HCA Data Explorer

Spatial multi-omic map of human myocardial infarction

Access Granted
Updated December 7, 2023

Myocardial infarction is a leading cause of mortality worldwide. While advances in the acute treatment have been made, the late-stage mortality is still elevated. We used single-cell gene expression, chromatin accessibility and spatial transcriptomic profiling of different physiological zones and timepoints of human myocardial infarction and human control myocardium to generate an integrative high-resolution map of cardiac tissue remodeling. This approach allowed us to increase spatial resolution of cell-type composition and provide spatially resolved insights into changes of the the cardiac transcriptome and epigenome with identification of distinct cellular zones of injury, repair and remodeling. This study provides an integrative molecular map of human myocardial infarction and represents a reference to advance mechanistic and therapeutic studies of cardiac disease.

Julio Saez-RodriguezHeidelberg Universitypub.saez@uni-heidelberg.de
Rafael KramannRWTH Aachen Universityrkramann@gmx.net
Christoph Kuppe1
Ricardo O Ramirez Flores2
Zhijian Li1
Sikander Hayat1
Rebecca T Levinson2
Xian Liao1
Monica T Hannani1
Jovan Tanevski2
Florian Wünnemann2
James S Nagai1
Maurice Halder1
David Schumacher1
Sylvia Menzel1
Gideon Schäfer1
Konrad Hoeft1
Mingbo Cheng1
Susanne Ziegler1
Xiaoting Zhang1
Fabian Peisker1
Nadine Kaesler1
Turgay Saritas1
Yaoxian Xu1
Astrid Kassner3
Jan Gummert3
Michiel Morshuis3
Junedh Amrute4
Rogier JA Veltrop5
Peter Boor1
Karin Klingel6
Linda W Van Laake7
Aryan Vink7
Remco M Hoogenboezem8
Eric MJ Bindels1
Leon Schurgers5
Susanne Sattler9
Denis Schapiro2
Rebekka K Schneider1
Kory Lavine4
Hendrik Milting (Principal Investigator)3
Ivan G Costa (Principal Investigator)1
Julio Saez-Rodriguez (Principal Investigator)2
Rafael Kramann (Principal Investigator)1
1RWTH Aachen University
2Heidelberg University
3Heart and Diabetes Center NRW
4Washington University
5Maastricht University
6Tübingen University
7UMC Utrecht
8Erasmus MC Cancer Institute
9Imperial London
Enrique Sapena Ventura

To reference this project, please use the following link:

https://explore.data.humancellatlas.org/projects/e9f36305-d857-44a3-93f0-df4e6007dc97

Supplementary links are provided by contributors and represent items such as additional data which can’t be hosted here; code that was used to analyze this data; or tools and visualizations associated with this specific dataset.

1.https://github.com/saezlab/visium_heart2.https://zenodo.org/record/6578617#.YrWmmuzMJbY
EGA Accessions:

Analysis Portals

CZ CELLxGENECZ CELLxGENE

Project Label

myocardialInfarction

Species

Homo sapiens

Sample Type

specimens

Anatomical Entity

heart

Organ Part

2 organ parts

Selected Cell Types

Unspecified

Disease Status (Specimen)

2 disease statuses

Disease Status (Donor)

2 disease statuses

Development Stage

human adult stage

Library Construction Method

3 library construction methods

Nucleic Acid Source

2 nucleic acid sources

Paired End

false, true

Analysis Protocol

atac_seq_processing, cell_annotation_transfer, cellranger_matrix_generation, spaceranger_matrix_generation, spatial_transcriptomics_characterisation

File Format

6 file formats

Cell Count Estimate

12.2k

Donor Count

23
csv88 file(s)h5180 file(s)rds28 file(s)tsv.gz35 file(s)xlsx1 file(s)zip148 file(s)