What is PAM50 for breast cancer?

PAM50 is a list of 50 genes that classify breast cancers into one of five intrinsic subtypes from formalin-fixed, paraffin-embedded tissues by real time polymerase chain reaction (RT-PCR).

Initially developed on microarray data, PAM50 is being successfully used in digital multiplexed gene expression platforms such as NanoString nCounter®, which is the basis for the Prosigna® test. The latter includes the PAM50 assay in combination with a clinical factor (i.e. tumor size) and has been approved for the risk of distant relapse estimation in postmenopausal women with hormone receptor-positive, node negative or node positive early stage breast cancer patients; and is a daily-used tool assessing the indication of adjuvant chemotherapy.

Here is the full list of PAM50.

InputMatch typeApproved symbolApproved nameHGNC IDLocation
ACTR3BApproved symbolACTR3Bactin related protein 3BHGNC:172567q36.1-q36.2
ANLNApproved symbolANLNanillin actin binding proteinHGNC:140827p14.2
BAG1Approved symbolBAG1BAG cochaperone 1HGNC:9379p13.3
BCL2Approved symbolBCL2BCL2 apoptosis regulatorHGNC:99018q21.33
BIRC5Approved symbolBIRC5baculoviral IAP repeat containing 5HGNC:59317q25.3
BLVRAApproved symbolBLVRAbiliverdin reductase AHGNC:10627p13
CCNB1Approved symbolCCNB1cyclin B1HGNC:15795q13.2
CCNE1Approved symbolCCNE1cyclin E1HGNC:158919q12
CDC20Approved symbolCDC20cell division cycle 20HGNC:17231p34.2
CDC6Approved symbolCDC6cell division cycle 6HGNC:174417q21.2
CDH3Approved symbolCDH3cadherin 3HGNC:176216q22.1
CENPFApproved symbolCENPFcentromere protein FHGNC:18571q41
CEP55Approved symbolCEP55centrosomal protein 55HGNC:116110q23.33
CXXC5Approved symbolCXXC5CXXC finger protein 5HGNC:269435q31.2
EGFRApproved symbolEGFRepidermal growth factor receptorHGNC:32367p11.2
ERBB2Approved symbolERBB2erb-b2 receptor tyrosine kinase 2HGNC:343017q12
ESR1Approved symbolESR1estrogen receptor 1HGNC:34676q25.1-q25.2
EXO1Approved symbolEXO1exonuclease 1HGNC:35111q43
FGFR4Approved symbolFGFR4fibroblast growth factor receptor 4HGNC:36915q35.2
FOXA1Approved symbolFOXA1forkhead box A1HGNC:502114q21.1
FOXC1Approved symbolFOXC1forkhead box C1HGNC:38006p25.3
GPR160Approved symbolGPR160G protein-coupled receptor 160HGNC:236933q26.2
GRB7Approved symbolGRB7growth factor receptor bound protein 7HGNC:456717q12
KIF2CApproved symbolKIF2Ckinesin family member 2CHGNC:63931p34.1
KRT14Approved symbolKRT14keratin 14HGNC:641617q21.2
KRT17Approved symbolKRT17keratin 17HGNC:642717q21.2
KRT5Approved symbolKRT5keratin 5HGNC:644212q13.13
MAPTApproved symbolMAPTmicrotubule associated protein tauHGNC:689317q21.31
MDM2Approved symbolMDM2MDM2 proto-oncogeneHGNC:697312q15
MELKApproved symbolMELKmaternal embryonic leucine zipper kinaseHGNC:168709p13.2
MIAApproved symbolMIAMIA SH3 domain containingHGNC:707619q13.2
MKI67Approved symbolMKI67marker of proliferation Ki-67HGNC:710710q26.2
MLPHApproved symbolMLPHmelanophilinHGNC:296432q37.3
MMP11Approved symbolMMP11matrix metallopeptidase 11HGNC:715722q11.23
MYBL2Approved symbolMYBL2MYB proto-oncogene like 2HGNC:754820q13.12
MYCApproved symbolMYCMYC proto-oncogene, bHLH transcription factorHGNC:75538q24.21
NAT1Approved symbolNAT1N-acetyltransferase 1HGNC:76458p22
NDC80Approved symbolNDC80NDC80 kinetochore complex componentHGNC:1690918p11.32
NUF2Approved symbolNUF2NUF2 component of NDC80 kinetochore complexHGNC:146211q23.3
ORC6LPrevious symbolORC6origin recognition complex subunit 6HGNC:1715116q11.2
PGRApproved symbolPGRprogesterone receptorHGNC:891011q22.1
PHGDHApproved symbolPHGDHphosphoglycerate dehydrogenaseHGNC:89231p12
PTTG1Approved symbolPTTG1PTTG1 regulator of sister chromatid separation, securinHGNC:96905q33.3
RRM2Approved symbolRRM2ribonucleotide reductase regulatory subunit M2HGNC:104522p25.1
SFRP1Approved symbolSFRP1secreted frizzled related protein 1HGNC:107768p11.21
SLC39A6Approved symbolSLC39A6solute carrier family 39 member 6HGNC:1860718q12.2
TMEM45BApproved symbolTMEM45Btransmembrane protein 45BHGNC:2519411q24.3
TYMSApproved symbolTYMSthymidylate synthetaseHGNC:1244118p11.32
UBE2CApproved symbolUBE2Cubiquitin conjugating enzyme E2 CHGNC:1593720q13.12
UBE2TApproved symbolUBE2Tubiquitin conjugating enzyme E2 THGNC:250091q32.1

One response to “What is PAM50 for breast cancer?”

  1. […] can find that I retrieved the gene expression profiles for PAM50 genes (What is PAM50 for breast cancer?) rather than the three biomakers because PAM50 genes are more informative and accurate to classify […]

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