Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Genome-wide maps of chromatin state in human iPSC derived Cardiomyocytes with 2N and 4N DNA content.

ABSTRACT: ChIP-seq was performed for seven marks (H3K4me1, H3K4me2, H3K4me3, H3K27ac, H3K27me3, H3K9me3, and H3K36me3) with Inputs on iPSC derived Cardiomyocytes with either 2N or 4N DNA content (3 replicates). Replicates were combined and put into the ChromImpute and ChromHMM pipelines (Ernst and Kellis, 2015), and a 25 state chromatin profilefor each was developed.

ORGANISM(S): Homo sapiens

PROVIDER: GSE130285 | GEO | 2021/05/06

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Genome-wide maps of chromatin state in human iPSC derived Cardiomyocytes with 2N and 4N DNA content.

Project description:Genome-wide maps of chromatin state in human iPSC derived Cardiomyocytes with 2N and 4N DNA content.

| PRJNA534525 | ENA

Proteomics analysis of 2n+x aneuploid yeast

Project description:We generated forty 2n+x aneuploid yeast strains and qualify the proteomes in nine of them using SILAC.

2019-05-23 | PXD007157 | Pride

Bacillus cereus strain:4N

Project description:Bacillus cereus strain:4N Genome sequencing and assembly

| PRJNA815817 | ENA

Controlled ploidy reduction of pluripotent 4n cells generates 2n cells during mouse embryo development.

Project description: Not available

| S-EPMC6795515 | biostudies-literature

Dynamic Pax3:Foxo1a expression of alveolar rhabdomyosarcoma

Project description:To define the specific function of Pax3:Foxo1a in G2/M stage, we compared whole mRNA expressions of mouse alveolar rhabdomyosarcoma tumor cells in G2/M stage (4N) with or without Pax3:Foko1a knockdown (si_YFP or si_control). The exerimental plan will include triplicate samples for sorted cells at G1/G0 (2N) and G2/M (4N) and dupicate samples for S (3N) phase cells for a total of 16 samples.

2014-03-19 | E-GEOD-41675 | biostudies-arrayexpress

Mus musculus strain:DBA/2N

Project description:Mus musculus strain:DBA/2N Genome sequencing

| PRJNA548780 | ENA

Mus musculus strain:DBA/2N

Project description:Mus musculus strain:DBA/2N Genome sequencing

| PRJNA548912 | ENA

Flavobacterium psychrophilum strain:141127-1/2N

Project description:Flavobacterium psychrophilum strain:141127-1/2N Genome sequencing

| PRJNA645942 | ENA

The intrinsic and extrinsic effects of Tet proteins during gastrulation

Project description:To isolate cell-autonomous effects of TET loss during gastrulation, we utilized a chimeric embryo platform in which fluorescently tagged Tet-deficient and control mouse embryonic stem cells (mESCs) were either injected into tetraploid (4N) or diploid (2N) blastocysts, and allowed to develop in utero. In 4N complemented embryos, the resulting embryonic compartment is solely comprised of the injected mESCs derivatives (hereinafter denoted as whole-embryo chimera), whereas in chimeras obtained using 2N host blastocysts, the embryonic compartment contains both wild-type (WT) and injected cell derivatives (hereinafter denoted as mixed chimera). We performed single-cell RNA-seq for each whole-embryo and mixed chimera embryo, and compared the transcriptomes to a defined single-cell/single-embryo atlas. We further performed methylation analysis using post-bisulfite adaptor tagging (PBAT) for sorted Tet-TKO mutant and control from E8.5 mixed chimeras. Our work demonstrates an unbiased approach for defining intrinsic and extrinsic embryonic gene function based on temporal differentiation atlases, and disentangles the intracellular effects of the demethylation machinery from its broader tissue-level ramifications.

2022-06-14 | GSE205917 | GEO

Murine models of IDH-wild-type glioblastoma exhibit spatial segregation of tumor initiation and manifestation during evolution

Project description:Primary glioblastoma, representing over 90% of adult glioblastoma, develop rapidly without preexisting lower-grade glioma. We have generated a mouse model of primary glioblastoma driven by a single p53 mutation. These p53-mutant gliomas lose the syntenic region of human chromosome 10q, which is mapped to mouse chr19 and chr7. Loss of mouse chr19, containing Pten, activates PI3K/Akt signaling. Using serial MRI/3D-reconstruction, whole-genome sequencing and spectral karyotyping-based single-cell phylogenetic tree building, we showed two distinct types of tumor evolution in p53-mutant driven mouse models. Malignant gliomas/GBMs grew as a single mass (Type 1) and multifocal masses (Type 2), respectively, despite both exhibiting loss of Pten/chromosome 19 (chr19) and PI3K/Akt activation with sub-tetraploid/4N genomes. Analysis of early biopsied and multi-segment tumor tissues revealed no evidence of less proliferative diploid/2N lesions in Type 1 tumors. Strikingly, CA-derived relatively quiescent tumor precursors with ancestral diploid/2N genomes and normal Pten/chr19 were observed in the subventricular zone (SVZ), but was distantly segregated from multi-focal Type 2 tumors. Importantly, PI3K/Akt inhibition by Rictor/mTORC2 deletion blocked distant dispersal, restricting glioma growth in the SVZ.

2020-06-10 | GSE152071 | 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