Technology

Professional Assay Services

Unparalleled expertise in RNAscope and BaseScope ISH
High capacity and high throughput, delivering more than 10,000 slides per year
Supporting dozens of gene therapy companies for research studies enabling pre-IND submission
Team of specialists perform quantitative image analysis using HALO^® Software (Indica Labs)
Board-certified pathologist review
Actionable results delivered in weeks rather than months

Resources

Publications

Application Note

Application note "Tissue Biodistribution of AAV-based gene therapy with the RNAscope™ assay'

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Custom Projects?

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miRNA

MicroRNAs (miRNAs) are endogenous, small non-coding RNAs that can regulate the expression of mRNAs post transcriptionally either via translational repression or mRNA degradation. Dysregulation of miRNA expression is observed in various diseases and altered physiological states. Mature miRNAs are single-stranded and approximately 18-22 nucleotides long and can be extremely challenging to visualize in situ.

The new miRNAscope™ assay can:

Professional Assay Services

Unparalleled expertise in RNAscope and BaseScope ISH
High capacity and high throughput, delivering more than 10,000 slides per year
Supporting dozens of cell and gene therapy companies for research studies enabling pre-IND submission
Team of specialists perform quantitative image analysis using HALO™ Software (Indica Labs)
Board-certified pathologist review
Actionable results delivered in weeks rather than months

siRNA/ASO

Visualize and Quantify Small RNA Delivery and Function.

Synthetic oligonucleotides like small interfering RNAs (siRNAs) and ASOs precisely target genes to control their expression. With RNAscope you can visualize small regulatory RNAs (smRNAs) alone, or along with its mRNA targets. Assess oligonucleotide therapy delivery, biodistribution, and interrogate smRNA biomarkers along with cell specific/morphology/functional biomarkers.

Professional Assay Services

Unparalleled expertise in RNAscope and BaseScope ISH
High capacity and high throughput, delivering more than 10,000 slides per year
Supporting dozens of cell and gene therapy companies for research studies enabling pre-IND submission
Team of specialists perform quantitative image analysis using HALO™ Software (Indica Labs)
Board-certified pathologist review
Actionable results delivered in weeks rather than months

Brochure

Accelerate Gene Therapy Development with RNA and Vector DNA Visualization Tools for Biodistribution and Safety Analysis

Flyer

Accelerate Gene Therapy Development with Powerful Visualization Tools for Biodistribution and Functional Analysis

Sensitive assay for ASO and siRNA Detection

Biodistribution, safety and efficacy assessment of small RNAs with the new RNAscopeTM Plus small RNA-RNA co-detection Assay

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Our dedicated team can reach out to you and see how ACD can help.

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Custom Projects?

Gain exclusive access to non-commercialized products

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Gene Therapy/AAV

**Navigating AAV Vector Biodistribution Analysis and Transgene Expression Using RNAscope™ in situ Hybridization Technology**

Products

Probes/Targets

Catalog Probes (Ex: CMV, CBA, WPRE, etc.)

Made-to-Order

Professional Assay Services

Unparalleled expertise in RNAscope and BaseScope ISH
High capacity and high throughput, delivering more than 10,000 slides per year
Supporting dozens of gene therapy companies for research studies enabling pre-IND submission
Team of specialists perform quantitative image analysis using HALO™ Software (Indica Labs)
Board-certified pathologist review
Actionable results delivered in weeks rather than months

Resources

Application Note

Application note 'Tissue Biodistribution of AAV-based gene therapy with the RNAscope™ assay'

Flyer

Accelerate Gene Therapy Development with Powerful Visualization Tools for Biodistribution and Functional Analysis

Brochure

Accelerate Gene Therapy Development with RNA and Vector DNA Visualization Tools for Biodistribution and Safety Analysis

Publications

Have questions?

Our dedicated team can reach out to you and see how ACD can help.

Ask a question

Custom Projects?

Gain exclusive access to non-commercialized products

Request a consult

Cell Therapy

CAR-T and TCR-T cell, as well as NK cell and macrophage therapies are being developed for treatment of solid tumor. RNAscope in situ hybridization is the only method that enables specific detection of these viral vector-based cell therapies in intact human tumor biopsies. Techniques such as immunohistochemistry (IHC) are unable to differentiate therapeutic cells from endogenous untransduced cells.

Products

Probes/Targets

Catalog Probes (Ex: WPRE, UTR, IFNG, etc.)

Made-to-Order

Professional Assay Services

Unparalleled expertise in RNAscope and BaseScope ISH
High capacity and high throughput, delivering more than 10,000 slides per year
Supporting dozens of cell and gene therapy companies for research studies enabling pre-IND submission
Team of specialists perform quantitative image analysis using HALO^® Software (Indica Labs)
Board-certified pathologist review
Actionable results delivered in weeks rather than months

Wright JH, Huang L-Y, Weaver S et al. (2021) Detection of engineered T cells in FFPE tissue by multiplex in situ hybridization and immunohistochemistry. Journal of Immunological Methods 492:112955. doi:

Resources

Publications

Barber-Axthelm IM, Barber-Axthelm V, Sze KY et al. (2021) Stem cell–derived CAR T cells traffic to HIV reservoirs in macaques. JCI insight 6 (1). doi:10.1172/jci.insight.141502

Wang Y, Tong C, Dai H et al. (2021) Low-dose decitabine priming endows CAR T cells with enhanced and persistent antitumour potential via epigenetic reprogramming. Nature Communications 12 (1):409. doi:10.1038/s41467-020-20696-x

Tang N, Cheng C, Zhang X et al. (2020) TGF-β inhibition via CRISPR promotes the long-term efficacy of CAR T cells against solid tumors. JCI insight 5 (4). doi:10.1172/jci.insight.133977

Ramachandran I., et al. (2019). Systemic and local immunity following adoptive transfer of NY-ESO-1 SPEAR T cells in synovial sarcoma. J Immunother Cancer 7:276

Gauthier, L., et al. (2019). Multifunctional Natural Killer Cell Engagers Targeting NKp46 Trigger Protective Tumor Immunity. Cell. 177(7):1701-1713

Application Note

Application note "Preclinical CAR-T cell target safety, biodistribution, and tumor infiltration analysis using the RNAscope ISH assay'

Flyer

Flyer "T-Cell Therapy and Trafficking and Activation Analysis Using RNAscope in situ Hybridization"

COVID-19 Coronavirus

COVID-19 (Coronavirus disease 2019) is caused by the positive stranded SARS-CoV-2 RNA virus in humans and is closely related to the bat-derived severe acute respiratory syndrome-like coronaviruses. Among the human viruses SARS-CoV-2 is most similar to SARS-CoV and MERS-CoV viruses that are responsible for the severe acute respiratory syndrome and middle eastern respiratory syndrome, respectively.

RNAscope Catalog Probes Targeting COVID-19 Coronavirus:

(Listed below are probes for manual RNAscope assay. Corresponding probes for automated assays are also available. )

Target species & region	Cat. No & Probe Description
Specfic for SARS-CoV-2, S gene encoding the spike protein	848561 RNAscope™ Probe - V-nCoV2019-S
Specfic for SARS-CoV-2, Antisense strand of the S gene	845701 RNAscope™ Probe - V-nCoV2019-S-sense (Note: Cannot be duplexed with the V-nCoV2019-S probe)
Specfic for SARS-CoV-2, Antisense strand of the orf1ab gene	859151 RNAscope™ Probe- V-nCoV2019-orf1ab-sense (Note: Can be duplexed with the V-nCoV2019-S probe)
ACE2, Cellular receptor for SARS-CoV-2	848151 RNAscope™ Probe - Hs-ACE2
TMPRSS2, Cellular serine protease and primes the spike protein (S) for cellular entry	470341 RNAscope™ Probe - Hs-TMPRSS2

To target other COVID-19 coronavirus strains or regions, ACD can design and manufacture MADE-TO-ORDER Probes in just 2 weeks.

Download COVID-19 Flyer

COVID-19 research using the RNAscope technology

Researchers from Jay K. Kolls, MD's lab at the Center for Translational Research in Infection and Inflammation, Tulane School of Medicine have extensively used RNAscope for SARS-CoV-2 infection - note the following publications:
- SARS-CoV-2 Infects Endothelial Cells In Vivo and In Vitro. Liu F, Han K, Blair R, Kenst K, Qin Z, Upcin B, Wörsdörfer P, Midkiff CC, Mudd J, Belyaeva E, Milligan NS, Rorison TD, Wagner N, Bodem J, Dölken L, Aktas BH, Vander Heide RS, Yin XM, Kolls JK, Roy CJ, Rappaport J, Ergün S, Qin X. Front Cell Infect Microbiol. 2021 Jul 6;11:701278.
- Lung Expression of Human Angiotensin-Converting Enzyme 2 Sensitizes the Mouse to SARS-CoV-2 Infection. Han K, Blair RV, Iwanaga N, Liu F, Russell-Lodrigue KE, Qin Z, Midkiff CC, Golden NA, Doyle-Meyers LA, Kabir ME, Chandler KE, Cutrera KL, Ren M, Monjure CJ, Lehmicke G, Fischer T, Beddingfield B, Wanek AG, Birnbaum A, Maness NJ, Roy CJ, Datta PK, Rappaport J, Kolls JK, Qin X. Am J Respir Cell Mol Biol. 2021 Jan;64(1):79-88.
- Novel ACE2-IgG1 fusions with improved in vitro and in vivo activity against SARS-CoV2. Iwanaga N, Cooper L, Rong L, Beddingfield B, Crabtree J, Tripp RA, Qin X, Kolls JK. bioRxiv. 2020 Jul 24:2020.06.15.152157.
Arkana Labs utilized RNAscope to demonstrate that a COVID-19 positive patient with collapsing glomerulopathy did not show presence of the SARS-CoV-2 virus in the kidney biopsy. They relied on RNAscope for viral detection because of non-specific detection observed using IHC.
Larsen et al., Collapsing Glomerulopathy in a Patient With Coronavirus Disease 2019 (COVID-19) Kid Inter Rep, 2020, doi: 10.1016/j.ekir.2020.04.002
Researchers from Chinese Academy of Medical Sciences have developed a model to study the SARS-CoV-2 pathogenesis to aid in the advancement of viral vaccine and drug development. They observed differences in susceptibility to SARS-CoV-2 between the 3 NHP species with the M.mulatta species being more susceptible compared to M. fascicularis and C.jacchus. Using RNAscope Multiplex Fluorescent V2 Assay, the virus could be visualized and localized in different parts of the lung tissue with the RNAscope Probe- V-nCoV2019-S.
https://www.biorxiv.org/content/10.1101/2020.04.08.031807v1
Researchers at U.S. Army Medical Research Institute of Infectious Diseases (USAMRIID) utilized RNAscope 2.5 HD Red Assay to detect SARS-CoV-2 in non-human primate FFPE cell pellets. Using SARS-CoV-2 positive and negative strand specific RNAscope probes, researchers were able simultaneously visualize the virus and viral replication by RNAscope Multiplex Fluorescent V2 assay.
https://www.biorxiv.org/content/10.1101/2020.04.21.042911v1

The information contained in this statement does not necessarily reflect the position or the policy of the Government and no official endorsement should be inferred

Related Publications

Recent publications using the RNAscope assays for the detection of SARS-CoV and MERS-Cov viruses

Corbett, K. S., et al., (2020). Evaluation of the mRNA-1273 Vaccine against SARS-CoV-2 in Nonhuman Primates. New England Journal of Medicine.
Chandrashekar, A., et al., (2020). SARS-CoV-2 infection protects against rechallenge in rhesus macaques. Science.
Shiers, S., Ray, P., Wangzhou, A., Tatsui, C. E., Rhines, L., Li, Y., ... & Price, T. J. (2020). ACE2 expression in human dorsal root ganglion sensory neurons: implications for SARS-CoV-2 virus-induced neurological effects. BioRxiv.
Nuovo, G. J., Magro, C., & Mikhail, A. (2020). Cytologic and molecular correlates of SARS-CoV-2 infection of the nasopharynx. Annals of Diagnostic Pathology, 151565.
Haagmans, B.L. et al., Asymptomatic Middle East respiratory syndrome coronavirus infection in rabbits. J Virol, 2015. 89(11): p. 6131-5.
Haagmans, B.L. et al., An orthopoxvirus-based vaccine reduces virus excretion after MERS-CoV infection in dromedary camels. Science, 2016. 351(6268): p. 77-81.
Cha, R.H.Y., et al., A Case Report of a Middle East Respiratory Syndrome Survivor with Kidney Biopsy Results. J Korean Med Sci, 2016. 31(4): p. 635-40.
Vergara-Alert, J.v.d.B., et al., Livestock Susceptibility to Infection with Middle East Respiratory Syndrome Coronavirus. Emerg Infect Dis, 2017. 23(2).

Envision the ability to visualize and validate your specific TCR targets in cells or tissues with spatial and morphological context!

Point mutations result from changes in a single nucleotide base that may result in altered gene and protein function. Point mutations are especially important when the alterations occur in target genes implicated in pathological conditions. Tools such as PCR, sequencing and Northern blot The BaseScope assay can now detect transcripts down to a single nucleotide change, allowing for the detection of point mutations in FFPE tissues with morphological context.

Validated BaseScope^™ probes for Point Mutation List

BA-Hs-KRAS-G12A
BA-Hs-KRAS-G12C
BA-Hs-KRAS-G12D
BA-Hs-KRAS-G12S
BA-Hs-KRAS-G12V
BA-Hs-KRAS-nt34WT
BA-Hs-KRAS-nt35WT

BA-Hs-EGFR-T790M
BA-Hs-EGFR-T790WT
BA-Hs-EGFR-L858WT

BA-Hs-BRAF-V600E
BA-Hs-BRAF-V600WT
BA-Hs-EGFR-L858R

BA-Hs-PIK3CA-H1047R
BA-Hs-PIK3CA-H1047WT

Want to order a probe or don't find your gene of interest in this list? Contact your Account Manager

Mapping Single Cells Back to the Tissue

Characterizing the transcriptomic profiles of individual cells by single-cell RNA sequencing (scRNA-Seq) has become a universal tool to identify both known and novel cell types and to understand tissue structure and function, ushering in a new era of single cell biology. This has proven to be especially true in complex organs and tissues with high cellular heterogeneity, such as mammalian brain and tumors. However, scRNA-Seq utilizes dissociated cells and results in the loss of spatial organization of the cell population being analyzed.

The Power of In Situ Transcriptomics

Single Cell Analysis - Detection of glutamatergic and GABAergic neurons in mouse brain

Watch scientists describe the power of in situ transcriptomics and discuss the application of this technology to large-scale tissue mapping in the mouse brain. They explain how RNAscope Multiplex Fluorescence assays complement single cell RNA sequencing.

Science Webinar Series: Harnessing in situ transcriptomics to reveal complex tissue architecture at single-cell resolution.
Omer Bayraktar, Ph.D., Wellcome Sanger Institute, Hinxton, U.K.

Watch Webinar

Knowledge Resource Series: Spatial Mapping and Confirmation of Diverse Gene Signatures Using the Multiplexed Single-Cell Approach of RNAscope Assay.

Jyoti Phatak-Sheldon, MS
Associate Scientist - Applications, Advanced Cell Diagnostics

Watch Webinar

Complement Single Cell RNA Sequencing with RNAscope Assays

A rapidly increasing number of researchers are publishing in prominent journals using RNAscope assays to spatially map scRNA-Seq results.

Download Flyer

Reveal Single-Cell Insights in Spatial Context with RNAscope™ ISH Assays.

Download Publications List

Download Publications

Single cell Spatial RNAscope Publications

Resources

Recent Single Cell Articles

Application Note

Download eBook

Easy to Start with the RNAscope Assay Intro Packs

New to RNAscope assays? You can visualize any RNA target from any species in any tissue in just one day. Start by selecting a RNAscope Assay Intro Pack that has everything you need to run your first assay. Then select the RNAscope Probe that is specific to your RNA target of interest. These intro packs can also be used for multiplex assays, detecting more than one RNA target at a time. Contact one of our RNAscope assay scientist to help address your research needs.

Get Intro Pack Speak with a Scientist

Promotions for New Users

New User Program – FREE!

For first-time users, we offer the opportunity for a RNAscope Assay scientist to personally assist you with setting up your first assay. Our team of scientists are ready to support you in getting superior results from our RNAscope™ assays.