RNAscope Probes for Cancer RNA Biomarkers Get molecular...
Transcript of RNAscope Probes for Cancer RNA Biomarkers Get molecular...
Cancer RNA BiomarkersA cancer RNA biomarker refers to a coding or non-coding RNA that is indicative of the presence of cancer—either expressed by a tumor or expressed as a specific response of the body to the presence of cancer. Cancer researchers apply RNAscope® in situ hybridization to study the following:
Tumor heterogeneity—There is a tremendous amount of inter-tumor and intra-tumor heterogeneity. RNAscope’s single-molecule sensitivity with single-cell resolution along with intact morphological context allows for visualization of differential gene expressions in morphologically similar tumor cells.
Tumor microenviroment—A tumor is a complex organ comprised of many different cell types. Its communication with neighboring normal cells, extracellular matrix, and signaling molecules like chemokines, cytokines and growth factors is a major driver of cancer progression and metastasis. RNAscope ISH is particularly suited for dissecting complex autocrine and paracrine communication mechanisms.
Circulating tumor cells—The unprecedented high-fidelity signal amplification and multiplexing capability of RNAscope make it possible to simultaneously detect and characterize viable CTCs in the background of millions of blood cells.
RNAscope ISH enables visualization of RNA biomarkers while preserving tissue context with single-cell resolution. It is an essential solution in a multitude of cancer research applications
including risk assessment, diagnosis, prognosis, patient stratification, therapy and epidemiology.
Figure 1. Human breast cancer: EPCAM1 (red) & EGFR (green) expression in FFPE tissue; RNAscope 2-plex Chromogenic Kit
Above: Human breast cancer: HPRT1, POLR2A, PPIB and PGK mRNA expression in FFPE tissue
Figure 2: Human breast cancer: PanCK, uPA and PAI-1 expression in FFPE tissue; RNAscope Multiplex Fluorescent Kit
Product Overview
Partial list of publications using RNAscope® Technology in cancer research:
A collagen-remodeling gene signature regulated by TGF-ß signaling is associated with metastasis and poor survival in serous ovarian cancer. Cheon et al. (2014) PMID: 24218511
Possible role of Cdx2 in the serrated pathway of colorectal cancer characterized by BRAF mutation, high-level CpG Island methylator phenotype and mismatch repair-deficiency. Dawson et al. (2014) PMID: 24166180
In situ Tumor PD-L1 mRNA expression is associated with increased TILs and better outcome in breast carcinomas. Schalper et al. (2014) PMID: 24647569
The PAS positive material in gastric cancer cells of signet ring type is not mucin. Sørdal et al. (2014) PMID: 24589859
Utility of PAX8 mouse monoclonal antibody in the diagnosis of thyroid, thymic, pleural, and lung tumors: a comparison with polyclonal PAX8 antibody. Toriyama et al. (2014) PMID: 24592933
Visualize RNA biomarkers in your cancer tissues today acdbio.com/cancer
RNAscope®Probe List: Cancer RNA Biomarkers
RNAscope® Probes for Cancer RNA Biomarkers Get molecular detection with morphological context in a single assay.
CAT No. Gene
401191 ABCB1
404701 ACACA
408301 ACSL4
311811 ACTA2
310141 ACTB
559661 ADAM10
319711 ADRM1
602841 AGTR1
521761 AICDA
600941 ALB
310151 ALDH1A1
310151-C3 ALDH1A1
528741 ALDH1A2
314191 ALK
317841 ALK
314731 ALK
311841-C3 ALK
311841-C4 ALK
405671 ALOX12
405451-C2 AMACR
594511 ANGPT2
402881 ANKRD30A
400101 ANXA10
558931 ANXA6
314311 APOA1
560521 APOBEC3A
561751 APOBEC3B
405761 APOC3
404691 APOH
400491 AR
313111 AREG
313111-C3 AREG
401581 ARG1
401591 ARG2
538341 ARID1A
477211 ARPC5
406521 ASAP1
311011 ASCL2
405741 ATF4
494481 ATP4A
401361 AVP
400241 AXIN2
319641 AXL
602131 AXL
401861 AZGP1
310161 B2M
310161-C2 B2M
319841 BACH1
CAT No. Gene
407731 BBC3
407771 BCAR4
591721 BCL2
591721-C3 BCL2
408271-C4 BCL2L1
407251 BCL6
319931 BCR
409041 BDNF
560311 BIN1
562551 BIRC7
591931 BMI1
595251 BRAF
485471 BRCA1
485471-C2 BRCA1
401371 BRCA2
408681-C2 BRD4
464291 BTC
464291-C2 BTC
408431 BTG2
401601 BTLA
406161 BTLA
559341 CA9
559341-C2 CA9
605551-C2 CALCA
598461-C2 CALR
314401 CAST
557641 CAST
314411 CAST
314391 CAST
406001 CBFA2T3
496861 CBR3
539041 CCK
485911 CCKAR
311101 CCKBR
549171 CCL5
591821 CCND1
406901 CCR1
401881 CCR1
601501 CCR5
601501-C4 CCR5
403911 CCR6
488071 CCR8
407361 CD22
313021 CD24
313021-C3 CD24
316271 CD274
600861 CD274
311211 CD274
CAT No. Gene
539251-C2 CD34
560821-C2 CD34
539251-C4 CD34
560821-C4 CD34
555241 CD38
555241-C4 CD38
586341 CD3G
605601 CD4
408061 CD4
605601-C3 CD4
408071-C3 CD4
578471 CD40
542341 CD40LG
311271 CD44
311271-C4 CD44
555111 CD47
560591 CD68
560591-C2 CD68
560391 CD8A
560391-C2 CD8A
559231 CDA
311091 CDH1
311091-C2 CDH1
311091-C3 CDH1
310171 CDH2
407201 CDH3
403021 CDH9
311401 CDKN1A
607061 CDKN1B
408201 CDKN1C
310181 CDKN2A
401621 CDKN3
406261 CDX2
403031 CEACAM6
313661 CELA2A
313671 CELA3B
404351 CES1
404361 CES2
402101 CFB
317551 CFLAR
317561 CFLAR
603291 CFTR
311111 CHGA
311111-C2 CHGA
408121 CHI3L1
407951 CHRM1
310101 CHRNA7
492131 CLDN6
CAT No. Gene
606241 CLU
554801 CMKLR1
591521 CNR1
596021 CNR2
400741 COL11A1
401891 COL1A1
549431 COL3A1
549431-C3 COL3A1
313001 CSF1
310111 CSF1R
310811 CSF1R
313981 CSF2
402891 CTAG1B
560581 CTGF
554341 CTLA4
311731 CTNNB1
403981 CXADR
311851 CXCL10
311851-C2 CXCL10
311321 CXCL13
539251 CXCR3
310511 CXCR4
547161 CYP3A43
550331 CYP3A5
406171 DCBLD1
602031 DCK
593011 DCLK1
593011-C2 DCLK1
589521 DCN
312371 DDB2
311131 DDIT3
593591 DDR1
593591-C2 DDR1
551011 DDR2
316631 DEFA6
316631-C2 DEFA6
400751 DEFB4A
403041 DES
403051 DICER1
603001 DLL4
553991 DRD2
553991-C2 DRD2
561361 DUOX2
561361-C2 DUOX2
401261 DUOXA2
401261-C2 DUOXA2
402181 DUSP22
405361 DUSP6
CAT No. Gene
528301 EDNRB
408471 EDNRB
400621 EFNA3
557791 EFNA4
469161 EFNB3
605771 EGF
605771-C2 EGF
314001 EGFL7
319461 EGFR
310061 EGFR
310061-C2 EGFR
402911 EN2
601051 ENPP2
310281 EPCAM
310281-C5 EPCAM
463241-C2 EPGN
407441 EPHA2
406251 EPHB2
528991 EPHB3
516401 EPHB4
312191 EPOR
312671 ERBB2
310081 ERBB2
310081-C2 ERBB2
310081-C3 ERBB2
310081-C4 ERBB2
311941 ERBB3
311941-C2 ERBB3
407831-C2 ERBB4
310291 ERCC1
313081 EREG
604021 ERG
310301 ESR1
310301-C2 ESR1
310301-C4 ESR1
311411 ETV1
491521 ETV4
590371 ETV5
408971-C2 EWSR1
528941 EZH1
405491 EZH2
319861 F2RL1
407611 F3
593511 FBLN5
405801 FBXW7
555921 FCGR2A
401381 FDXR
584671 FERMT2
RNAscope® Human Cancer RNA Biomarker Probe List
Partial publications list (continued)
Programmed death ligand-1 expression in non-small cell lung cancer. Velcheti et al. (2014) PMID: 24217091
Application of circulating tumor cells scope technique on circulating tumor cell research. Yang et al. (2014)doi:10.1186/2052-8426-2-8
Monitoring Tumorigenesis and Senescence In Vivo with a p16 INK4a Luciferase Model. Burd et al. (2013) PMID: 23332765
The utility of immunohistochemistry for providing genetic information on tumors. Chan et al. (2013) PMID: 24065374
Cell-Autonomous and Non–Cell-Autonomous Mechanisms of HGF/MET–Driven Resistance to Targeted Therapies: From Basic Research to a Clinical Perspective. Corso, S, Giordano, S (2013) PMID: 23901039
Validation of esophageal squamous cell carcinoma candidate genes from high-throughput transcriptomic studies. Du Q et al. (2013) PMID: 23977449
The effects of unilateral truncal vagotomy on gastric carcinogenesis in hypergastrinemic Japanese female cotton rats. Fossmark et al. (2013) PMID: 23499800
Fibroblast growth factor receptor 1 as a putative therapy target in colorectal cancer. Göke et al. (2013) PMID: 24135816
Distribution of LGR5+ Cells and Associated Implications during the Early Stage of Gastric Tumorigenesis. Jang BG, Lee BL, Kim WH. (2013) PMID: 24340024
In situ analysis of HER2 mRNA in gastric carcinoma: comparison with fluorescence in situ hybridization, dual-color silver in situ hybridization, and immunohistochemistry. Kim et al. (2013). PMID: 23084583
CAT No. Gene
528301 EDNRB
408471 EDNRB
400621 EFNA3
557791 EFNA4
469161 EFNB3
605771 EGF
605771-C2 EGF
314001 EGFL7
319461 EGFR
310061 EGFR
310061-C2 EGFR
402911 EN2
601051 ENPP2
310281 EPCAM
310281-C5 EPCAM
463241-C2 EPGN
407441 EPHA2
406251 EPHB2
528991 EPHB3
516401 EPHB4
312191 EPOR
312671 ERBB2
310081 ERBB2
310081-C2 ERBB2
310081-C3 ERBB2
310081-C4 ERBB2
311941 ERBB3
311941-C2 ERBB3
407831-C2 ERBB4
310291 ERCC1
313081 EREG
604021 ERG
310301 ESR1
310301-C2 ESR1
310301-C4 ESR1
311411 ETV1
491521 ETV4
590371 ETV5
408971-C2 EWSR1
528941 EZH1
405491 EZH2
319861 F2RL1
407611 F3
593511 FBLN5
405801 FBXW7
555921 FCGR2A
401381 FDXR
584671 FERMT2
CAT No. Gene
312321 FFAR1
553981 FGF19
312111 FGF2
557241 FGF23
310071 FGFR1
311171 FGFR2
310791 FGFR3
405281 FLG
311221 FLI1
408981 FLI1
560701 FLT1
552441 FLT4
310311 FN1
310311-C2 FN1
310311-C3 FN1
580751 FOLR1
580751-C2 FOLR1
479871 FOLR2
319901 FOS
313201 FOXC2
406941 FOXM1
407231 FOXP1
407261 FOXP2
400501 FSHR
408101 FSHR
315051 FTL
317631 GAL
493901 GALR1
310321 GAPDH
310321-C4 GAPDH
403551 GATA3
579821 GATA4
486841 GATA5
603131 GATA6
600301 GDF15
499521 GDF2
499521-C2 GDF2
499711 GDF3
311801 GFAP
311801-C2 GFAP
489201 GLDC
310991 GLI1
310991-C2 GLI1
519821 GLP1R
519821-C3 GLP1R
407371-C2 GNLY
553421 GNRHR
310331 GRB7
CAT No. Gene
312831 GREM1
310621 GUCA2A
310601 GUCY2C
400771 H19
400771-C3 H19
607081 HAS2
316051 HAVCR2
560681 HAVCR2
524821 HBEGF
524821-C2 HBEGF
311191 HES1
311201 HEY1
310761 HGF
314331 HIF1A
605221 HIF1A
594851 HMGB2
594851-C3 HMGB2
319851 HMOX1
312341 HOTAIR
400221 HOXA13
400781 HOXB13
312211 HOXC6
583651 HPGD
310341 HPRT1
402191 HRH3
310681 HTR3A
560621 HTRA1
402951 ICAM1
407141-C2 ICOS
537491 IDH1
537791 IDH2
602681 IDO1
559781 IFNG
310501 IFNG
310501-C2 IFNG
412341 IFNL1
314641 IGF1
313031 IGF1
594361 IGF2
594361-C2 IGF2
558011 IGF2BP3
558011-C2 IGF2BP3
313061 IGFBP2
310351 IGFBP3
310351-C2 IGFBP3
316681 IGFBP7
312551 IGKC
602051 IL10
CAT No. Gene
316061 IL10
402061 IL12A
402071 IL12B
586241 IL13
546221 IL13RA2
310931 IL17A
310941 IL17F
400301 IL18
556791 IL1A
310361 IL1B
603491 IL1RL1
402041 IL2
404291 IL20RB
401251 IL21
560811 IL22
403811 IL22RA1
562851 IL23A
406891 IL23A
406881 IL23A
554761 IL23R
404301 IL24
542211 IL3
400111 IL33
315191 IL4
319391-C2 IL5
310371 IL6
310371-C2 IL6
557201 IL6R
408841 IL7R
310381 IL8
492041-C2 ILDR1
313571 INS
313571-C3 INS
406411 INSR
522691 IRAK1
457751 ITGA11
559021 ITGA6
559021-C3 ITGA6
555091 ITGAM
555091-C2 ITGAM
312491 ITGB6
605941 ITGB7
506871 ITGB8
546181 JAG1
403791 JAK2
403921 KCNA3
407741 KDM5A
312121 KDR
CAT No. Gene
591611 KDR
606401 KIT
606401-C2 KIT
407671 KITLG
601181 KLF5
582551 KLF9
582551-C2 KLF9
555151 KLK3
555151-C2 KLK3
310741 KLRC1
595101 KRAS
310201 KRT17
310211 KRT18
310211-C5 KRT18
310221 KRT19
549681 KRT20
310241 KRT5
547901 KRT5
310241-C2 KRT5
310241-C3 KRT5
550151 KRT7
550151-C3 KRT7
310261 KRT8
310261-C5 KRT8
316071 LAG3
553931 LAG3
408081 LAPTM4B
559441 LCN2
406371 LEPR
311021 LGR5
311021-C2 LGR5
311021-C3 LGR5
588991 LIN28A
596361 LIN28B
596361-C2 LIN28B
311341 LOXL2
483881 LPAR1
407421 LRIG1
310461 LTA
596391 MACC1
402921 MAGEA10
402931 MAGEB2
400811 MALAT1
603161 MAP3K5
402751 MAP3K8
408991 MAPT
601731 MCAM
588851 MCL1
CAT No. Gene
311781 MDM2
403711 MDM4
400821 MEG3
310051 MET
310051-C2 MET
588941 MGMT
310951 MITF
591771 MKI67
403411-C3 MMP13
408011 MMP14
311751 MMP2
403421-C2 MMP3
311331 MMP9
313811 MMP9
311331-C2 MMP9
603091 MPO
312461 MST1R
408421 MTA2
310631 MTNR1A
310391 MUC1
310391-C2 MUC1
310391-C3 MUC1
312911 MUC13
312871 MUC2
312871-C2 MUC2
312881 MUC4
312891 MUC5AC
312901 MUC6
311761 MYC
311761-C2 MYC
599311 NAMPT
604491 NANOG
604491-C2 NANOG
491071 NCSTN
582241 NDRG4
549451 NGF
406331 NGFR
583321 NID1
311861 NOTCH1
558991 NOTCH3
558991-C2 NOTCH3
555671 NQO1
582621 NR4A2
538501 NRF1
311181 NRG1
311181-C2 NRG1
313171 NTM
402631 NTRK1
CAT No. Gene
406391 NTRK1
402621 NTRK2
406341 NTRK3
406511 OCLN
498831 OGN
311041 OLFM4
594211 OSGIN1
554091 P2RX7
531491 PAF1
588881-C2 PAX6
402361 PAX8
403311 PBRM1
312201 PCA3
312201-C2 PCA3
312201-C3 PCA3
313851 PCAT1
553071 PCNA
316281 PDCD1
602021 PDCD1
316291 PDCD1LG2
551891 PDCD1LG2
406721 PDGFA
406701 PDGFB
404281 PDGFC
406711 PDGFD
604481 PDGFRA
604481-C2 PDGFRA
548991 PDGFRB
539751 PDPN
548451 PECAM1
548451-C2 PECAM1
311771 PGF
310401 PGK1
589751 PGR
312381 PHLDA3
435301 PIF1
603041 PIK3CA
603041-C4 PIK3CA
520981 PIK3CD
520981-C2 PIK3CD
590471 PIK3CG
590471-C2 PIK3CG
401901 PIM1
542701 PLAUR
599121 PMP22
402431-C3 PODXL
310451 POLR2A
310451-C2 POLR2A
CAT No. Gene
310451-C3 POLR2A
310451-C4 POLR2A
310451-C5 POLR2A
409181 POSTN
592861 POU5F1
592861-C2 POU5F1
592861-C3 POU5F1
313901 PPIB
313901-C2 PPIB
602231 PPM1D
401851 PRAME
407381-C3 PRF1
561721 PRKAB1
315811-C2 PRL
315811 PRL
542551 PRLR
542551-C2 PRLR
409331 PRNCR1
605331 PROCR
311261 PROM1
311261-C2 PROM1
530241 PROX1
530241-C2 PROX1
432791 PRUNE2
405781 PTCH1
310121 PTEN
408511 PTEN
407761 PTENP1
406791 PTGER2
406771 PTGER4
406781 PTGES2
406811 PTGS1
406801 PTGS2
537131 PTH1R
404141 PTK7
601991 PTPRC
601991-C4 PTPRC
403071 PVRL1
406951 PVT1
407641 PYCARD
559121 RAF1
545401 RARRES3
310551 REG1A
312051 REG1B
312061 REG3A
312071 REG4
586581 RIPK1
401181 RLN1
This document is provided for informational use only.For Molecular Biology Applications (MBA), not intended for diagnosis. Refer to appropriate regulations. RNAscope® is a registered trademark of Advanced Cell Diagnostics, Inc. in the United States or other countries. All rights reserved. ©2014 Advanced Cell Diagnostics, Inc. Doc#: 321088/040214/revA
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Visualize RNA biomarkers in your cancer tissues today acdbio.com/cancer
RNAscope® Human Cancer RNA Biomarker Probe List (continued)
Partial publications list (continued)
Intestinal Tumorigenesis. Méniel et al. (2013) PMID: 23935526
Deregulation of the cell polarity protein Lethal giant larvae 2 (Lgl2) correlates with gastric cancer progression. Nam et al. (2013) PMID: 24337435
The long noncoding RNA SChLAP1 promotes aggressive prostate cancer and antagonizes the SWI/SNF complex. Prensner et al. (2013) PMID: 24076601
Pin1 modulates ERß levels in breast cancer through inhibition of phosphorylation-dependent ubiquitination and degradation. Rajbhandari et al. (2013). PMID: 23542176
Cyclin D1̶a prognostic marker in oropharyngeal squamous cell carcinoma that is tightly associated with high-risk human papillomavirus status. Scantlebury et al. (2013) PMID: 23566410
High Heregulin Expression is Associated with Activated HER3 and
in Patients with Squamous Cell Carcinomas of the Head and Neck. Shames et al. (2013) PMID: 23468880
A mouse model of chronic prostatic
prostate cancer-derived isolate of Propionibacterium acnes. Shinohara et al. (2013) PMID: 23389852
Myeloid cell receptor LRP1/CD91 regulates monocyte recruitment and angiogenesis in tumors. Staudt et al. (2013) PMID: 23633492
CAT No. Gene
400251 RNF43
402831 ROR1
408601 ROR2
311061 RORC
556991 RORC
316871 ROS1
314321 ROS1
316861 ROS1
314751 ROS1
312391 RPS27L
310411 RRM1
402211 RTN4
400861 S100A11
310971 S100B
401931 S100P
491201 S1PR1
537881 S1PR3
475601 S1PR4
313421 SAT1
562251 SCN9A
315071 SEC61B
401941 SERPINB5
555961 SERPINE1
555961-C3 SERPINE1
313351 SFRP4
600951 SHH
600951-C2 SHH
311431 SLC18A2
588291 SLC24A4
606431 SLC29A1
407101 SLC34A2
407101-C3 SLC34A2
315831 SLC39A6
604741 SLC6A4
310561 SLC6A4
404371 SLFN11
CAT No. Gene
404231 SMAD2
404241 SMAD3
404251 SMAD4
521561 SMC1A
405831 SMO
560421 SNAI1
554581 SNAI2
605681 SNCA
409021 SNCA
408411 SOS1
400871 SOX2
404221 SOX9
405321 SPRY2
546711 SPRY4
310591 SST
310591-C2 SST
310581 SSTR1
310571 SSTR2
312841 SSTR3
312851 SSTR4
312861 SSTR5
498361 ST8SIA1
405851 STK39
408671 STK4
403581 SULF1
311421 SYP
310711 TAC1
551641-C2 TACC3
310701 TACR1
405471 TACSTD2
498961 TAGLN
405571 TAS2R38
601121 TBK1
314291 TBP
406561-C2 TCF7
312361 TERC
CAT No. Gene
605511 TERT
407431 TFF2
403101 TFF3
313131 TGFA
400881 TGFB1
407121 TGFB1
404581 TGFB2
407941 TGFBR2
403111 TLR2
605951 TLR3
311281 TLR4
541441 TLR7
542521 TLR8
402221 TMEM45A
310421 TNF
310421-C2 TNF
310721 TNFRSF10B
310801 TNFRSF12A
406961 TNFRSF13C
319731 TNFRSF14
319721 TNFRSF14
585791 TNFRSF17
400611 TNFRSF1A
310831 TNFRSF8
593451 TNFRSF8
406981 TNFSF13
406971 TNFSF13B
403121 TNFSF15
605201 TP53
601891 TP63
405481 TPBG
403931 TPBG
495221 TRIM23
319871 TRIM29
311951 TRPA1
312731 TSC2
CAT No. Gene
403541 TSLP
402841 TSPY1
403561 TTF1
588791 TUBB
318901 TUBB3
318901-C2 TUBB3
310431 TWIST1
602381 TXNIP
602381-C4 TXNIP
407341 UBB
402241 UBB
310041 UBC
310041-C2 UBC
310041-C3 UBC
594281 UCHL1
403131 UNC5C
405811 UPK2
311351 VEGFA
401951 VHL
310441 VIM
560461 VWF
560461-C2 VWF
560461-C4 VWF
584071 WNT2
604921 WNT5A
408231 WNT7A
313191 ZEB1
313191-C4 ZEB1
404271 ZEB2
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