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Series GSE167422 Query DataSets for GSE167422
Status Public on Nov 15, 2023
Title Direct Reprogramming of Non-limb Fibroblasts to Cells with Properties of Limb Progenitors [scRNA-seq]
Organisms Gallus gallus; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The early limb bud consists of mesenchymal progenitors (limb progenitors) derived from the lateral plate mesoderm (LPM) that produce most of the tissues of the mature limb bud. The LPM also gives rise to the mesodermal components of the trunk, flank and neck. However, the mesenchymal cells generated at these other axial levels cannot produce the variety of cell types found in the limb bud, nor can they be directed to form a patterned appendage-like structure, even when placed in the context of the signals responsible for organizing the limb bud. Here, by taking advantage of a direct reprogramming approach, we find a set of factors (Prdm16, Zbtb16, and Lin28) normally expressed in the early limb bud, that are capable of imparting limb progenitor-like properties to non-limb fibroblasts. Cells reprogrammed by these factors show similar gene expression profiles, and can differentiate into similar cell types, as endogenous limb progenitors. The further addition of Lin41 potentiates proliferation of the reprogrammed cells while suppressing differentiation. These results suggest that these same four key factors may play pivotal roles in the specification of endogenous limb progenitors.
 
Overall design scRNA-seq for non limb fibroblasts undergoing reprogramming into limb progenitors, with controls
 
Contributor(s) Atsuta Y, Lee C, Rodrigues AR, Colle C, Tomizawa RR, Lujan EG, Tschopp P, Galan L, Zhu M, Gorham JM, Vannier J, Seidman CE, Seidman JG, Ros MA, Pourquié O, Tabin CJ
Citation(s) 38320485
NIH grant(s)
Grant ID Grant title Affiliation Name
R01 HD032443 The reprogramming of limb progenitor cells HARVARD UNIVERSITY (MEDICAL SCHOOL) CLIFFORD J. TABIN
Submission date Feb 24, 2021
Last update date Feb 14, 2024
Contact name CHANGHEE LEE
E-mail(s) chlee@genetics.med.harvard.edu
Phone 617-432-6534
Organization name Harvard Medical School
Department Genetics
Lab Clifford Tabin
Street address 77 AVENUE LOUIS PASTEUR
City BOSTON
State/province MA
ZIP/Postal code 02115
Country USA
 
Platforms (3)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
GPL33937 Illumina NovaSeq 6000 (Gallus gallus; Mus musculus)
Samples (42)
GSM5105034 E10 limb mesenchymal cells (lib01_E10)
GSM5105035 Hyaluronan 3D cultured rLPCs for 14 d (lib02_Rep)
GSM5105036 Hyaluronan 3D cultured rLPCs for 14 d (lib03_Neg)
This SubSeries is part of SuperSeries:
GSE167423 Direct Reprogramming of Non-limb Fibroblasts to Cells with Properties of Limb Progenitors
Relations
BioProject PRJNA704636
SRA SRP307947

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE167422_20230503_11_xeno_integrated.rds.gz 272.8 Mb (ftp)(http) RDS
GSE167422_20230509_3F_integrated.rds.gz 7.6 Gb (ftp)(http) RDS
GSE167422_20230509_4F_integrated.rds.gz 10.2 Gb (ftp)(http) RDS
GSE167422_mm10.98.4factor.tdtomato.gtf.gz 25.3 Mb (ftp)(http) GTF
GSE167422_mm10.98.hlin28a.gtf.gz 25.3 Mb (ftp)(http) GTF
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Raw data are available in SRA
Processed data are available on Series record
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