Time-course RNAseq data of murine AB1 mesothelioma and Renca renal cancer following immune checkpoint therapy

Wee Loong Chin; Rachael M Zemek; Caitlin M Tilsed; Alistair R R Forrest; Vanessa S Fear; Catherine Forbes; Louis Boon; Anthony Bosco; Belinda B Guo; Michael J Millward; Anna K Nowak; Richard A Lake; W Joost Lesterhuis; Timo Lassmann

doi:10.1038/s41597-024-03294-0

Time-course RNAseq data of murine AB1 mesothelioma and Renca renal cancer following immune checkpoint therapy

Sci Data. 2024 May 3;11(1):448. doi: 10.1038/s41597-024-03294-0.

Authors

Wee Loong Chin^#^{1

2

3

4

5}, Rachael M Zemek^#^{1

6

7}, Caitlin M Tilsed^{1

6}, Alistair R R Forrest⁸, Vanessa S Fear^{1

6

7}, Catherine Forbes^{1

6

7}, Louis Boon⁹, Anthony Bosco^{6

10

11}, Belinda B Guo⁸, Michael J Millward^{2

3}, Anna K Nowak^{1

2

3

5}, Richard A Lake^{1

5

6}, W Joost Lesterhuis^{12

13

14}, Timo Lassmann¹⁵

Affiliations

¹ National Centre for Asbestos Related Diseases, Nedlands, WA, 6009, Australia.
² Medical School, University of Western Australia, Crawley, WA, 6009, Australia.
³ University of Western Australia, Crawley, WA, 6009, Australia.
⁴ Department of Medical Oncology, Sir Charles Gairdner Hospital, Nedlands, WA, 6009, Australia.
⁵ Institute for Respiratory Health, Nedlands, WA, 6009, Australia.
⁶ School of Biomedical Sciences, University of Western Australia, Crawley, WA, 6009, Australia.
⁷ Telethon Kids Institute, University of Western Australia, West Perth, WA, 6872, Australia.
⁸ Harry Perkins Institute of Medical Research, QEII Medical Centre and Centre for Medical Research, The University of Western Australia, Nedlands, Perth, WA, 6009, Australia.
⁹ JJP Biologics, Warsaw, Poland.
¹⁰ Asthma and Airway Disease Research Center, University of Arizona, Tuscon, Arizona, USA.
¹¹ Department of Immunobiology, The University of Arizona, College of Medicine, Tuscon, Arizona, USA.
¹² National Centre for Asbestos Related Diseases, Nedlands, WA, 6009, Australia. [email protected].
¹³ School of Biomedical Sciences, University of Western Australia, Crawley, WA, 6009, Australia. [email protected].
¹⁴ Telethon Kids Institute, University of Western Australia, West Perth, WA, 6872, Australia. [email protected].
¹⁵ Telethon Kids Institute, University of Western Australia, West Perth, WA, 6872, Australia. [email protected].

^# Contributed equally.

Abstract

Time-critical transcriptional events in the immune microenvironment are important for response to immune checkpoint blockade (ICB), yet these events are difficult to characterise and remain incompletely understood. Here, we present whole tumor RNA sequencing data in the context of treatment with ICB in murine models of AB1 mesothelioma and Renca renal cell cancer. We sequenced 144 bulk RNAseq samples from these two cancer types across 4 time points prior and after treatment with ICB. We also performed single-cell sequencing on 12 samples of AB1 and Renca tumors an hour before ICB administration. Our samples were equally distributed between responders and non-responders to treatment. Additionally, we sequenced AB1-HA mesothelioma tumors treated with two sample dissociation protocols to assess the impact of these protocols on the quality transcriptional information in our samples. These datasets provide time-course information to transcriptionally characterize the ICB response and provide detailed information at the single-cell level of the early tumor microenvironment prior to ICB therapy.

Publication types

Dataset
Research Support, Non-U.S. Gov't
Research Support, N.I.H., Extramural

MeSH terms

Animals
Carcinoma, Renal Cell* / drug therapy
Carcinoma, Renal Cell* / genetics
Immune Checkpoint Inhibitors* / therapeutic use
Kidney Neoplasms* / drug therapy
Kidney Neoplasms* / genetics
Mesothelioma* / drug therapy
Mesothelioma* / genetics
Mice
RNA-Seq
Sequence Analysis, RNA
Single-Cell Analysis
Tumor Microenvironment*

Substances

Immune Checkpoint Inhibitors

Grants and funding

APP1154524/Department of Health | National Health and Medical Research Council (NHMRC)