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Nanostring GeoMX Digital Spatial Profiling (DSP)

AK Arutha Kulasinghe
JM James Monkman
ES Esha T. Shah
NM Nicholas Matigian
MA Mark N. Adams
KO Ken O’Byrne
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The TNBC TMA slides were stained and analysed on the Nanostring GeoMx® Digital Spatial Profiling (DSP) platform by the Systems Biology and Data Science Group at Griffith University (Gold Coast, Australia). Visualisation markers consisted of Pan-cytokeratin and CD45. Protein panel consisted of 68 antibodies including human immune cell core panel, immuno-oncology (IO) drug target, immune activation, immune cell typing, pan-tumour, cell death, and PI3K/AKT panels. Slides were processed as per manufacturer’s instructions and tumour/stroma demarcated by masking on PanCK+ or PanCK- regions, respectively. Antibody barcodes were counted on Ncounter® platform as per manufacturer’s instructions and External RNA Controls Consortium (ERCC) QC performed in DSP analysis suite prior to outputting data for bioinformatic analysis.

Copyright and License information:  ©2022 Kulasinghe, Monkman, Shah, Matigian, Adams and O’Byrne
This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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