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Cohort Consortium

In Breast and Prostate Cancer Cohort Consortium:

Breast and Prostate Cancer and Hormone-Related Gene Variant Study

Gene Resequencing

Extensive resequencing is taking place on 75 candidate genes at three Genomics Centers:

The division of labor is indicated in the table below. In each of the three laboratories, parallel activities are proceeding with both the resequencing of all 75 genes in the 190 cases and the identification of ht-SNPs, based on 733 unrelated subjects genotyped by different technologies. Common to all three centers is a common strategy for resequencing genes identified from the 190 cases of prostate and breast cancer.

List of 75 Genes Analyzed in the BPC3 Genomics Center

Gene Name Pathway Description Platform Breast Prostate
GHR IGF GROWTH HORMONE RECEPTOR Illumina x x
GHRH IGF GROWTH HORMONE-RELEASING HORMONE Illumina* x x
GHRHR IGF GROWTH HORMONE-RELEASING HORMONE RECEPTOR Illumina* x x
IGF1 IGF INSULIN-LIKE GROWTH FACTOR I Taqman x x
IGF1R IGF INSULIN-LIKE GROWTH FACTOR I RECEPTOR Illumina x x
IGF2 IGF INSULIN-LIKE GROWTH FACTOR 2 Illumina x x
IGF2R IGF INSULIN-LIKE GROWTH FACTOR II RECEPTOR Illumina x x
IGFALS IGF IGFBP ACID-LABILE SUBUNIT Illumina x x
IGFBP1 IGF INSULIN-LIKE GROWTH FACTOR BINDING PROTEIN Taqman x x
IGFBP2/5 IGF INSULIN-LIKE GROWTH FACTOR BINDING PROTEIN Illumina x x
IGFBP3 IGF INSULIN-LIKE GROWTH FACTOR BINDING PROTEIN Taqman x x
IGFBP4 IGF INSULIN-LIKE GROWTH FACTOR BINDING PROTEIN Illumina x x
IGFBP6 IGF INSULIN-LIKE GROWTH FACTOR BINDING PROTEIN Illumina x x
INSR IGF INSULIN RECEPTOR Illumina x x
IRS1 IGF INSULIN RECEPTOR SUBSTRATE 1 Illumina x x
IRS2 IGF INSULIN RECEPTOR SUBSTRATE 2 Illumina x x
POU1F1 IGF POU DOMAIN, CLASS 1, TRANSCRIPTION FACTOR 1 Illumina x x
SST IGF SOMATOSTATIN Illumina x x
SSTR1 IGF SOMATOSTATIN RECEPTOR 1 Illumina x x
SSTR2 IGF SOMATOSTATIN RECEPTOR 2 Illumina x x
SSTR3 IGF SOMATOSTATIN RECEPTOR 3 Illumina x x
SSTR4 IGF SOMATOSTATIN RECEPTOR 4 Illumina x x
SSTR5 IGF SOMATOSTATIN RECEPTOR 5 Illumina x x
IL6 inflam (?) INTERLEUKIN 6 Illumina x x
PTGS2 inflam (?) PROSTAGLANDIN-ENDOPEROXIDE SYNTHASE 2 Illumina x x
TLR4 inflam (?) TOLL-LIKE RECEPTOR Taqman x x
PIK3AP1 PIK PHOSPHOINOSITIDE 3-KINASE ADAPTOR PROTEIN 1 Illumina x x
PIK3C2A PIK PHOSPHATIDYLINOSITOL 3-KINASE, CLASS 2, ALPHA Illumina x x
PIK3C2B PIK PHOSPHATIDYLINOSITOL 3-KINASE, CLASS 2, BETA Illumina x x
PIK3CD PIK PHOSPHATIDYLINOSITOL 3-KINASE, CATALYTIC, DELTA Illumina x x
PIK3R3 PIK PHOSPHATIDYLINOSITOL 3-KINASE, REGULATORY SUBUNIT 3 Illumina x x
CASP8 replication CASPASE 8 Illumina x x
CAT replication CATALASE Illumina x x
DPF3 replication   Illumina x x
GPX1 replication GLUTATHIONE PEROXIDASE Illumina x x
ICAM1 replication INTERCELLULAR ADHESION MOLECULE   x x
ICAM5 replication INTERCELLULAR ADHESION MOLECULE Illumina x x
MC2R replication MELANOCORTIN 2 RECEPTOR Illumina x x
MnSOD replication SUPEROXIDE DISMUTASE Taqman x x
MPO replication MYELOPEROXIDASE Taqman x x
ACTHR steroid ADRENOCORTICOTROPIC HORMONE RECEPTOR Taqman x x
ACVR1 steroid ACTIVIN A RECEPTOR, TYPE I Illumina x x
ACVR2 steroid ACTIVIN A RECEPTOR, TYPE II Illumina x x
AKR1C3 steroid ALDO-KETO REDUCTASE FAMILY 1, MEMBER C3 Illumina x x
AR steroid ANDROGEN RECEPTOR Taqman x x
CGA steroid CHORIONIC GONADOTROPIN Illumina x x
COMT steroid CATECHOL - O -METHYL TRANSFERASE Taqman x x
CYP11A steroid   Taqman x x
CYP17 steroid   Taqman x x
CYP19 steroid   Taqman x x
CYP1A1 steroid   Taqman x x
CYP1A2 steroid   Taqman x x
CYP1B1 steroid   Taqman x x
CYP3A4 steroid   Illumina x x
ESR1 steroid ESTROGEN RECEPTOR ALPHA Illumina x x
ESR2 steroid ESTROGEN RECEPTOR BETA Taqman* x x
FSHB steroid FOLLICLE-STIMULATING HORMONE BETA UNIT Taqman x x
FSHR steroid FOLLICLE-STIMULATING HORMONE RECEPTOR Illumina x x
HSD17B1 steroid 17-BETA-HYDROXYSTEROID DEHYDROGENASE 1 Taqman x x
HSD17B2 steroid 17-BETA-HYDROXYSTEROID DEHYDROGENASE 2 Taqman x x
HSD17B3 steroid 17-BETA-HYDROXYSTEROID DEHYDROGENASE 3 Illumina x x
HSD17B4 steroid 17-BETA-HYDROXYSTEROID DEHYDROGENASE 4 Illumina x x
HSD3B1/2 steroid 3-BETA-HYDROXYSTEROID DEHYDROGENASE Illumina x x
INHA steroid INHIBIN, ALPHA Illumina x x
INHBA steroid INHIBIN, BETA A Illumina x x
INHBB steroid INHIBIN, BETA B Illumina x x
LHB steroid LUTEINIZING HORMONE, BETA Illumina x x
LHCGR steroid LUTEINIZING HORMONE/CHORIOGONADOTROPIN RECEPTOR Illumina x x
PGR steroid PROGESTERONE RECEPTOR Illumina* x x
POMC steroid PROOPIOMELANOCORTIN Illumina x x
PRL steroid PROLACTIN Illumina x x
PRLR steroid PROLACTIN RECEPTOR Illumina x x
SHBG steroid SEX HORMONE-BINDING GLOBULIN Illumina x x
SRD5A1 steroid STEROID 5-ALPHA-REDUCTASE 1 Illumina x x
SRD5A2 steroid STEROID 5-ALPHA-REDUCTASE 2 Illumina x x
UGTB7/17 steroid URIDINE DIPHOSPHATE GLYCOSYLTRANSFERASE 2, B7 Illumina x x

*Both Illumina and Taqman SNPs

Last modified:
09 Nov 2007
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