HCA Data Explorer

Single-nucleus cross-tissue molecular reference maps to decipher disease gene function.

Updated August 2, 2023

A single-nucleus cross-tissue molecular reference map was generated from frozen samples deriving from multiple organ types obtained from the GTEx Project.

Ayellet V SegrèHarvard Medical Schoolayellet_segre@meei.harvard.edu
François AguetBroad Institute of MIT and Harvardfrancois@broadinstitute.org
Orit Rozenblatt-RosenBroad Institute of MIT and Harvardorit.r.rosen@gmail.com
Kristin G ArdlieBroad Institute of MIT and Harvardkardlie@broadinstitute.org
Aviv RegevBroad Institute of MIT and Harvardaviv.regev.sc@gmail.com
Gokcen Eraslan1
Eugene Drokhlyansky1
Shankara Anand1
Ayshwarya Subramanian1
Evgenij Fiskin1
Michal Slyper1
Jiali Wang2
Nicholas Van Wittenberghe1
John M Rouhana2
Julia Waldman1
Orr Ashenberg1
Danielle Dionne1
Thet Su Win3
Michael S Cuoco1
Olena Kuksenko1
Philip A Branton 4
Jamie L Marshall1
Anna Greka1
Gad Getz1
Ayellet V Segrè2
François Aguet1
Orit Rozenblatt-Rosen1
Kristin G Ardlie1
Aviv Regev1
1Broad Institute of MIT and Harvard
2Harvard Medical School
3Brigham and Women's Hospital
4The Joint Pathology Center Gynecologic/Breast Pathology
Ami Day

To reference this project, please use the following link:

https://explore.data.humancellatlas.org/projects/31887183-a72c-4308-9eac-c6140313f39c

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://anvil.terra.bio/#workspaces/anvil-datastorage/AnVIL_GTEx_V9_hg382.https://singlecell.broadinstitute.org/single_cell/study/SCP1479/single-nucleus-cross-tissue-molecular-reference-maps3.https://www.gtexportal.org/home/datasets
None

Downloaded and exported data is governed by the HCA Data Release Policy and licensed under the Creative Commons Attribution 4.0 International License (CC BY 4.0). For more information please see our Data Use Agreement.

Analysis Portals

CZ CELLxGENECZ CELLxGENE
UCSC Cell BrowserUCSC Cell Browser

Project Label

CrossTissueReferenceMap

Species

Homo sapiens

Sample Type

specimens

Anatomical Entity

7 anatomical entities

Organ Part

6 organ parts

Selected Cell Types

Unspecified

Disease Status (Specimen)

normal

Disease Status (Donor)

normal

Development Stage

5 development stages

Library Construction Method

10x 3' v2

Nucleic Acid Source

single nucleus

Paired End

false

Analysis Protocol

analysis_protocol

File Format

3 file formats

Cell Count Estimate

209.1k

Donor Count

16
.txt4 file(s)h5ad2 file(s)xlsx1 file(s)