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Dryad

Human intestine processed CODEX multiplexed images for donors B009-B012 (Part 2/2)

Data files

Feb 14, 2023 version files 235.43 GB

Abstract

We performed CODEX (co-detection by indexing) multiplexed imaging on 64 sections of the human intestine (~16 mm2) from 8 donors (B004, B005, B006, B008, B009, B010, B011, and B012) using a panel of 57 oligonucleotide-barcoded antibodies. Subsequently, images underwent standard CODEX image processing (tile stitching, drift compensation, cycle concatenation, background subtraction, deconvolution, and determination of best focal plane). This data could be used to understand the cellular interactions, composition, and structure of the human intestine from the duodenum to the sigmoid colon and understand differences between different areas of the intestine. This data could be used as a healthy baseline to compare other single-cell datasets of the human intestine, particularly multiplexed imaging ones. The overall structure of the datasets is organized into 2 parts. This is the second part associated with this dataset are from donors B009, B010, B011, B012.

This data is complimentary and can be linked to the single-cell processed dataframe already provided in another Dryad repository based on the donor name, folder name, and region number: https://doi.org/10.5061/dryad.pk0p2ngrf

The raw imaging data can be found at (https://portal.hubmapconsortium.org/). We have created a landing page with links to all the raw dataset IDs and the HuBMAP ID for this Collection is HBM692.JRZB.356 and the DOI is:10.35079/HBM692.JRZB.356. This can be used to also pair it with the matched snRNAseq and snATACseq for each section of tissue.