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Omics score: 44

Intrinsic differentiation potential of human postnatal MSC, Mab and MAPC reflected in their transcriptome

ABSTRACT: We have employed whole genome microarray expression profiling to identify genes that characterize different populations of human postnatal stem cells and reflect their potency Overall design: MSC, Mab and MAPC cultures were established from at least three different donors and their transcriptome was assayed using the Agilent 4x44k whole human genome microarray; furthermore, the H9 ESC line from U of Wisconsin and MSC from Lonza were added for comparison MSC = Mesenchymal Stem Cells, MAPC= Multipotent Adult Progenitor Cells, Mab= Mesoangioblasts, ESC= Embryonic Stem Cells

INSTRUMENT(S): Agilent-014850 Whole Human Genome Microarray 4x44K G4112F (Feature Number version)

ORGANISM(S): Homo sapiens

SUBMITTER: Valerie Dina Roobrouck

PROVIDER: GSE23131 | GEO |

SECONDARY ACCESSION(S): PRJNA131715

REPOSITORIES: GEO

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Intrinsic differentiation potential of human postnatal MSC, Mab and MAPC reflected in their transcriptome

Project description:We have employed whole genome microarray expression profiling to identify genes that characterize different populations of human postnatal stem cells and reflect their potency MSC, Mab and MAPC cultures were established from at least three different donors and their transcriptome was assayed using the Agilent 4x44k whole human genome microarray; furthermore, the H9 ESC line from U of Wisconsin and MSC from Lonza were added for comparison MSC = Mesenchymal Stem Cells, MAPC= Multipotent Adult Progenitor Cells, Mab= Mesoangioblasts, ESC= Embryonic Stem Cells

2011-07-12 | E-GEOD-23131 | ArrayExpress

MicroRNA expression profiling of extracellular vesicles derived from human BM-MSC

Project description:Human MSC are tissue stem cells that show multiple biological effects. At the present, how BM-MSC exert their effects are not fully understood. In this study, a novel cell-cell communication mediator, extraxellular vesicles (EV), were examined in the involvement of BM-MSC-mediated biological effects. Overall design: Human BM samples from healthy adult volunteers were purchased from AllCells (Emeryville, CA, USA). Human BM-MSC were isolated according to our previously published methods (Yao H, Stem Cells 2014;32:2245). EV were isolated from culture supernatant according to the literature with some modifications. NHDF purchased from LONZA (Barzel, Switzerland) were used as a control.

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Comprehensive transcriptomic and proteomic characterization of human mesenchymal stem cells reveals source specific cellular markers

Project description:Mesenchymal stem cells (MSC) are multipotent cells with great potential in therapy, reflected by more than 500 MSC-based clinical trials registered with the NIH. MSC are derived from multiple tissues but require invasive harvesting and imply donor-to-donor variability. Embryonic stem cell-derived MSC (ESC-MSC) may provide an alternative, but how similar they are to ex vivo MSC is not known. Here we performed an in depth characterization of human ESC-MSC, comparing them to human bone marrow-derived MSC (BM-MSC) as well as hESC by transcriptomics (RNA-Seq) and quantitative proteomics (nano LC-MS/MS using SILAC). Data integration highlighted and validated a central role of vesicle-mediated transport and exosomes in MSC biology and also demonstrated, through enrichment analysis, their versatility and broad application potential. A particular emphasis was placed on comparing profiles between ESC-MSC and BM-MSC and assessing their equivalency. Data presented here shows that differences between ESC-MSC and BM-MSC are similar in magnitude to those reported for MSC of different origin and the former may thus represent an alternative source for therapeutic applications. Finally, we report an unprecedented coverage of MSC CD markers, as well as membrane associated proteins which may benefit immunofluorescence-based applications and contribute to a refined molecular description of MSC.

2016-02-09 | PXD001856 | Pride

Effect of MSC and MSC-derived extracellular vesicles on human blood coagulation

Project description:Mesenchymal stem cells (MSC) have emerged as potent therapeutic tool for a number of pathologies, including immune ones. However, unwelcome effects of MSC on the blood coagulation were revealed in some cases, which require more in-depth analysis. In this study, we explored the trombotic properties of human MSC from umbilical cord. We revealed strong procoagulant effects of umbilical cord MSC toward human and rat whole blood and platelets-free plasma using rotational thromboelastometry and thrombodynamics tests. The similar potentiation of clotting was demonstrated for MSC-derived extracellular vesicles (EV). In order to suggest approaches to avoid unwanted effects we studied the impact of heparin supplement on MSC/EV procoagulation properties. We found that therapeutic doses of unfractionated heparin injected in the patient's blood (administered in vivo) did not abrogate the procoagulant properties of MSC. Mass-spectrometry analysis of proteins of MSC and EV involved in coagulation-associated pathways was used to evaluate mechanisms of protrombotic effects.

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Comprehensive transcriptomic and proteomic characterization of human mesenchymal stem cells reveals source specific cellular markers

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Gene expression profiles of LEC, MLC-L, and MSC-BM

Project description:Gene expression profiles of limbal explant culture-derived epithelial (LEC) and mesenchymal-like cells (MLC-L) and bone marrow-derived mesenchymal stem cells (MSC-BM). To confirm the stem cell signatures of cultured LEC and to establish the source, possible role of the stroma-derived MLC-L . Overall design: Two-condition experiment, LEC vs. MLC-L cells, LEC vs. MSC-BM, MLC-L vs. MSC-BM. Biological replicates: 2 LEC replicates, 2 MLC-L replicates, 2 MSC_BM replicates.

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Expression data from primary sqWAT-MSC cells from mouse

Project description:GATA2 is a transcription factor that is required for hematopoietic stem cell (HSC) differentiation. GATA2 is also expressed in mesenchymal cells and blocks differentiation of both white and brown adipocytes by interfering with C/EBP activity and PPARγ expression. By studying genome-wide binding sites of endogenous GATA2 in mesenchymal stem cells (MSC), we discovered a previously unrecognized function of GATA2 in the regulation of skeletal development-related genes. In contrast to hematopoietic stem cells, canonical GATA2 binding motifs in MSCs co-localized with motifs for transcription factors of the FOX and HOX family, known regulators of skeletal development. Consistently, ectopic GATA2 expression in MSCs regulated many osteoblast-related genes. Ectopic GATA2 blocked, whereas GATA2 deletion enhanced differentiation of osteoblastic precursors. GATA2 expression inhibited bone morphogenetic protein (BMP)-2 induced SMAD1/5/8 activity, a pathway that drives osteoblastogenesis. MSC-specific deletion of GATA2 in mice affected both numbers and osteogenic potential of bone-residing precursors without disturbing normal skeletal development. In adult mice, MSC-specific GATA2 deficiency affected trabecular bone structure and its mechanical properties. blood phenotype? In summary, our study identified GATA2 as a novel regulator of osteoblast differentiation and bone morphology, suggesting a role of GATA2 in MSC lineage determination that goes beyond adipocyte differentiation. Microarrays analysis was done to determine gene expression changes between sqWAW-MSC control cells and sqWAT-MSC cells with Gata2 over-expression. Overall design: This dataset consists of two sample groups: sqWAT-MSC cells infected with empty (control) or GATA2-expressing retroviruses (GATA2 over-expression). Each sample group consists of three replicates samples.

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Transcription profiling of two populations of non-hematopoetic stem cells (MSC and MAPC) isolated from human bone marrow.

Project description:Compare the behaviour of two populations of non-hematopoetic stem cells (MSC and MAPC) isolated from human bone marrow. The effect of culture conditions on the behaviour of MSC was also characterised by isolating MSC and then culturing the cells for 96h in MAPC growth conditions

2015-10-22 | E-MEXP-466 | ExpressionAtlas

Comparison of transciptome of hiPS-MSC versus MSC (2D culture) and analyze regulated trascripts during differentiation of hiPS-MSC and MSC on a 3D scaffold

Project description:Expression data from hiPS lines after commitment towards mesenchymal lineage (hiPS-MSC) and expression data of mesenchymal lines (MSC), used as positive control of commitment. Following this, hiPS-MSC and MSC are seeded on scaffold to differentiate in a ligamentous (middle) and osseous (edges) part (post 21 days 3D differentiation) We used microarrays to validate efficient commitment of hiPS to generate hiPS-MSC and do whole transcriptome comparison of hiPS-MSC vs isolated MSC (positive control) and then compare the enhanced biological functions after differentiation of these cells on a scaffold Overall design: 3 different hiPSMSC lines and 3 independent MSC isolated populations were selected (before and after seeding and differentiating on the scaffold) for RNA extraction and hybridization on Affymetrix microarrays. We sought to validate that the regulated trascriptomes of hiPS-MSC are highly similar to isolated primary MSC

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Identification of transcription factor MAB-5 binding sites

Project description:We identified the DNA binding sites of MAB-5 in C. elegans. MAB-5 was C-terminally tagged with GFP and the expression pattern was examined through fluorescent microscopy. The binding sites were determined using chromatin immunoprecipitation with anti-GFP antibody followed by illumina high-throughput sequencing (ChIP-seq). For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Identification of MAB-5 binding sites at L3 stage

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