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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Transcription profiling of human fibroblasts, senescent populations from three cell lines (WS1, WI38 and BJ) is compared with abundance in isogenic early passage proliferating cells and also with abundance in early passage quiescent cells

ABSTRACT: Transcriptional abundance in each of senescent populations from three cell lines (WS1, WI38 and BJ) is compared with abundance in isogenic early passage proliferating cells and also with abundance in early passage quiescent cells.

ORGANISM(S): Homo sapiens

SUBMITTER: Janos Demeter

PROVIDER: E-SMDB-1951 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Senescence-specific gene expression fingerprints reveal cell-type-dependent physical clustering of up-regulated chromosomal loci.

Zhang Hong H Pan Kuang-Hung KH Cohen Stanley N SN

Proceedings of the National Academy of Sciences of the United States of America 20030307 6

Replicative senescence is the state of irreversible proliferative arrest that occurs as a concomitant of progressive telomere shortening. By using cDNA microarrays and the gabriel system of computer programs to apply domain-specific and procedural knowledge for data analysis, we investigated global changes in gene transcription occurring during replicative senescence in human fibroblasts and mammary epithelial cells (HMECs). Here we report the identification of transcriptional "fingerprints" uni ...[more]

PMID: 12626749

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Transcription profiling of replicative senescence in post-selection HMECs, senescent populations from two post-selection HMEC lines (48R and 184) is compared with abundance in isogenic early passage proliferating cells and also with abundance in early passage quiescent cells

Project description:Transcriptional abundance in each of senescent populations from two post-selection HMEC lines (48R and 184) is compared with abundance in isogenic early passage proliferating cells and also with abundance in early passage quiescent cells.

2005-10-07 | E-SMDB-1952 | biostudies-arrayexpress

Replicative senescence in human fibroblasts

Project description:Transcriptional abundance in each of senescent populations from three cell lines (WS1, WI38 and BJ) is compared with abundance in isogenic early passage proliferating cells and also with abundance in early passage quiescent cells. A strain or line experiment design type assays differences between multiple strains, cultivars, serovars, isolates, lines from organisms of a single species. Keywords: strain_or_line_design

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Replicative senescence in human fibroblasts

2005-12-02 | E-GEOD-3730 | biostudies-arrayexpress

miRNA Expression in Senescent and Immortalized BJ fibroblasts

Project description:Limited data exists regarding changes of microRNA (miRNA) expression during senescence in human cells and no reports correlate telomerase expression with regulation of senescence-related miRNAs. We used miRNA microarrays to provide a detailed account of miRNA profiles for early passage and senescent human foreskin (BJ) fibroblasts as well as early and late passage immortalized fibroblasts (BJ-hTERT) that stably express the human telomerase reverse transcriptase subunit hTERT. The revelation that miRNA expression changes with extended passaging in BJ-hTERT cells will contribute to a comprehensive understanding of the connections between telomerase expression, senescence and processes of cellular aging.

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Proteomic analysis of GC7-treated senescent and proliferating BJ fibroblasts

Project description:Quantitative analysis of global proteomic changes in proliferating and senescent BJ fibroblasts, treated with eIF5A hypusination inhibitor GC7 (10 uM) for 12h.

2024-07-12 | PXD034251 | Pride

Madin Darby Canine Kidney (MDCK) Cells: Early & Late Passage

Project description:The paracellular passage of ions in epithelial systems is dictated by the repertoire of tight junction (TJ) proteins, the number and architecture of apicolateral TJ strands, and the interaction of TJ proteins with the cytoskeleton. To investigate the relative contribution of these factors and to explore their regulation, we examined a passage number dependent phenotypic change in Madin Darby Canine Kidney (MDCK) cells iteratively passaged at low density in which dilution potentials of the monolayer abruptly decreased but transepithelial resistance (TER) progressively increased. Here, we report that the phenotypic transition involved a decrease surface expression of peanut agglutinin (PNA), a decrease in steady state levels of claudin-1 and a slight decrease in E-cadherin expression in the context of an apparently claudin-2-negative system. Late passage cells grew in more densely packed monolayers and exhibited characteristics of a competent, functional cultured monolayer including inducible vectorial ion transport in response to norepinephrine (NE) and sphere formation in three dimensional laminin gel culture. Microarray analysis of gene expression levels in early and late passage cells revealed an increase in transcript abundance for SGK and GLUT-3, and a reduction Id-3. The steady state protein expression levels of GLUT-3, however, were found to be equivalent. These findings suggest that the expression of claudin-2 in MDCK cells could be contingent on signaling via lateral cell contacts and that claudin-1, in the context of sustained claudin-8 expression, could function as a negative regulator of overall TER.

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Early and late passage endothelial cells with or without PDCD10 downregulation

Project description:Primary cells deficient for PDCD10/CCM3 do not enter senescence as control cells. Microarray analysis was performed in cells transduced with non-targeting shRNA and CCM3 shRNA at passage 7 (early passage) and passage 11 (late passage), when control cells are already senescent.

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Madin Darby Canine Kidney (MDCK) Cells: Early & Late Passage

2010-04-09 | E-GEOD-14837 | biostudies-arrayexpress

Nascent proteome analysis of proliferating and senescent BJ fibroblast treated with GC7

Project description:Analysis of proteomic changes in proliferating and senescent BJ fibroblast treated with eIF5A hypusination inhibitor GC7 for 12h.

2024-07-12 | PXD034334 | Pride

p53-repressed miRNAs are Involved with E2F in a Feed Forward Loop Promoting Proliferation

Project description:miRNA expression profiles of WI38 primary human fibroblasts with an active or inactive p53. Cells were compared under normal untreated conditions (young and proliferating cells), after DNA damage with Doxorubicin, and upon entry into replicative senescence. Keywords: miRNA, WI-38, p53, GSE56, Senescence, Doxorubicin, Cancer, DNA-damage, fibroblasts. 6 samples of WI38 cells were analyzed on 12 Exiqon miRcurry LNA arrays in biological duplicates (2 different cell culture plates for each experimental condition). The six conditions included: 1. [Con_Young] - Primary Young WI38 cells (passage 20) with a control retroviral vector (pLXSN-NEO). Untreated. 2. [GSE_Young] -Primary Young WI38 cells (passage 20) with a retroviral vector encoding for the p53-inactivating peptide GSE56 (pLXSN-NEO-GSE56).Untreated. 3. [Con_Dox] -Primary Young WI38 cells (passage 20) with a control retroviral vector (pLXSN-NEO). Treated with Doxorubicin (0.2 micrograms/ml) for 24 hours). 4. [GSE_Dox] Primary Young WI38 cells (passage 20) with a retroviral vector encoding for the p53-inactivating peptide GSE56 (pLXSN-NEO-GSE56). Treated with Doxorubicin (0.2 micrograms/ml) for 24 hours). 5. [Con_Old] - Sesescent WI38 cells (passage 30) with a control retroviral vector (pLXSN-NEO). Untreated. 6. [GSE_Old] - Senescent WI38 cells (passage 26) with a retroviral vector encoding for the p53-inactivating peptide GSE56 (pLXSN-NEO-GSE56).Untreated. RNA was extracted with TRI-Reagent and sent for labeling and hybridization in Exiqon laboratories (In Denamark). Samples were labeled with Cy5. Reference sample (Cy3) was an RNA mix of all samples. Log2 for Ratio(Cy5/Cy3) was used for further analysis.

2010-05-19 | E-GEOD-12450 | biostudies-arrayexpress

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