Image Gallery | In Situ Hybridization, RNA-ISH | ACDBio

Now you can see any RNA

With RNAscope™ in situ hybridization assays you can visualize
Any RNA, in ANY species, in ANY tissue.

Click on the image galleries below to view examples of RNA visualization with our RNAscope ISH assays.

Each gallery contains multiple examples of spatial multiomic RNA or RNA + Protein detection achieved using one of our RNAscope ISH Technology Assays.

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RNAscope™ Technology

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Human HeLa cells: Beta-Actin, HPRT1, RPLP0, and PPIB expression using RNAscope™ Multiplex Fluorescent Assay (from Wang et al., JMD 2013)
Human breast cancer FFPE tissue: panCK, uPA and Pai-1 mRNA expression in using RNAscope™ Multiplex Fluorescent Assay (from Wang et al., JMD 2013)
Expression of Olfm4 mRNA (brown dots), RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Assays (published in Yan et al, PNAS 2012)

Expression of LGR5 RNA (brown dots) in human colorectal cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN.

RNAscope in Stem Cell Research

Expression of LGR5 RNA (brown dots) in human colorectal cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN.
Detection of Olfm4 crypt base columnar (CBCs) stem cells with RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN.

Expression of EGFR RNA (red dots) in human breast cancer FFPE tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED

RNAscope™ in Cancer Research

Expression of EGFR RNA (red dots) in human breast cancer FFPE tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of CD274 RNA (brown dots) in human breast cancer FFPE tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of ANXA10 RNA (brown dots) in human bladder cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of BAP1 RNA (brown dots) in human bladder cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of ERBB3 RNA (brown dots) in human bladder cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of FGFR3 RNA (brown dots) in human bladder cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of GATA3 RNA (brown dots) in human bladder cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of SPP1 RNA (brown dots) in human bladder cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of TACC3 RNA (brown dots) in human bladder cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of ERBB3 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of FGFR1 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of GATA3 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of IGF2 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of IL6 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of RRM1 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of S100P RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of SPP1 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of TACC3 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of BRCA1 RNA (red dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of CCND1 RNA (red dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of PGR RNA (red dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of TP63 RNA (red dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of FGF2 RNA (red dots) in human colorectal cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of IL6 RNA (red dots) in human colorectal cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of MMP9 RNA (red dots) in human colorectal cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of SHH RNA (red dots) in human colorectal cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of EGFR RNA (red dots) in human lung cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of ERBB3 RNA (red dots) in human lung cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of IL6 RNA (red dots) in human lung cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of MMP9 RNA (red dots) in human lung cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of NRG1 RNA (red dots) in human lung cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of KIT RNA (red dots) in human melanoma tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
Expression of TP63 RNA (red dots) in human prostate cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
HPV expression in human head and neck cancer cancer tissue, RNA in situ hybridization (ISH) using automated RNAscope™ Ventana Assay - BROWN
Expression of DLL4 RNA (brown dots) in human colorectal cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of HGF RNA (brown dots) in human colorectal cancer tissue, RNA in situ hybridization (ISH) using automated RNAscope™ Leica Assay-BROWN
Expression of PDL1 RNA (brown dots) in human colorectal cancer tissue, RNA in situ hybridization (ISH) using automated RNAscope™ Leica Assay-BROWN
Expression of IGF2 RNA (brown dots) in human esophageal cancer tissue, RNA in situ hybridization (ISH) using automated RNAscope™ Leica Assay-BROWN
Expression of IGF1 RNA (brown dots) in human lung cancer tissue, RNA in situ hybridization (ISH) using automated RNAscope™ Leica Assay-BROWN
Expression of PDL1 RNA (brown dots) in human lung cancer tissue, RNA in situ hybridization (ISH) using automated RNAscope™ Leica Assay-BROWN
Expression of CD19 RNA (red dots) in human lymphoma tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
CD274 mRNA expression in human cervical cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
CD274 mRNA expression in human colorectal cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
CD274 mRNA expression in human non-small lung cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-RED
CD274 mRNA expression in human renal cell carcinoma tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of EGFR RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of ERBB3 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of FGFR1 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of HER2 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of IL6 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of LOXL2 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of MMP9 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of NRG1 RNA (brown dots) in human breast cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of IDH2 RNA (brown dots) in human colorectal cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of LGR5 RNA (brown dots) in human colorectal cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of LOXL2 RNA (brown dots) in human colorectal cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of SHH RNA (brown dots) in human colorectal cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of AREG RNA (brown dots) in human lung cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of EREG RNA (brown dots) in human lung cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of FGFR1 RNA (brown dots) in human ovarian cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of VEGFR2 RNA (brown dots) in human renal cell cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN

Expression of HOTAIR RNA (brown dots) in human breast cancer FFPE tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN

RNAscope ISH with Long Noncoding RNA

Expression of HOTAIR RNA (brown dots) in human breast cancer FFPE tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Expression of PCA3 RNA (brown dots) in human prostate cancer FFPE tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN

Control Slide Human Hela cells 3 plex positive control probes, POLR2A (green) and PPIB (red) and UBC (white), RNA in situ hybridization using RNAscope™ Multiplex Fluorescent Assay

Control Probes Manual Assay Multiplex

Control Slide Human Hela cells 3 plex positive control probes, POLR2A (green) and PPIB (red) and UBC (white), RNA in situ hybridization using RNAscope™ Multiplex Fluorescent Assay

RNAscope™ 2.5 Brown - Mouse Eye - Wnt4

RNAscope 2.5 Manual Brown kit

RNAscope™ 2.5 Brown - Mouse Eye - Wnt4
RNAscope™ 2.5 Brown - Mouse Skin - Axin2
RNAscope™ 2.5 Brown - Mouse Skin - Procr

RNAscope™ 2.5 - Mouse Pancreas - Wnt4 (WNT B-Catenin signaling pathway) in situ hybridization

WNT Pathway

RNAscope™ 2.5 - Mouse Pancreas - Wnt4
Lim et al (2016) PNAS 16599113 Figure 3
RNAscope™ 2.5 Brown - Mouse Eye - Wnt4

RNAscope™ 2.5 - Hela Cell - TBP

RNAscope™ 2.5 Manual control probe

RNAscope™ 2.5 - Hela Cell - TBP

RNAscope™ 2.5 - Lung Cancer- PDL1

RNAscope 2.5 Manual red

RNAscope™ 2.5 - Lung Cancer- PDL1

RNAscope™ 2.5 LS Red - Head & Neck Cancer - HPV16

RNAscope 2.5 LS Red Kit

RNAscope™ 2.5 LS Red - Head & Neck Cancer - HPV16
RNAscope™ 2.5 LS Red - Kidney Cancer - PPIB
RNAscope™ 2.5 Red - Lung Cancer - POLR2A
RNAscope™ 2.5 LS Red - Prostate Cancer - PPIB

RNAscope™ 2.5 LS Brown - Breast Cancer - FGFR3

RNAscope 2.5 LS brown Kit

RNAscope™ 2.5 LS Brown - Breast Cancer - FGFR3
RNAscope™ 2.5 LS Brown - Breast Cancer - NRG1
RNAscope™ 2.5 LS Brown - Colon Cancer - PILR2A
RNAscope™ 2.5 - Liver Cancer - PPIB

Control Slide Human Hela cells with positive control probes PPIB in channel 1 and POLR2A in channel 2, RNA in situ hybridization ISH using RNAscope™ Chromogenic duplex assay

Control Slides

Control Slide Human Hela cells with positive control probes PPIB in channel 1 and POLR2A in channel 2, RNA in situ hybridization ISH using RNAscope™ Chromogenic duplex assay
Control Slide Mouse 3T3 using positive control probe Polr2a, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Control Slide Human Hela cells with negative control_dapB, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Control Slide Human Hela cells with positive control probe PPIB, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
Control Slide Human Hela cells with positive control probe POLR2A, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN

RNAscope™ 2.5 - Breast sample - dapB

RNAscope™ 2.5 LS control probe

RNAscope™ 2.5 - Breast sample - dapB
RNAscope™ 2.5 - Breast sample - PPIB
RNAscope™ 2.5 - Lymph node - dapB
RNAscope™ 2.5 LS Duplex Assay - mouse brain - Ppib and Polr2a

Human lung cancer with human PPIB positive control mRNA probe in red, CAM5.2 acidic cytokeratin immunohistochemical staining in green with DAPI as counterstain.

Dual ISH-IHC images gallery

Human lung cancer with human PPIB positive control mRNA probe in red, CAM5.2 acidic cytokeratin immunohistochemical staining in green with DAPI as counterstain.
Dual ISH-IHC - Detection of OLFM4 using RNAscope technology and Lyzozyme using IHC
Dual ISH-IHC. Detection of alpha-smooth muscle actin (SMA) using IHC (green) and Olfr558 using RNAscope technology (red)

Detection of Zika viral genomic RNA with RNAscope probe #464531 (red punctate dots). The Vero cells sample was infected with ZIKV, MR766 strain. Data courtesy of Dr. Noriko Nakajima, National Institute of Infectious Disease, Japan

RNAscope in Zika Research

Detection of Zika viral genomic RNA with RNAscope probe #464531 (red punctate dots). The Vero cells sample was infected with ZIKV, MR766 strain. Data courtesy of Dr. Noriko Nakajima, National Institute of Infectious Disease, Japan
Detection of Zika viral cRNA (- strand) with RNAscope™ probe #464541 ( red punctate dots). The Vero cells sample was infected with ZIKV, MR766 strain. Data courtesy of Dr. Noriko Nakajima, National Institute of Infectious Disease Japan

HCV-uninfected (left) or HCV-infected (right) HuH-7 cells were hybridized with probes targeting HCV mRNA (green). Cells were costained with 18S rRNA target probes (red) as an internal control for assay success. Nuclei were counterstained with DAPI (blue).

Infectious Diseases

HCV-uninfected (left) or HCV-infected (right) HuH-7 cells were hybridized with probes targeting HCV mRNA (green). Cells were costained with 18S rRNA target probes (red) as an internal control for assay success. Nuclei were counterstained with DAPI (blue).

Detection of SIV using non-isotopic ISH compared to the RNAscope ISH (red). Data courtesy of Dr. Jacob Estes of NCI

RNAscope™ in HIV/SIV Research

Detection of SIV using non-isotopic ISH compared to the RNAscope ISH (red). Data courtesy of Dr. Jacob Estes of NCI
Detection of HIV RNA in human CD3+ T cells in the spleen of humanized BLT mice using RNAscope 2.0 HD Reagent Kit-RED. RNAscope ISH was followed by colorimetric immunohistochemistry for human T cells using mAb to human CD3, and nuclei were counterstained
HIV in human lung tissue

HPV RNA Detection using in situ hybridization

RNAscope™ in HPV Related Research

HPV expression in human head and neck cancer cancer tissue, RNA in situ hybridization (ISH) using automated RNAscope™ Ventana Assay - BROWN
HPV E6/E7 expression in human head and neck cancer FFPE tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN
HPV E6/E7 expression in human head and neck cancer FFPE tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN

Expression of Hs-TNFSF4 (OX40L) (green), CD274 (PDL1) (red) and HAVCR2 (TIM3) (white) using RNAscope LS multiplex Fluorescent assay (RNA in situ hybridization ISH)

RNAscope™ LS Multiplex Fluorescent Assay

RNA expression of TNFSF4 (OX40L) (green), CD274 (PDL1) (red) and HAVCR2 (TIM3) (white) using RNAscope LS Multiplex Fluorescent Assay
RNA expression of Malat1 (red, high in nuclear) and Mog (white) in fresh frozen rat brain tissue using RNAscope LS multiplex Fluorescent Assay.
Positive control probes demonstrate RNA expression of Tbp (green), PPib (red) and UBC (white) in mouse brain fresh frozen tissue using RNAscope LS Multiplex Fluorescent Assay
RNA expression of CD3D (green) CD8A (red) combined with protein expression of CDC (white) (IHC) in human tonsil FFPE tissue using RNAscope LS Multiplex Fluorescent assay
RNA expression of Sc17a6-C1 (Vglut2) (green), Slc17a7-C2 (Vlgut1) (red) and Slc32a1-C3 (Vgat) in mouse brain fresh frozen tissue using RNAscope LS Multiplex Fluorescent Assay
RNA expression of Cnr1(green), Drd1 (red) and Nmdar1 (white) in mouse brain FFPE tissue using RNAscope LS Multiplex Fluorescent Assay
RNA expression of Sc17a6 (Vglut2)(green), SLc17a7 (Vlgut1) (red) and Slc32a1 (white) in mouse brain fresh frozen tissue using RNAscope LS Multiplex Fluorescent Assay
RNA expression of HPV HR18(green), Hs-CDKN2A (p16) (red) and Hs-MKI67(white) in human head and neck cancer FFPE tissue using RNAscope LS Multiplex Fluorescent Assay
RNA expression of KRT19(green), PECAM1 (red) and MKI67(white) in human breast cancer FFPE tissue using RNAscope LS Multiplex Fluorescent Assay
RNA expression of CD8A (green) CD274 (red) combined with protein expression of CD8 (white, IHC) in human lung cancer FFPE sample using RNAscope LS Multiplex Fluorescent Assay
RNA expression of TNFSF4 (OX40L)(green), CD274 (PDL1) (red) and HAVCR2 (TIM3) (white)in human lung cancer FFPE tissue using RNAscope LS Multiplex Fluorescent Assay
RNA expression of CXCL13 (green), CD274 (PDL1) (red) and KRT`9-C3 (white) in human lung cancer FFPE tissue using RNAscope LS Multiplex Fluorescent Assay
RNA expression of IDO1 (green), CD274 (PDL1)(red) and CTLA4 (white)in human lung cancer FFPE tissue using RNAscope LS Multiplex Fluorescent Assay

Lung cancer FFPE(RNA in situ hybridization ISH)

RNAscope™ LS Multiplex Fluorescent Assay, RNAscope™ in Inflammation Research

RNA expression of PTPRC (CD45) (green), IFNG (red) and of CD274 (PDL1) (white) in human lung cancer FFPE tissue using RNAscope LS Multiplex Fluorescent Assay

Expression of prostate cancer biomarker PCA3 RNA (brown dots) in human prostate cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN

Prostate Image Gallery

Expression of PCA3 RNA (brown dots) in human prostate cancer tissue, RNA in situ hybridization (ISH) using RNAscope™ 2.0 HD Reagent Kit-BROWN

Expression of Mm-Sc17a6 (Vglut2)(green), Mm-SLc17a7 (Vlgut1) (red) and Mm-Slc32a1 (white) in mouse brain fresh frozen tissue using RNAscope LS multiplex Fluorescent assay(RNA in situ hybridization ISH)

Mouse Image Gallery

RNA expression of Sc17a6 (Vglut2)(green), SLc17a7 (Vlgut1) (red) and Slc32a1 (white) in mouse brain fresh frozen tissue using RNAscope LS Multiplex Fluorescent Assay
Mouse Intestine FFPE Tissue: Ppib mRNA expression using the RNAscope™ LS Reagent Kit‒RED
Expression of Omp(r) andOlfr73(g) in mouse brain fresh-frozen tissue, RNA in situ hybridization (ISH) using RNAscope™ Multiplex Fluorescent Assay

Fig 1: Detection of different cell types in mouse brain hippocampus using the RNAscope™ Multiplex Fluorescent assay on Fresh Frozen samples: Rbfox3 (neurons, Green), Aif1 (microglia, Red) and Gfap (astrocytes, White). Cells are counterstained with DAPI.

RNAscope™ in Neuroscience Research

Fig 1: Detection of different cell types in mouse brain hippocampus using the RNAscope™ Multiplex Fluorescent assay on Fresh Frozen samples: Rbfox3 (neurons, Green), Aif1 (microglia, Red) and Gfap (astrocytes, White). Cells are counterstained with DAPI.
Fig 2: Visualization of two distinct striatal neuronal populations expressing either Drd1 (Red) or Drd2 (Green) in mouse brain striatum using the RNAscope™ Multiplex Fluorescent assay on Fresh Frozen tissue samples. Cells are counterstained with DAPI.
Fig 3: Detection of lncRNAs in mouse brain hippocampus using the RNAscope™ Multiplex Fluorescent assay on Fresh Frozen tissue samples: Neat1 (Red) and Malat1 (Green). Cells are counterstained with DAPI.
Fig 4: Detection of G protein-coupled receptors (GPCRs) in mouse brain striatum using RNAscope™2.5 HD Duplex Chromogenic assay on FFPE tissue samples: Cnr1 (Red) and Drd1 (Green). Cells are counterstained with hematoxylin.
Fig 5: Detection of G protein-coupled receptors (GPCRs) in mouse brain hippocampus using the RNAscope™ Multiplex Fluorescent assay on Fresh Frozen tissue samples: Chrm3 (Red) and Drd2 (Green). Cells are counterstained with DAPI.
Fig 6: Detection of G protein-coupled receptors (GPCRs) in mouse brain hippocampus using the RNAscope™ Multiplex Fluorescent assay on Fresh Frozen tissue samples: Cnr1 (Green) and Drd1 (Red). Cells are counterstained with DAPI.
Fig 7: Detection of G protein-coupled receptors (GPCRs) in mouse brain hippocampus using the RNAscope™ Multiplex Fluorescent assay on Fresh Frozen tissue samples: Cnr1 (Green) and Drd1 (Red). Cells are counterstained with DAPI.
Fig 8: Fluorescent detection of ion channels. Detection of Asic1 (Green) and Kcnj3 (Red) in mouse brain hippocampus using the RNAscope™ Multiplex Fluorescent assay on Fresh Frozen tissue samples.
Fig 9: Detection of transcription factor immediate early gene and activity marker Cfos (Green) and GPCR Chrm3 (Red) in mouse hippocampus using the RNAscope™ Multiplex Fluorescent assay on Fresh Frozen samples. Cells are counterstained with DAPI.
Fig 10: Detection of the effector immediate early gene and plasticity marker Arc (Green) and GPCR Drd1 (Red) in mouse brain striatum using the RNAscope™ Multiplex Fluorescent assay on Fresh Frozen tissue samples.
Fig 11: Detection of G protein-coupled receptors (GPCRs) in normal mouse brain hippocampus using RNAscope™2.5 HD Duplex Chromogenic assay on FFPE tissue samples: Cnr1 (Red) and Drd1 (Green). Cells are counterstained with hematoxylin.
Fig 12: Detection of G protein-coupled receptors (GPCRs) in normal mouse brain hippocampus using RNAscope™2.5 HD Duplex Chromogenic assay on FFPE tissue samples: Cnr1 (Red) and Drd1 (Green). Cells are counterstained with hematoxylin.

Detection of glutaminergic neurons Vglut1, Vglut2 and GABAergic neurons Vgat expression in the FFPE mouse brain with RNAscope™ Multiplex Fluorescent Assay v2

Mouse Image Gallery, RNAscope™ in Neuroscience Research

Fig. 13: Three-plex detection of glutaminergic neurons, Vglut1 (Red), Vglut2 (Green), and GABAergic neurons Vgat (white) expression in the FFPE mouse brain with RNAscope™ Multiplex Fluorescent Assay v2. Nuclei were labeled with DAPI (Blue).

Four-plex detection of biomarker and checkpoint markers in FFPE lung cancer tissues stained with RNAscope™ Multiplex Fluorescent Assay v2 and RNAscope™ 4-Plex Ancillary Kit: KRT19 (green), CD8A (yellow), CD4 (red), CD68 (white).

Lung Image Gallery, RNAscope™ in Cancer Research

Four-plex detection of biomarker and checkpoint markers in FFPE lung cancer tissues stained with RNAscope™ Multiplex Fluorescent Assay v2 and RNAscope™ 4-Plex Ancillary Kit: KRT19 (green), CD8A (yellow), CD4 (red), CD68 (white).

Single Cell Analysis - Spatial Validation of Single Cell Transcriptome

Single Cell Analysis

Single Cell Analysis - Spatial Validation of Single Cell Transcriptome
Single Cell Analysis - Detection of glutamatergic and GABAergic neurons in mouse brain
Single Cell Analysis - Detection of glutamatergic and GABAergic neurons in mouse brain (Magnified)
Single Cell Analysis - Detection of different cell populations simultaneously in mouse brain
Single Cell Analysis - Simultaneous detection of 3 intestinal cell populations
Identification of distinct intestinal cell populations

HALO 3.3 user interface displaying the results section. The left panel includes summary analysis data, histograms, and cell-by-cell data. A cell of interest is highlighted in both the cell table and the image. Enlarged histogram displayed in middle.

Halo Software

HALO 3.3 user interface displaying the results section. The left panel includes summary analysis data, histograms, and cell-by-cell data. A cell of interest is highlighted in both the cell table and the image. Enlarged histogram displayed in middle.
BaseScope analysis using the HALO ISH module. (A) PPIB positive control shown with HALO mark-up image in (B). (C) KRAS assay shown with mark-up in (D). In the mark-up images, cells with probes are shown in varying shades of green with darker cells having more probes. White cells have no probes or a number below the minimum number defined by the user.
Duplex FISH assay analyzed with the FISH module of HALO. (A) Duplex FISH assay with nuclei in blue, probe 1 in green, and probe 2 in magenta. (B) HALO FISH analysis mark-up image, where cyan nuclei represent cyan probe positivity and cyan spots represent probes. Similarly, green nuclei represent green probe positivity and green spots represent the green probe. Purple nuclei represent dual positivity.
Co-detection assay using the ISH-IHC module of HALO. (A) ISH-IHC assay with a magenta probe and a teal protein biomarker. (B) HALO mark-up image where blue represents nuclei without probe and lime green represents positivity for the teal IHC biomarker. The pink spots represent the magenta probe, and the gray rings represent a user defined maximum cytoplasmic radius.
Spatial analysis of RNAscope data. (A) An ISH-IHC assay with magenta ISH probe and blue protein. (B) A Density Heatmap is shown of a single-plex magenta ISH probe where blue represents areas of low expression and red represents areas of highest expression.
HALO offers a variety of image analysis export options including exporting cell-by-cell data, summary data, and summary reports, as shown above.

Figure 1: Pan-keratin CD68 CXCL10 CXCL13 Breast cancer

RNAscope HiPlex-IMCTM Co-Detection

Figure 1: Pan-keratin, CD68, CXCL10, CXCL13 - Breast cancer
Figure 2: α-SMA, Ki67, CXCL9, VEGFA - Breast cancer
Figure 3: α-SMA, CD45, CD68, CXCL13, VEGFA - Breast cancer
Figure 4: α-SMA, CD45, CD68, GAPDH, ACTB - Breast cancer

Expression of 6 RNA targets in fresh frozen mouse hippocampal tissue. RNA targets are GAD1, SLC17A7, AIF1, MBP, AQP4, and STY2.

RNAscope™ Multiomic LS Assay

Expression of 6 RNA targets in fresh frozen mouse hippocampal tissue. RNA targets are GAD1, SLC17A7, AIF1, MBP, AQP4, and STY2.
Expression of 6 RNA targets in fresh frozen mouse hippocampal tissue. RNA targets are GAD1, SLC17A7, AIF1, MBP, AQP4, and STY2.
Human breast cancer stained for 2 protein targets (CD68 and CD163) and 4 RNA targets (IL10, IL-1B, TNFα, and CXCL10).
Human cervical cancer tissue stained for stained for 4 protein targets (CD4, CD8, FoxP3, and PanCK) and 2 RNA targets (IFNG and GZMB).
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