Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

36 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Primordial germ cell like cell competent populations

ABSTRACT: We sequenced human embryonic stem cells (hESCs), pre-mesendoderm cells (PreME) that acquire transient competence for PGCLC specification and cells at the mesendoderm (ME) stage when they are not longer PGC-competent.

INSTRUMENT(S): Illumina HiSeq 4000

ORGANISM(S): Homo sapiens

SUBMITTER: Aracely Castillo Venzor

PROVIDER: E-MTAB-11135 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

scRNA-seq of Homo sapiens differentiated primordial germ cell-like cell derived from embryoid bodies

Project description:We sequenced embryoid bodies at various time points following induction of pre-mesendoderm cells (PreME) towards primordial germ cell-like cell (PGCLC) fate

2023-05-05 | E-MTAB-11283 | biostudies-arrayexpress

TFAP2A is required for efficient Primordial Germ Cell-like Cell induction

Project description:We sequenced embryoid bodies at two time points (18h, 96h) following a differentiation protocol to induce Primordial Germ Cell-like Cells (PGCLC) in a TFAP2A KO line and parental line

2023-05-14 | E-MTAB-11305 | biostudies-arrayexpress

Single cell RNA sequencing of stem cell-derived retinal ganglion cells

Project description:We used human embryonic stem cell-derived retinal ganglion cells (RGCs) to characterize the transcriptome of 1,174 cells at the single cell level. The human embryonic stem cell line BRN3B-mCherry A81-H7 was differentiated to RGCs using a guided differentiation approach. Cells were harvested at day 36 and incubated with THY1 antibody (Miltenyi) before undergoing FACS. THY1 positive and THY1 negative cells were subsequently prepared for single cell RNA sequencing. Single cell suspensions were loaded onto 10X Genomics Single Cell 3' Chips along with the reverse transcription master mix as per the manufacturer's protocol for the Chromium Single Cell 3' v2 Library (10X Genomics; PN-120233), to generate single cell gel beads in emulsion. Libraries were then sequenced on an Illumina HiSeq 2500.

2017-10-07 | E-MTAB-6108 | biostudies-arrayexpress

multiomic snRNAseq/snATACseq of human implantation sites, placenta and decidua

Project description:These samples are part of a study to provide a spatially resolved single-cell multiomics map of human trophoblast differentiation in early pregnancy. Here we profiled human implantation sites, decidual and placental samples from 6-9 PCW by 10x multiome snRNA-seq/snATAC-seq.

2023-02-09 | E-MTAB-12595 | biostudies-arrayexpress

Single-cell RNA-seq of Endometrial Superficial biopsies and full depth uterine tissue from organ donors

Project description:We performed single-cell RNA-sequencing to create a cell census of the human endometrium, which is the mucosal lining of the uterus that undergoes dynamic changes throughout the menstrual cycle. We integrated cells that were obtained from 3 superficial biopsies to selected samples that originated from 2 organ donors; this allowed a better representation of cell type diversity found within the full depth of the endometrium.

2021-07-21 | E-MTAB-10287 | biostudies-arrayexpress

scRNAseq/snucRNAseq of human implantation sites, placenta and decidua.

Project description:These samples are part of a study to provide a spatially resolved single-cell multiomics map of human trophoblast differentiation in early pregnancy. Here we profiled three human implantation sites (between 6 and 9 post-conceptional weeks, PCW) with snucRNAseq; five decidual and three placental samples from 8-13 PCW by scRNA-seq/snRNA-seq.

2023-02-09 | E-MTAB-12421 | biostudies-arrayexpress

Single-cell RNA seq of mouse proximal small intestine at E16.5

Project description:Epcam-positive cells from fetal intestinal epithelium were FACS sorted and processed using 10X genomics to characterise the differentiation of fetal intestinal cells at E16.5.

2019-05-15 | E-MTAB-7660 | biostudies-arrayexpress

Single-cell RNA-seq of Endometrial organoids treated with NOTCH or WNT inhibitors in a time course of Estrogen and Progesterone stimulation

Project description:We performed single-cell RNA-sequencing of 3D endometrial organoid cultures in order to dissect the signaling pathways that determine cell fate of epithelial lineages. Every time course was obtained in a background that either included or did not include ovarian hormones stimulation, which emulates dynamic regulations associated with the menstrual cycle. These inductions show that in vitro downregulation of WNT or NOTCH pathways increases the differentiation efficiency along the secretory and ciliated lineages, respectively.

2021-07-21 | E-MTAB-10283 | biostudies-arrayexpress

multiomic snRNAseq/snATACseq of first and second-trimester human gonads

Project description:Comprehensive map of first- and second-trimester gonadal development in humans using a combination of single-cell and spatial transcriptomics, chromatin accessibility assays, and imaging.

2022-05-12 | E-MTAB-11708 | biostudies-arrayexpress

Somatic Gain-of-Function mTOR mutation in Clonally Expanded T-lymphocytes Associated with Chronic Graft-Versus-Host Disease

Project description:Graft-versus-host-disease (GvHD) is the main complication of allogeneic hematopoietic stem cell transplantation (HSCT). Here we report studies of a patient with chronic GVHD (cGVHD) carrying persistent CD4+ T cell clonal expansion which harbored somatic mTOR, NFKB2, and TLR2 mutations. Functional analysis of the discovered mTOR mutation indicated a gain-of-function alteration and activation of both mTORC1 and mTORC2 signaling pathways leading to increased cell proliferation and decreased apoptosis. Single-cell RNA sequencing and real-time impedance measurements supported increased cytotoxicity of mutated CD4+ T cells. High throughput drug-sensitivity testing suggested mutations induce resistance to mTOR inhibitors but increase sensitivity for HSP90 inhibitors. Our findings suggest that somatic mutations may contribute to aberrant T cell proliferations and participate in the persistent immune activation in cGVHD paving the way for novel targeted therapies.

2020-04-12 | E-MTAB-8911 | biostudies-arrayexpress

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