Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0

Transcriptomic profile of human induced pluripotent stem cells at single cell resolution.

ABSTRACT: We assessed the pluripotency of human induced pluripotent stem cells (iPSCs) maintained on an automated platform using StemFlexTM and TeSRTM-E8TM media. Single-cell transcriptome sequencing was performed for 20,962 cells from two cell lines grown in the two media. Analysis of transcriptomic profile revealed similar expression of core pluripotency genes, as well as genes associated with naive and primed states of pluripotency. Single cell analysis of the four samples revealed a shared subpopulation structure with three main subpopulations different in pluripotency states. By implementing a machine learning approach, we estimated that 60-96% of the cells in the ground/naive subpopulations and 98-99% of the cells in the primed subpopulations are similar between all four samples. The single cell RNA sequencing analysis of iPSC lines grown in both media is the first report of the molecular pathways modulated in StemFlex medium and how they compare to those modulated in TeSR-E8 medium.

INSTRUMENT(S): NextSeq 500

ORGANISM(S): Homo sapiens

SUBMITTER: Quan Hoang Nguyen 

PROVIDER: E-MTAB-6524 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

Json Xml
altmetric image

Publications

We assessed the pluripotency of human induced pluripotent stem cells (iPSCs) maintained on an automated platform using StemFlex and TeSR-E8 media. Analysis of transcriptome of single cells revealed similar expression of core pluripotency genes, as well as genes associated with naive and primed states of pluripotency. Analysis of individual cells from four samples consisting of two different iPSC lines each grown in the two culture media revealed a shared subpopulation structure with three main s  ...[more]

Similar Datasets

Transcriptomics Single cell sequencing of 43,168 cells during the differentiation from human induced pluripotent stem cells to cardiomyocytes
2018-10-06 | E-MTAB-6268 | biostudies-arrayexpress
Transcriptomics scRNAseq of two medulloblastoma cell lines (ONS-76 and HDMB-03) grown in 3D hydrogel culture
2023-02-23 | E-MTAB-12591 | biostudies-arrayexpress
Transcriptomics Single cell sequencing of the proliferative endometrium
2021-09-18 | E-MTAB-10947 | biostudies-arrayexpress
Transcriptomics Single cell RNA-seq of WTC-CRISPRi human induced pluripotent stem cells
2018-08-17 | E-MTAB-6687 | biostudies-arrayexpress
Transcriptomics scRNA-seq in 79 fibroblast cell lines and 31 reprogrammed induced pluripotent stem cell lines for sceQTL analysis
2021-02-22 | E-MTAB-10060 | biostudies-arrayexpress
Transcriptomics scRNA-seq of CD45+ cells taken from the ear epidermis from K14E7 transgenic and wildtype C57/BL6 mice
2021-10-15 | E-MTAB-8199 | biostudies-arrayexpress
Transcriptomics Single-cell RNA sequencing of mouse germ cells
2019-01-25 | E-MTAB-6946 | biostudies-arrayexpress
Transcriptomics Single Cell gene expression and DNA accessibility profile of barcoded SUM159PT cells
2024-05-24 | E-MTAB-13064 | biostudies-arrayexpress
Transcriptomics Single-cell RNA-seq (10x Chromium V3) of zebrafish csf1ra and csf1rb mutant whole kidney marrows
2021-04-24 | E-MTAB-10360 | biostudies-arrayexpress
Transcriptomics Single-cell RNA sequencing of Ngn2-induced neurons from the pluripotent stem cells of great apes
2020-12-15 | E-MTAB-9233 | biostudies-arrayexpress