Gene Sets for qPCR
Suggested gene lists for some commonly studied pathways for human, mouse, and rat species are provided. Gene lists for additional human signaling pathways (Notch, TLR, WNT, etc.), biochemical pathways, and genes that have been associated with certain cancers, can be found as a Microsoft Excel file under Extended Gene Set List.
Copy and paste desired genes or gene sets into the search box of the PrimeTime Plates ordering tool to generate the assays you require.
Housekeeping
Human
ACTB, B2M, GAPDH, GUSB, HMBS, HPRT1, IPO8, PGK1, POLR2A, PPIA, RN18S1, RPLP0, TBP, TFRC, UBC, YWHAZ
Mouse
ACTB, B2M, GAPDH, GUSB, HMBS, HPRT, IPO8, PGK1, POLR2A, PPIA, RPLP2, TBP, TFRC, UBC, YWHAZ
Rat
ACTB, B2M, GAPDH, GUSB, HMBS, HPRT, IPO1, POLR2A, PPIA2, TBP, TFRC, UBC, YWHAZ
Apoptosis
Human
AKT1, APAF1, BAD, BAG3, BAK1, BAX, BCL10, BCL2, BCL2A1, BCL2L1, BCL2L10, BCL2L11, BCL2L2, BFAR, BID, BIK, BIRC3, BIRC6, BNIP3, BNIP3L, BRAF, CASP1, CASP10, CASP14, CASP2, CASP3, CASP4, CASP6, CASP8, CASP9, CD27, CD40LG, CD70, CFLAR, CYCS, DAPK1, DFFA, FADD, FAS, FASLG, HRK, IGF1, IGF1R, IL1B, LTA, MCL1, NAIP, NFKB1, NGF, NGFR, NOD1, NOL3, PYCARD, TNF, TNFRSF10A, TNFRSF10B, TNFRSF9, TNFSF10, TNFSF8, TP53, TP53BP2, TRADD, TRAF2, XIAP
Mouse
BAK1, BAX, BCL10, BCL2L11, BID, BOK, CASP1, CASP12, CASP14, CASP2, CASP3, CASP6, CASP8, CASP8AP2, CIDEB, DAPK1, DFFA, DFFB, DIABLO, FADD, FAS, MAPK1, PYCARD, TNF, TNFRSF10B
Rat
BAK1, BAX, BCL10, BCL2L11, BID, BOK, CASP1, CASP12, CASP14, CASP2, CASP3, CASP6, CASP8, CASP8AP2, CIDEB, DAPK1, DFFA, DFFB, DIABLO, FADD, FAS, MAPK1, PYCARD, TNF, TNFRSF10B
Angiogenesis
Human
ANGPT1, ANGPT2, ANGPTL4, CDH5, COL18A1, COL4A3, CTGF, F3, FGF1, FLT1, FN1, HGF, IL8, ITGAV, ITGB3, KDR, LEP, MDK, MMP2, NRP1, NRP2, PECAM1, PF4, PLG, PROK2, S1PR1, SERPINE1, SERPINF1, TGFA, TGFB1, THBS2, TIE1, TIMP3, TNF, TYMP, VEGFA
Mouse
ANG, ANGPT1, ANGPT2, ANPEP, BAI1, COL18A1, COL4A3, CTGF, ENG, F3, FGF1, FGF2, FGF6, FGFR3, FIGF, FLT1, ITGAV, ITGB3, JAG1, KDR, MAPK14, MMP19, NOS3, NRP1, NRP2, PGF, SERPINE1, SERPINF1, SPHK1, TEK, THBS1, VEGFA, VEGFB, VEGFC
Rat
ANG, ANGPT1, ANGPT2, ANPEP, BAI1, COL18A1, COL4A3, CTGF, ENG, F3, FGF1, FGF2, FGF6, FGFR3, FIGF, FLT1, ITGAV, ITGB3, JAG1, KDR, MAPK14, MMP19, NOS3, NRP1, NRP2, PGF, SERPINE1, SERPINF1, SPHK1, TEK, THBS1, VEGFA, VEGFB, VEGFC
Chemokines
Human
CCL1, CCL13, CCL17, CCL19, CCL20, CCL21, CCL22, CCL24, CCL3, CCL5, CCL7, CCL8, CX3CL1, CXCL1, CXCL10, CXCL11, CXCL12, CXCL16, CXCL5, CXCL9, PF4, PPBP, XCL1
Mouse
CCL1, CCL11, CCL17, CCL2, CCL20, CCL22, CCL24, CCL3, CCL4, CCL5, CCL7, CX3CL1, CXCL1, CXCL10, CXCL11, CXCL12, CXCL13, CXCL16, CXCL5, CXCL9, XCL1
Rat
CCL1, CCL11, CCL17, CCL2, CCL20, CCL22, CCL24, CCL3, CCL4, CCL5, CCL7, CX3CL1, CXCL1, CXCL10, CXCL11, CXCL12, CXCL13, CXCL16, CXCL5, CXCL9, XCL1
Cyclins
Human
ATM, ATR, CCNA1, CCNA2, CCNB1, CCNB2, CCND1, CCND2, CCND3, CCNE1, CCNE2, CCNH, CDC25A, CDK1, CDK2, CDK4, CDK6, CDKN1A, CDKN2A, CDKN2B, CDKN2C, CDKN2D, E2F4, RB1, TGFB1, TP53
Cytokines
Human
CD40LG, CD70, FASLG, IFNA1, IFNA2, IFNA6, IFNA7, IFNA8, IFNB1, IFNG, IL10, IL12A, IL12B, IL13, IL15, IL16, IL17A, IL18, IL1A, IL1B, IL2, IL3, IL4, IL5, IL6, IL8, IL9, LTA, LTB, TNF, TNFRSF11B, TNFSF10, TNFSF11, TNFSF12, TNFSF13, TNFSF13B, TNFSF14, TNFSF4, TNFSF8
Mouse
CD40LG, CD70, FASL, IL10, IL11, IL12B, IL13, IL15, IL16, IL17A, IL17B, IL17C, IL17F, IL18, IL19, IL1A, IL1B, IL1RN, IL2, IL20, IL21, IL23A, IL25, IL27, IL3, IL4, IL5, IL6, IL7, IL9, LTA, LTB, TNF, TNFRSF11B, TNFSF11, TNFSF12, TNFSF13, TNFSF13B, TNFSF14, TNFSF15, TNFSF18, TNFSF4, TNFSF8, TNFSF9, TXLNA
Rat
CD40LG, CD70, FASL, IL10, IL11, IL12B, IL13, IL15, IL16, IL17A, IL17B, IL17C, IL17F, IL18, IL19, IL1A, IL1B, IL1RN, IL2, IL20, IL21, IL23A, IL25, IL27, IL3, IL4, IL5, IL6, IL7, IL9, LTA, LTB, TNF, TNFRSF11B, TNFSF11, TNFSF12, TNFSF13, TNFSF13B, TNFSF14, TNFSF15, TNFSF18, TNFSF4, TNFSF8, TNFSF9, TXLNA
Growth Factors
Human
BMP1, BMP2, BMP3, BMP4, BMP5, BMP6, BMP7, CNTF, CSF1, CSF2, CSF3, FIGF, GDF2, GDF5, GDF9, INHA, LEFTY2, LIF, MSTN, NODAL, OSM, PDGFA, TGFA, TGFB1, TGFB2, TGFB3, THPO, VEGFA
Mouse
BMP1, BMP3, BMP5, BMP6, BMP7, CD40LG, CD70, CNTF, CSF1, CSF2, CSF3, FASL, FGF10, GDF2, GDF5, GDF9, GREM1, INHA, INHBA, LEFTY1, LIF, LTA, LTB, MSTN, OSM, TGFB1, TGFB2, THPO, TNF, TNFRSF11B, TNFSF11, TNFSF12, TNFSF13, TNFSF13B, TNFSF14, TNFSF15, TNFSF18, TNFSF4, TNFSF8, TNFSF9, VEGFA
Rat
BMP1, BMP3, BMP5, BMP6, BMP7, CD40LG, CD70, CNTF, CSF1, CSF2, CSF3, FASL, FGF10, GDF2, GDF5, GDF9, GREM1, INHA, INHBA, LEFTY1, LIF, LTA, LTB, MSTN, OSM, TGFB1, TGFB2, THPO, TNF, TNFRSF11B, TNFSF11, TNFSF12, TNFSF13, TNFSF13B, TNFSF14, TNFSF15, TNFSF18, TNFSF4, TNFSF8, TNFSF9, VEGFA
MAP Kinase
Human
ARAF, BRAF, CREB1, GRB2, HRAS, KRAS, MAP2K1, MAP2K2, MAP2K4, MAP2K7, MAP4K1, MAPK13, MAPKAPK2, MAPKAPK3, MEF2C, MKNK1, MST1, MYC, NRAS, PAK1, RAC1, RAF1, TP53
Mouse
ARAF, ATF2, CDC42, CHUK, CREB1, CREBBP, DLK1, EGFR, ETS1, ETS2, GRB2, JUN, KCNN1, KRAS, MAP2K1, MAP2K2, MAP2K3, MAP2K4, MAP2K5, MAP2K6, MAP2K7, MAP3K1, MAP3K3, MAP3K4, MAP4K1, MAPK1, MAPK10, MAPK13, MAPK14, MAPK3, MAPK6, MAPK7, MAPK8, MAPK9, MAPKAPK2, MAX, MEF2C, MKNK1, MYC, NFATC4, NRAS, PAK1, RAC1, RAF1, SMAD4
Rat
ARAF, ATF2, CDC42, CHUK, CREB1, CREBBP, DLK1, EGFR, ETS1, ETS2, GRB2, JUN, KCNN1, KRAS, MAP2K1, MAP2K2, MAP2K3, MAP2K4, MAP2K5, MAP2K6, MAP2K7, MAP3K1, MAP3K3, MAP3K4, MAP4K1, MAPK1, MAPK10, MAPK13, MAPK14, MAPK3, MAPK6, MAPK7, MAPK8, MAPK9, MAPKAPK2, MAX, MEF2C, MKNK1, MYC, NFATC4, NRAS, PAK1, RAC1, RAF1, SMAD4
Protein Tyrosine Kinases
Human
DDR2, EPHA2, EPHA3, EPHA4, EPHA5, EPHA7, EPHA8, EPHB2, EPHB4, EPHB6, ERBB3, ERBB4, FGFR2, FGFR3, FGFR4, FLT3, INSR, INSRR, LTK, MERTK, MST1R, NTRK2, NTRK3, PDGFRB, PTK7, RET, ROS1, RYK, TYRO3
Mouse
ALK, AXL, DDR1, DDR2, EGFR, EPHA1, EPHA2, EPHA3, EPHA4, EPHA5, EPHA7, EPHA8, EPHB1, EPHB2, EPHB3, EPHB6, ERBB3, ERBB4, FGFR1, FGFR2, FGFR3, FGFR4, FLT3, IGF1R, IGF2R, INSR, INSRR, LTK, MERTK, PDGFRA, PDGFRB, ROR1, ROR2, TIE1, TYRO3
Rat
ALK, AXL, DDR1, DDR2, EGFR, EPHA1, EPHA2, EPHA3, EPHA4, EPHA5, EPHA7, EPHA8, EPHB1, EPHB2, EPHB3, EPHB6, ERBB3, ERBB4, FGFR1, FGFR2, FGFR3, FGFR4, FLT3, IGF1R, IGF2R, INSR, INSRR, LTK, MERTK, PDGFRA, PDGFRB, ROR1, ROR2, TIE1, TYRO3
Tumor Metastasis
Human
APC, CXCR4, EWSR1, HTATIP2, IGF1, IL18, IL1B, ITGA7, KRAS, MYC, NF2, NME1, NME2, NR4A3, RB1, RORB, SSTR2, SYK, TGFB1, TIMP3, TNFSF10, TP53, TSHR, VEGFA
Mouse
APC, BRMS1, CCL7, CDKN2A, CHD4, CSF1, CTBP1, CXCR4, HRAS1, HTATIP2, IGF1, IL18, IL1B, ITGA7, KISS1, KISS1R, KRAS, MCAM, MDM2, MET, MYC, MYCL1, NF2, NME1, NME2, NME4, NR4A3, PLAUR, PNN, PTEN, RB1, RORB, SET, SMAD2, SMAD4, SRC, SSTR2, SYK, TCF20, TGFB1, TIMP3, TRP53, TSHR, VEGFA
Rat
APC, BRMS1, CCL7, CDKN2A, CHD4, CSF1, CTBP1, CXCR4, HRAS1, HTATIP2, IGF1, IL18, IL1B, ITGA7, KISS1, KISS1R, KRAS, MCAM, MDM2, MET, MYC, MYCL1, NF2, NME1, NME2, NME4, NR4A3, PLAUR, PNN, PTEN, RB1, RORB, SET, SMAD2, SMAD4, SRC, SSTR2, SYK, TCF20, TGFB1, TIMP3, TRP53, TSHR, VEGFA
Extended Gene Set List
Gene lists for additional signaling pathways (Notch, TLR, WNT, etc.), biochemical pathways, and genes that have been associated with certain cancers are available in Extended Human Target Gene List, a subset of data downloaded from the Broad Institute Molecular Signatures Database (MSigDB) [1], Version 3.1, September 2012.
References
- Subramanian A, Tamayo P, Mootha VK, et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.
Proc Natl Acad Sci USA. 2005;102(43):15545-15550.