HCA Data Explorer

Robust temporal map of human in vitro myelopoiesis using single-cell genomics.

Access Granted
Updated October 1, 2022

Myeloid cells are central to homeostasis and immunity. Characterising in vitro myelopoiesis protocols is imperative for their use in research, immunotherapies, and understanding human myelopoiesis. The authors generated a >470K cells molecular map of human induced pluripotent stem cells (iPSC) differentiation into macrophages. Integration with in vivo single-cell atlases showed in vitro differentiation recapitulates features of yolk sac hematopoiesis, before definitive hematopoietic stem cells (HSC) emerge. The diversity of myeloid cells generated, including mast cells and monocytes, suggests that HSC-independent hematopoiesis can produce multiple myeloid lineages.

Daniel J GaffneyWellcome Sanger Institutedg13@sanger.ac.uk
Damiana Alvarez-ErricoJosep Carreras Leukaemia Research Institute (IJC)dalverez@carrerasresearch.org
Roser Vento-TormoWellcome Sanger Instituterv4@sanger.ac.uk
Clara Alsinet1
Maria Nascimento Primo1
Valentina Lorenzi1
Erica Bello1
Iva Kelava1
Carla P Jones1
Roser Vilarrasa-Blasi1
Carmen Sancho-Serra1
Andrew J Knights1
Jong-Eun Park2
Beata S Wyspianska3
Gosia Trynka1
David F Tough4
Andrew Bassett1
Daniel J Gaffney1
Damiana Alvarez-Errico5
Roser Vento-Tormo1
1Wellcome Sanger Institute
2Korea Advanced Institute of Science and Technology (KAIST)
3Open Targets
4GlaxoSmithKline
5Josep Carreras Leukaemia Research Institute (IJC)
Ami Day

To reference this project, please use the following link:

https://explore.data.humancellatlas.org/projects/ac289b77-fb12-4a6b-ad43-c0721c698e70

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/Ventolab/iPSCmyeloid
Array Express Accessions:
E-MTAB-11616, E-MTAB-11623
INSDC Project Accessions:INSDC Study Accessions:

Atlas

None

Analysis Portals

None

Project Label

TemporalMapHumanMyelopoiesis

Species

Homo sapiens

Sample Type

2 sample types

Anatomical Entity

skin of body

Organ Part

Unspecified

Selected Cell Types

Unspecified

Model Organ

2 model organs

Disease Status (Specimen)

normal

Disease Status (Donor)

normal

Development Stage

human adult stage

Library Construction Method

3 library construction methods

Nucleic Acid Source

single cell

Paired End

false

Analysis Protocol

analysis_protocol_scRNA-Seq

File Format

3 file formats

Cell Count Estimate

470.0k

Donor Count

6
fastq.gz313 file(s)rds4 file(s)xlsx1 file(s)