Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Perturbation panel profiling of human iPSC-derived cardiac myocytes and primary dermal fibroblasts

ABSTRACT: Perturbation panel profiling of human iPSC-derived cardiac myocytes and primary dermal fibroblasts

PROVIDER: PRJNA703032 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR13748218_1.fastq.gz	Fastqsanger.gz
	SRR13748218_2.fastq.gz	Fastqsanger.gz
	SRR13748219_1.fastq.gz	Fastqsanger.gz
	SRR13748219_2.fastq.gz	Fastqsanger.gz
	SRR13748220_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 144

Similar Datasets

Perturbation panel profiling of human iPSC-derived cardiac myocytes and primary dermal fibroblasts

Project description:We report gene expression by RNAtag-seq after treatment with 75 different small molecule perturbations in culture of human iPSC-derived cardiac myocytes and genetically matched primary dermal fibroblasts. Perturbations were chosen from the SelleckChem Bioactive Library, among all molecules targeting any kinases or G-protein coupled receptors, and chosen to have as little overlap in annotated targets as possible. Based on these experiments (and others) we show that transcription factors important for cardiac development and cardiac myocyte identity maintenance were frequently up-regulated (i.e., "responsive") after small molecule perturbations of cultured iPSC-derived cardiac myocytes (i.e., responsive). We also show that the set of highly responsive transcription factors in fibroblasts are enriched for barriers to fibroblast reprogramming to iPSC.

2021-02-20 | GSE167128 | GEO

Gene expression after knockdown of transcription factors in human iPSC-derived cardiac myocytes

Project description:We report gene expression changes after knockdown of transcription factors in human iPSC-derived cardiac myocytes. In prior experiments we showed that transcription factors known to be important for cardiac development were frequently up-regulated (i.e., "responsive") after small molecule perturbations of cultured iPSC-derived cardiac myocytes. We used RNA sequencing to test whether siRNA-mediated knockdown of transcription factors with different perturbation-responsiveness and tissue-specificity profiles would lead to inappropriate up-regulation of non-myocyte gene sets in cardiac myocytes.

2021-02-17 | GSE166823 | GEO

ATAC-seq of iPSC and human dermal fibroblasts

Project description:ATAC-seq of iPSC and human dermal fibroblasts, used to compare open chromatin and transcription signal.

2021-05-02 | E-MTAB-10381 | biostudies-arrayexpress

RNA sequencing of iPSC and Human dermal fibroblasts

Project description:RNA sequencing of iPSC and Human dermal fibroblasts, total RNA and fractionated into nuclear, cytoplasmic and chromatin fractions.

2021-04-28 | E-MTAB-10383 | biostudies-arrayexpress

CAGE sequencing of iPSC and Human dermal fibroblasts

Project description:CAGE sequencing of iPSC and Human dermal fibroblasts, total RNA and fractionated into nuclear, cytoplasmic and chromatin fractions.

2021-04-28 | E-MTAB-10384 | biostudies-arrayexpress

Single cell RNA sequencing of iPSC and Human dermal fibroblasts

Project description:single cell RNA sequencing of iPSC and Human dermal fibroblasts using 10x Genomics with 3-prime, 5-prime poly(dT) primer, and 5-prime random primer. For comparison in gene, ncRNA and enhancer detection.

2021-05-13 | E-MTAB-10385 | biostudies-arrayexpress

RNA sequencing of iPSC and Human dermal fibroblasts

Project description:RNA sequencing of iPSC and Human dermal fibroblasts

| PRJEB44553 | ENA

CAGE sequencing of iPSC and Human dermal fibroblasts

Project description:CAGE sequencing of iPSC and Human dermal fibroblasts

| PRJEB44554 | ENA

ATAC-seq of iPSC and human dermal fibroblasts

Project description:ATAC-seq of iPSC and human dermal fibroblasts

| PRJEB44667 | ENA

The Hippo pathway regulates density-dependent proliferation of iPSC-derived cardiac myocytes

Project description:Inducing cardiac myocytes to proliferate is considered a potential therapy to target heart disease, however, modulating cardiac myocyte proliferation has proven to be a technical challenge. The Hippo pathway is a kinase signaling cascade that regulates cell proliferation during the growth of the heart. Inhibition of the Hippo pathway increases the activation of the transcription factors YAP/TAZ, which translocate to the nucleus and upregulate transcription of pro-proliferative genes. The Hippo pathway regulates the proliferation of cancer cells, pluripotent stem cells, and epithelial cells through a cell-cell contact-dependent manner, however, it is unclear if cell density-dependent cell proliferation is a consistent feature in cardiac myocytes. Here, we used cultured human iPSC-derived cardiac myocytes (hiCMs) as a model system to investigate this concept. hiCMs have a comparable transcriptome to the immature cardiac myocytes that proliferate during heart development in vivo. Our data indicate that a dense syncytium of hiCMs can regain cell cycle activity and YAP expression and activity when plated sparsely or when density is reduced through wounding. We found that combining two small molecules, XMU-MP-1 and S1P, increased YAP activity and further enhanced proliferation of low-density hiCMs. Importantly, these compounds had no effect on hiCMs within a dense syncytium. These data add to a growing body of literature that link Hippo pathway regulation with cardiac myocyte proliferation and demonstrate that regulation is restricted to cells with reduced contact inhibition.

2021-09-08 | GSE176142 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data