GeoMx Digital Spatial Profiler (DSP) Protocol v2 - University of Minnesota TMCs
Laura J Niedernhofer, David A Bernlohr
Published: 2024-03-27 DOI: 10.17504/protocols.io.8epv5r7k6g1b/v2
Abstract
The nanoString GeoMx® Digital Spatial Profiler (DSP) is a platform that allows high-plex profiling at the protein and RNA level, providing spatial and temporal assessment of tumors in frozen or formalin-fixed paraffin-embedded limited tissue sample.
The following protocols/manuals were used at the University of Minnesota TMCs in collaboration with the University of Minnesota Genomics Center.
Steps
Slide Preparation
1.
GeoMx DSP Manual Slide Preparation User Manual
ROI Acquisition
2.
GeoMx DSP Instrument User Manual
Library Preparation
3.
FASTQ Generation
4.
BCL data from Illumina sequencer is demultiplexed and converted into FASTQ format using bcl2fastq version 2.20.0
