621cf826-e8b9-4353-b7fe-1e7d15b91506 - samples
Ontology highlight
ABSTRACT:
PROVIDER: EGAD00001008473 | EGA |
REPOSITORIES: EGA
Similar Datasets
Project description:This bulk RNAseq dataset is part of a dataset described in the manuscript titled "Fully defined NGN2 neuron protocol reveals diverse signatures of neuronal maturation". This dataset includes NPC derived neurons using a wild type iPSC line, and was used to validate a MS-117 maturation score which attempt to establish a socre system to assess neuronal maturation with iPSCs derived neurons.
2024-09-13 | GSE266359 | GEO
Project description:This data set includes WGS data of the in vivo acquired mutations in fetal ISCs and HSPCs of 4 foetuses ( T21=2, D21= 2). In addition, this data set includes sub-clonal fetal ISCs to determine the culture-associated mutations of fetal ISCs. Also, it concludes clone +subclone WGS data of iPSCs derived of the fetal ISCs
| EGAD00001008475 | EGA
Project description:Recently, in studies examining fibroblasts obtained from the tissues of one set of monozygotic twins (i.e. fetuses derived from the same egg) discordant for trisomy 21 (Down syndrome; DS), Letourneau et al. reported the presence of a defined pattern of dysregulation within specific genomic domains they referred to as Gene Expression Dysregulated Domains (GEDDs). GEDDs were described as alternating segments of increased or decreased gene expression affecting all chromosomes. Strikingly, GEDDs in fibroblasts were largely conserved in induced pluripotent cells (iPSCs) generated from the twin’s fibroblasts as well as in fibroblasts from the Ts65Dn mouse model of DS. Our recent analysis failed to find GEDDs. We reexamined human iPSCs RNAseq data from Letourneau et al., and data from this same research group published earlier examining iPSCs from the same monozygotic twins. In addition, an independent analysis of RNAseq data from Ts65Dn fibroblasts also failed to confirm presence of GEDDs. Our analysis questions the validity of GEDDs in DS. Ts65Dn mouse model of DS
2015-02-21 | E-GEOD-64840 | biostudies-arrayexpress
Project description:In order to better understand the mechanisms of chondrocyte hypertrophy, we induced hypertrophic chondrocytes from 414C2 iPSCs and analyzed their gene expression profile. This dataset includes the expression data obtained from iPSC-derived sclerotome and cartilage on days -1, 28, and 56 of induction. Day 56 samples were compared to day 28 samples to analyze pathways involved in chondrocyte hypertrophy.
2021-02-24 | GSE157955 | GEO
Project description:T cells from several separate single-cell RNAseq datasets from human RA synovial tissue were combined into one dataset. The dataset includes both previously published and new data.
2022-05-08 | GSE202375 | GEO
Project description:This dataset includes the raw single-cell RNAseq data from Math1-Cre;SmoM2 mouse medulloblastoma model at P7.
2024-09-12 | GSE233652 | GEO
Project description:In this dataset, we studied human dopaminergic neuron differenation from induced pluripotent stem cells (iPSCs). We included the gene expression data obtained from iPSCs and iPSC-derived dopaminergic neurons. This dataset is used to predict chromatin accessibility in iPSCs and iPSC-derived neurons using BIRD (Big data Regression for predicting DNase I hypersensitivity).
2016-12-30 | GSE93012 | GEO
Project description:In order to better understand chondrodysplasia disease mechanisms, we induced hypertrophic chondrocytes from chondrodysplasia-specific iPSCs and analyzed their gene expression profile. This dataset includes the expression data obtained from iPSC-derived cartilage pellets on day 56 of hypertrophic induction. Three COL10A1 mutants and two MATN3 mutants were compared to their isogenic controls to determine the effects of each mutation on the unfolded protein response.
2020-05-20 | GSE148728 | GEO
Project description:This experiment is to compared shTESK1 transduced induced pluripotent stem cells (iPSCs) with wild type embryonic stem cells (mES) and mouse embryonic fibroblasts (MEFs) in order to confirm that shTESK1 iPSCs are more close to ES-like state but not to their parental MEF cells. This ArrayExpress experiment includes data from two stable cell clones of shTESK1 transduced iPSCs. Microarray data for mES and MEFs have been archived in ArrayExpress under accession number E-MTAB-1188 (https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1188/).
2015-01-24 | E-MTAB-2258 | biostudies-arrayexpress
Project description:Pig induced pluripotent stem cells (piPSCs) have significant biomedical and agricultural applications. We analyzed the transcriptional profiles of pig iPSC lines derived from different labs using Affymetrix GeneChip Pig Genome Array and published microarray datasets of mouse and human iPSCs. Our results demonstrated that cell surface proteins of EpCAM (epithelial cells adhesion molecule) were significantly upregulated in complete fully reprogrammed pig iPSCs, but not in partially reprogrammed cells. EpCAM could be markers for evaluating pig cell reprogramming and selecting successful reprogramming. We analyzed gene expression levels of the six key developmental signaling pathways, including JAK-STAT, NOTCH, TGF-M-NM-2b, WNT, MAPK and VEGF in pig, human and mouse iPSCs, respectively. The result demonstrates that the core transcriptional network to maintain pluripotency and self-renewal in pig are different from mouse and human. Pig iPSCs lacked expression of specific naM-CM-/ve state markers (e.g. Klf family genes Klf2/4/5, Tbx3), but expressed unregulated primed state markers (e.g. Otx2 and Fabp7). Dlk1-Dio3 domain was silenced in piPSCs as previously seen in mouse and human iPSCs, which explantsexplains rare success of generation of pig chimeric and cloned offspring. Our analyses decipher pig somatic cells undergoes reprogramming into a primed state and maintains its regulatory network with define feature with human iPSCs and mouse EpiSCs. We compare gene expression profiles of pig iPS cell lines generated by our lab with cell lines derived from other labs with different levels of marker expression and plasticity.
2013-11-21 | E-GEOD-48434 | biostudies-arrayexpress