Spatial Transcriptomics: NanoString/ Bruker GeoMx Digital Spatial Profiling Analytical Validation of Whole Transcriptome Atlas (WTA) (MD Anderson)
BRD ID: 3,424
Source: CIMAC-CIDC Network Tier: SOP Number of times downloaded: 101
Description
This analytical validation and performance report describes the methods used to validate the Nanostring GeoMx Digital Spatial Profiling (DSP) Whole Transcriptome Atlas assay using formalin-fixed, paraffin-embedded (FFPE) sections of tonsil, and pleural mesothelioma as well as tissue microarrays comprised of lung adenocarcinoma and multiple tissues. Sensitivity and specificity were assessed by comparing the RNA expression data generated with RNAscope and bulk RNA sequencing results from frozen specimens; Nanostring GeoMx DSP Whole Transcriptome Atlas results were also compared to protein expression using the DSP GeoMx protein assay and immunohistochemistry (IHC). The document also presents data supporting the reported inter- and intra-assay reproducibility. It is used by the Cancer Immune Monitoring and Analysis Center (CIMAC) at MD Anderson Cancer Center. It is a product of the CIMAC and Cancer Immunologic Data Center Network (CIMAC-CIDC Network; https://dctd.cancer.gov/research/networks/precision-medicine-oncology/cimac-cidc).
Documents for Download
MDA_GeoMX_WTA validation_final_508c for upload.pdf [Size: 3210 KB]Biospecimens
- Tissue - General
- Tissue - Tonsil
- Tissue - Lung
Diagnoses
- Neoplastic - Carcinoma
- General
- Not specified
Topics
- Platform-specific Methodology
Associated SOP Compendiums
- Platform-specific Methodology