Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Candidatus Caldatribacterium californiense OP9-cSCG

ABSTRACT: OP9-cSCG Composite Single-Cell Metagenomic Assembly

PROVIDER: PRJNA178520 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	APKF01.dat.gz	Other
	APKF01.fasta.gz	Fasta.gz
	APKF01.master.dat	Other
	SRR609896.fastq.gz	Fastqsanger.gz
	APKF01.dat.gz	Other

Items per page:

1 - 5 of 5

Similar Datasets

Candidatus Caldatribacterium saccharofermentans OP9-77CS isolate:OP9-77CS

Project description:"Ca. Caldatribacterium saccharofermentans" OP9-77CS Genome sequence

| PRJNA179321 | ENA

Gene expression profile at single cell level of crude umbilical cord blood (UCB) and OP9 pre-conditioned UCB.

Project description:Umbilical cord blood (UCB) transplantation shows pro-angiogenic effect and contributes to symptom amelioration in animal models of cerebral infarction. OP9 is a stromal cell line used as feeder cells to promote hematoendothelial differentiation of embryonic stem cells. We co-cultured UCB 24hr with OP9 (i.e. OP9 preconditioning) and investigated its change in angiogenic properties and underlying mechanisms. Single cell RNA sequencing showed prominent phenotypic shift toward M2 in monocytic fraction of OP9 pre-conditioned UCB.

2023-01-25 | GSE207249 | GEO

Gene expression profile at a single cell level of differentiating J1 mouse embryonic stem cells cocultured with OP9 cells

Project description:The OP9 coculture system is widely used to differentiate pluripotent stem cells into mesodermal lineages. We used single cell RNA sequencing to analyze differentiation trajectories and heterogeniety of differentiating pluripotent stem cells using the OP9 coculture system.

2024-07-10 | GSE271441 | GEO

Expression data from Hh signaling-deficient OP9 stromal cells

Project description:In the bone marrow B cell development occurs in initimate and essential association with stromal cells. Known effects of stromal cells on B cell development have been shown to be mediated through direct contact and by soluble factors produced by stromal cells. Our findings suggest that cell-nonautonomous Hh signaling may play an important role in B cell lymphopoiesis. We therefore interrogated OP9 stromal cells for Hh-dependent transcripts that may confer B lymphopoietic identity. We generated OP9 stromal cells deficient in Hh signaling through targeting the non-redundant, pathway-obligate GPCR Smoothened. OP9 cells were transduced with RNAi pLKO.1-Puro lentiviral particles expressing a scrambled control shRNA (NT) or shRNA targeting Smoothened (Smo-kd). RNA from stable NT and Smo-kd OP9 cells were isolated in triplicate and global changes in transcripts were analyzed using the Affymetrix Mouse Exon 1.0 ST gene chip.

2012-07-11 | E-GEOD-34421 | biostudies-arrayexpress

Expression data from Hh signaling-deficient OP9 stromal cells

2012-07-12 | GSE34421 | GEO

RNA-sequencing of CD34+ thymocytes that were cultured on an OP9-GFP or OP9-DLL1 feeder layer.

Project description:Genetic studies in T-cell acute lymphoblastic leukemia have uncovered a remarkable complexity of oncogenic and loss-of-function mutations. Amongst this plethora of genetic changes, NOTCH1 activating mutations stand out as the most frequently occurring genetic defect, identified in more than 50% of T-cell acute lymphoblastic leukemias, supporting an essential driver role for this gene in T-cell acute lymphoblastic leukemia oncogenesis. In this study, we aimed to establish a comprehensive compendium of the long non-coding RNA transcriptome under control of Notch signaling. For this purpose, we measured the transcriptional response of all protein coding genes and long non-coding RNAs upon pharmacological Notch inhibition in the human T-cell acute lymphoblastic leukemia cell line CUTLL1 using RNA-sequencing. Similar Notch dependent profiles were established for normal human CD34+ thymic T-cell progenitors exposed to Notch signaling activity in vivo. In addition, we generated long non-coding RNA expression profiles (array data) from GSI treated T-ALL cell lines, ex vivo isolated Notch active CD34+ and Notch inactive CD4+CD8+ thymocytes and from a primary cohort of 15 T-cell acute lymphoblastic leukemia patients with known NOTCH1 mutation status. Integration of these expression datasets with publically available Notch1 ChIP-sequencing data resulted in the identification of long non-coding RNAs directly regulated by Notch activity in normal and malignant T-cell context. Given the central role of Notch in T-cell acute lymphoblastic leukemia oncogenesis, these data pave the way towards development of novel therapeutic strategies that target hyperactive Notch1 signaling in human T-cell acute lymphoblastic leukemia. CD34+ cells of 2 healthy donors are cultured on a OP9-GFP or OP9-DLL1 feeder layer.

2014-10-27 | E-GEOD-62000 | biostudies-arrayexpress

Candidatus Caldatribacterium californiense

Project description:Candidatus Caldatribacteirum californiense overview

| PRJNA240607 | ENA

Comparison of gene expression from thymocyte populations and equivalent OP9-DL1 cultured cells

Project description:Comparison between ex vivo immature, mature and stimulated T cells and in vitro generated counterparts. The T cells generated in vitro were cultured on OP9-DL1 stroma supplied with growth factors.

2014-07-19 | GSE49039 | GEO

Candidatus Gracilibacteria

Project description:Single cell genomes and metagenomic pan genomes of uncultured oral Gracilibacteria.

| PRJNA348708 | ENA

Candidatus Absconditabacteria

Project description:Single cell genomes and metagenomic pan genomes of oral bacteria from candidate division SR1 Genome sequencing and assembly

| PRJNA352960 | ENA