Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Bulk RNA sequencing of human iPSC-derived cells

ABSTRACT: We directly reprogramed two human iPS cell lines to cardiac cells and collected four time points (day 0, day 2, day 4, and day 10) during cardiac differentiation for bulk RNA sequencing.

ORGANISM(S): Homo sapiens

PROVIDER: GSE130555 | GEO | 2021/03/02

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Single-cell RNA sequencing of human iPSC-derived cells

Project description:We directly reprogramed two human iPS cell lines to cardiac cells and collected four groups of samples at four time points (day 0, day 2, day 4, and day 10) during cardiac differentiation for Single-cell RNA sequencing.

2021-03-02 | GSE130731 | GEO

Bromodomain inhibitor PFI-3 induces cellular plasticity and enhances iPSC reprogramming efficiency by targeting extracellular matrix

Project description:The study assessed fibroblast reprogramming into induced pluripotent stem cells (iPS), and the effects on efficiency of iPS reprogramming by treatment with 10-uM PFI-3. Samples were collected across multiple time points during reprogramming: day 0, 3, 5, 7, 14, and day 21, each in the presence or absence of PFI-3 treatment, with n=3 biological replicates.

2024-08-08 | GSE241435 | GEO

Bulk RNA-seq analysis during fin regeneration of regeneration-associated silencer knockout zebrafish reveals its repressive ability silencing expression of nearby genes

Project description:Bulk RNA-seq analysis during fin regeneration of regeneration-associated silencer (s1) knockout zebrafish identified several up-regulated genes near s1 from comparison of silencer knockout mutant fish and their WT siblings at three different time points (0, 1 and 4 day(s) post amputation (dpa)), indicating that s1 has repressive ability to control downregulation of the nearby genes.

2023-12-22 | GSE231956 | GEO

Generation of Pre-Clinical Cardiac Organoids for Drug Testing and Transplantation

Project description:To explore the events during the differentiation process and timelines of various cells developed in cardiac organoid differentiation,we collected cell spheres for bulk RNA sequencing at each stage of differentiation (days 0, 1, 2, 3, 4, 6, and 30)

2023-09-01 | GSE221401 | GEO

b8ffe904-d12b-49c1-a4dd-f1e2a86505b8 - samples

Project description:Bulk RNAseq of sigmoid colon biopsies from healthy volunteers and ulcerative colitis patients. Subjects were treated with Placebo or IL-22Fc at different doses, and biopsies were collected at day 0 and day 30 post treatment and prepared for RNA sequencing.

| EGAD00001008816 | EGA

Impact of BMP and WNT signaling modulation on mesendoderm progenitor cells specification from hPSCs in 3D culture conditions

Project description:We report a bulk RNA sequencing analysis of a population containing different mesendoderm progenitor cells derived from hiPSCs in 3D environment. Specifically, 3D aggregates of hPSCs were differentiated into cardiac progenitor cells through WNT signaling activation from day 0 to day 1 and WNT signaling inhibition from day 3 to day 5 of differentiation, which allowed further efficient and reproducible specification into hiPSC-derived CMs. This represents the control protocol from which samples from D3 (D3N) and D5 (D5N) were collected. Additionally, adaptation of this control protocol by performing WNT and BMP signalling pathways activation from day 3 to day 5 of differentiation, allowed the modulation of the progenitor cells population to a more posterior splanchnic mesoderm which favours further specification of those progenitors into hiPSC-derived pro-epicardium/septum transversum cells. This represents the CB protocol from where samples from D3 (D3CB) and D5 (D5CB) were collected.

2022-08-01 | GSE184302 | GEO

Temporal single-cell transcriptomic profiling of cardiac differentiation in human induced pluripotent stem cells with NOTCH1 mutations

Project description:Pathological variants in NOTCH1 have been implicated in multiple types of congenital heart defects including bicuspid aortic valve and hypoplastic left heart syndrome (HLHS). To probe how NOTCH1 deficiency affects cardiac development, we generated homozygous NOTCH1 knockout (N1KO) human induced pluripotent stem cells (iPSCs). We then ran single-cell RNA-seq to temporally profile transcriptomic changes during cardiac differentiation in wild type (WT) and N1KO iPSCs. We collected differentiating cells at multiple time points corresponding to different development stages, i.e., Day 0 (D0: pluripotent stem cell), D2 (mesoderm), D5 (cardiac mesoderm), D10 (cardiac progenitor), D14 (early cardiomyocyte), and D30 (fetal cardiomyocyte). Single-cell transcriptomics analysis reveals that NOTCH1 disruption impairs human ventricular cardiomyocyte differentiation and proliferation through balancing cell fate determination of cardiac mesoderm toward the first heart field, second heart field, and epicardial lineages.

2022-12-21 | GSE196632 | GEO

Genome-wide chromatin accessibility profiling of cardiomyocyte differentiation from human embryonic stem cells and iPS cells (ATAC-seq)

Project description:In this study, time-course genome-wide chromatin accessibility of caidiomyocyte differentiation derived from human hESCs and hiPSCs was profiled. Two hiPSC lines (C15 and C20) and two hESC lines (H1 and H9) were differentiated to caidiomyocytes by ATAC-seq. The cells were collected for ATAC-seq at day 0(undifferentiated cells) day 2 (mesoderm), day 4 (cardiac mesoderm) and day 30 (cardiomyocytes).

2017-07-10 | GSE85330 | GEO

Bulk RNA-sequencing of FUS H517Q and healthy iPSC-derived motor neurons

Project description:We sought to investigate changes in gene expression levels including changes in pri-microRNAs in FUS H517Q motor neurons Motor neurons were differentiated from patient-derived FUS H517Q and healthy iPSCs, and harvested at day 30. We performed gene expression profiling analysis using data obtained from bulk RNA-seq.

2022-05-20 | GSE203168 | GEO

Genome-wide transcriptomic profiling of cardiomyocyte differentiation from human ES cells and iPS cells under exposure to sublethal of isotretinoin (RNA-seq)

Project description:In this study, isotretinoin (INN)-induced alternations in transcriptome during caidiomyocyte differentiation derived from human hESCs and hiPSCs were investigated. H1-hESC and C15-hiPSC were differentiated to caidiomyocytes under exposure to sublethal level of INN, and cells were collected at day 0 (undifferentiated cellsl) day 2 (mesoderm) and day 6 (cardiac progenitors) for genome-wide transcriptomic profiling by RNA-seq.

2018-08-28 | GSE85880 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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