HCA Data Explorer

Ischaemic sensitivity of human tissue by single cell RNA seq

Updated January 26, 2024

Assessment of the effect of cold ischaemic time on single cell RNAseq data from human tissues using 10x Genomics 3' single cell RNA sequencing. This project contains data for spleen, oesophagus epithelium and lung parenchyma, three tissues that had previously been reported to have differential sensitivity to ischaemia. Samples were collected into Hypothermasol FRS hypothermic preservation media and dissociated fresh (as soon as possible) or at 12h, 24h, 72h post onset of cold ischaemia in the donor. Single cell and bulk RNA sequencing data was generated at each time point and whole genome sequencing was carried out for each donor.

Anna Wilbrey-ClarkWellcome Sanger Instituteaw24@sanger.ac.uk
Kerstin B MeyerWellcome Sanger Institutekm16@sanger.ac.uk
Elo MadissoonEMBL-EBIem17@sanger.ac.uk
Oliver StegleEMBL-EBIstegle@ebi.ac.uk
Michael JT Stubbington (Co-Investigator)1
Phillipa Harding (Experimental Scientist)1
Anna Wilbrey-Clark (Experimental Scientist)1
Krzysztof Polanski (Computational Scientist)1
Kevin Loudon (Experimental Scientist)2
John R Ferdinand (Experimental Scientist)2
Krishnaa Mahbubani (Clinician)2
Nikitas Georgakopoulos (Clinician)2
Kerstin B Meyer (Principal Investigator)1
Kourosh Saeb-Parsy (Clinician)2
Karol Nowicki-Osuch (Experimental Scientist)3
Rebecca Fitzgerald (Co-Investigator)3
Ricardo J Miragaia (Experimental Scientist)1
Sarah A Teichmann (Co-Investigator)1
Elo Madissoon (Computational Scientist)4
Tracey Andrew (Administrator)1
Anthi Tsingene (Experimental Scientist)1
Emily Relton (Experimental Scientist)1
Liam Bolt (Experimental Scientist)1
Oliver Stegle (Principal Investigator)4
Ni Huang (Computational Scientist)1
1Wellcome Sanger Institute
2University of Cambridge
3MRC Cancer Unit
Mallory Ann Freeberg
Danielle Welter
Marion F Shadbolt
Zinaida A Perova

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Analysis Portals

UCSC Cell BrowserUCSC Cell Browser

Project Label



Homo sapiens

Sample Type


Anatomical Entity

3 anatomical entities

Organ Part

4 organ parts

Selected Cell Types

2 cell types

Disease Status (Specimen)


Disease Status (Donor)


Development Stage

human adult stage

Library Construction Method

3 library construction methods

Nucleic Acid Source

2 nucleic acid sources

Paired End

false, true

File Format

8 file formats

Cell Count Estimate


Donor Count

bam67 file(s)csv4 file(s)docx1 file(s)fastq.gz361 file(s)h5ad3 file(s)loom70 file(s)pdf6 file(s)xlsx1 file(s)