QuArray: an application for tissue array whole slide image export and signal analysis

Research output: Contribution to journalArticlepeer-review

Abstract

Motivation: Tissue array (TA) staining, combined with whole slide imaging (WSI) methods facilitate discovery
of biomarkers for diagnosis, prognostication and disease stratification. A key impediment in TA WSI analysis is
handling missing tissue and artefacts when identifying tissue cores before quantitative, standardised downstream
analysis. There is a need for an open access, user friendly, integrated analysis of the WSI generated using TAs in
clinical and scientific research laboratories.
Results: We have developed QuArray (Quantitative Array Application) for image export and signal analysis of
TAs using WSI. The application input is a WSI and a corresponding TA configuration file. QuArray identifies
and exports core images and analyses chromogen staining in a simple graphical user interface. Output data is
saved to file for further analysis including indexed data.
Availability: Available for download from https://github.com/c-arthurs/QuArray under an MIT licence.
Original languageEnglish
Article numberhttps://doi.org/10.1093/bioinformatics/btab119
Pages (from-to)1-3
Number of pages3
JournalBIOINFORMATICS
VolumeBioinformatics
Issue number119
DOIs
Publication statusPublished - 5 Feb 2021

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