PDAC-SMI and co-culture dataset

Published: 11 July 2024| Version 1 | DOI: 10.17632/kx6b69n3cb.1
Contributors:
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, Dennis Gong, Mark Gregory, Nicholas Caldwell, Xunqin Yin, Jae-Won Cho, Peter Wang, Jennifer Su, Steven Wang, Jason Reeves, Tae Kyung Kim, Youngmi Kim, Jimmy Guo, Nicole Lester, Jung Woo Bae, Ryan Zhao, Nathan Schurman, Jamie Barth, Ralph Weissleder, Tyler Jacks, Motaz Qadan, Theodore Hong, Jennifer Wo, Hannah Roberts, Joseph Beechem, Carlos Fernandez-del Castillo, Mari Mino-Kenudson, David Ting, Martin Hemberg, William Hwang

Description

This dataset includes two parts: (1) The spatial molecular imaging (SMI) data for 13 PDAC tumors that either received neoadjuvant chemo/radiation therapy or were treatment naive. Raw data files (images, cell segmentation, expression data, metadata) are included in the SMI_raw folder. The count matrix, metadata, and cell type annotations are included in the PDAC_raw_meta_data.h5ad file. (2) The processed single nucleus RNA-seq data for CAF–malignant co-culture tumoroids, stored in a Seurat object file.

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Institutions

Brigham and Women's Hospital, Massachusetts Institute of Technology Koch Institute for Integrative Cancer Research, Massachusetts General Hospital, Broad Institute

Categories

Pancreatic Cancer, Spatial Database, Transcriptomics, Single-Cell RNA Sequencing

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