacksonville, Florida, 32224, USA

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BMC Medical Genomics 2010, 3:60  doi:10.1186/1755-8794-3-60

Published: 20 December 2010

Additional files

Additional file 1:

Figures S1-S4 and Tables T1-T3. Additional Figures S1-S3 are additional figures (S1-S2) that explain the associations between 1) block procurement year and RP13a qPCR Cq, 2) block procurement year and scanner p95 readings, and 3) RP13a and qPCR Cq and scanner p95 readings. An additional figure (S3) explains the correlation between gene panels according to number of probes per 24K gene symbol. Additional Figure S4 explains the relationship between ER immunohistochemical staining and ESR1 gene expression intensity. Additional Tables T1-T3 define the gene symbols presented in Figure 5.

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