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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Transcription profiling of mouse adipose, dermis and neural embryonic cells

ABSTRACT: The objective is to study gene expression between potential adult stem cells isolated from dermis and adipose tissue compared to embryonic neural stem cells. Tissue was enzymatically digested and cells were seeded into a tissue culture flask. After 4 days, cells that had grown in suspension were passaged, harvested (by sedimentation, mechanically triturated and replated. Seven days later, cells were passaged again and RNA isolated after another 7 days.

ORGANISM(S): Mus musculus

SUBMITTER: OGIC Info Ontario Genomics Innovation Centre (OGIC)

PROVIDER: E-GEOD-2353 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Adipose, dermis and neural embryonic stem cells

Project description:The objective is to study gene expression between potential adult stem cells isolated from dermis and adipose tissue compared to embryonic neural stem cells. Tissue was enzymatically digested and cells were seeded into a tissue culture flask. After 4 days, cells that had grown in suspension were passaged, harvested (by sedimentation, mechanically triturated and replated. Seven days later, cells were passaged again and RNA isolated after another 7 days. Keywords: other

2005-03-03 | GSE2353 | GEO

Replating of Human Pluripotent Stem Cell Derived Cardiomyocytes Induces a Shift in Myosin Heavy Chain Expression and Changes in Contractile Function

Project description:Human embryonic stem cell-derived cardiomyocytes (hESC-CMs) and human induced pluripotent stem cell-derived cardiomyocytes (hiPSC-CMs) grown for 35 days on laminin-coated coverslips, a stiff matrix, were enzymatically dissociated, replated on laminin-coated coverslips and grown for further 2 days. Gene expression was compared with controls grown for 37 days on laminin-coated coverslips. Total RNA was isolated and gene expression was analyzed by RNA-sequencing (RNA-seq) on an Illumina NextSeq 550 sequencer using a High Output Flowcell for single reads (20024906; Illumina). Gene enrichment analysis based on RNA-Seq data of hESC-CMs replated for 2 days as compared with 37 days old controls was performed by using the comprehensive gene set enrichment analysis tool Enrichr for pathway analysis with KEGG Pathways 2019 Human, as well as for Gene Ontology (GO) analysis with GO Cellular Component 2018, GO Molecular Function 2018, and GO Biological Process 2018. Gene enrichment was also analyzed by Ingenuity Pathway analysis (IPA, Qiagen), especially Canonical Pathways analysis. Gene enrichment analysis revealed changes in the gene expression profile, especially of mechanosensation/-transduction-related genes and pathways in replated hESC-CMs.

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Single cell RNA sequencing of cultured CCR10+ and CCR10- lung airway epithelial cells

Project description:Mechanically dissociated IPF lung explant derived cellular suspensions were cultured in 50% senescent lung fibroblast conditioned medium + 50% fibroblast complete medium (DMEM + 15% FBS + antiboitics) and 10 µM of Y27632. After approximately 2 weeks, cells were passaged and cultured overnight in Pneumacult Ex Plus medium (STEMCELL technologies).

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Expression data from 1,25(OH)2D treated human testicular cells

Project description:Human testicular cells were isolated mechanically and enzymatically from testis of braindead donors and from urological samples. The expression of genes was studied at baseline and 1,25(OH)2D treated conditions. We used microarrays to analyze the gene expression underlying vitamin D metabolism in human testis cells and identified distinct classes of up-regulated genes during this process.

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Single cell RNA sequencing analysis of mouse dorsal root ganglions (DRGs) with and without spared nerve injury.

Project description:We report here a systematic approach to characterize the transcriptional responses of different cells types in the dorsal root ganglion (DRG) to peripheral nerve injury using single cell RNA sequencing (scRNAseq). We compare scRNAseq datasets of lumbar DRGs form naïve mice with corresponding datasets from mice subjected to spared nerve injury (SNI) 7 or 14 days prior to analysis. SNI surgery was performed in the left and right hindleg and development of mechanical allodynia was monitored by von Frey testing relative to control mice and the baseline level. Mice were perfused with PBS prior to extraction of L3 and L4 DRGs and DRGs were enzymatically and mechanically dissociated to single cell suspension before scRNAseq. Analysis of transcriptional changes in this nerve injury-paradigm reveals a differential response at 7 days versus 14 days post injury, suggesting dynamic gene modulation over time.

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Project description:We have found that the cell yield of oligodendrocyte precursor cells (OPCs) are higher in 31.5 degC than in 37 degC not by suppression of apoptosis but by enhancement of proliferation. Here, we performed transcriptome analysis using Affymetrix GeneChip on the primary cultured oligodendrocyte precursor cells prepared from the brain of ICR mice. Oligodendrocyte precursor cells were prepared from primary mixed cell cultures of embryonic mouse cerebral hemispheres. The cerebral hemispheres from 15-day-old mouse embryos were enzymatically dissociated, seeded and cultured for 5 days in D-MEM containing 10% FBS. The cells were passaged to serum-free basal medium and cultured for further 48 hr at 37 degC and 31.5 degC.

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Expression data from 1,25(OH)2D treated human testicular cells

2014-03-14 | E-GEOD-55207 | biostudies-arrayexpress

CRISPR screen identifies loss of IFNγR signaling and downstream adhesion as a resistance mechanism to CAR T-cell cytotoxicity in solid tumors

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CF (1565) vs CFTR-corrected (1564) iPSC_airway at ALI

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Expression data from porcine embryonic stem cells

Project description:We have been able to derive EpiSC-like pESC lines from in vivo produced porcine blastocysts. Our cell lines showed AP activity, expressions of the genes Oct4, Sox2, Nanog, Rex1, TDGF1, bFGF, FGFR1, FGFR2, Nodal and Activin-A involved in pluripotency and signaling pathways and in vitro differentiation potential, displaying similarities to epiblast stem cells or hES cells. Porcine blastocysts were cultured on mitotically inactivated mouse embryonic fibroblasts (MEFs) in pESC medium. Following 5-7 days of culture, we observed EpiSC-like primary colonies derived from day 7 in vivo-produced. These EpiSC-like pESC colonies were mechanically dissociated into several clumps using pulled glass pipettes 10-15 days after seeding. Dissociated clumps were then re-seeded on fresh MEFs, and subsequent EpiSC-like pESC lines were routinely passaged via the pulled glass pipette method every 5-7 days. Our cell lines maintained stemness and a stable morphology for more than 56 passages. The main purpose of the present study was to investigate gloval gene expression from porcine embryonic stem cells.

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