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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Human induced Pluripotent stem cells: Normal diploid line vs lines with deletions of Chr7

ABSTRACT: Mapping deletions of Chr7 in human iPSC derived from patients cells through reprogramming Two-condition experiment, normal diploid iPSCs vs del7q-iPSCs

ORGANISM(S): Homo sapiens

SUBMITTER: Eirini Papapetrou

PROVIDER: E-GEOD-65387 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Pluripotent stem cells: Normal diploid line vs lines with deletions of Chr7

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2015-02-16 | E-GEOD-65410 | biostudies-arrayexpress

Human Pluripotent stem cells: Normal diploid line vs lines with deletions of Chr7

Project description:Mapping deletions of Chr7 in human iPSC and ESCs derived from patients cells through reprogramming or chromosome engineering Two-condition experiment, normal diploid hPSCs vs del7q-hPSCs

2015-02-16 | E-GEOD-65386 | biostudies-arrayexpress

Human induced pluripotent stem cells: diploid, chr7q deletion, spontaneous chr7 correction

Project description:Gene expression analysis, a) comparing isogenic karyotypically normal iPSCs to del7q-iPSCs, b) comparing del7q-iPSCs to spontaneously corrected iPSCs. The chr7q deletion results in reduced expression levels of a large number of genes in the chr7q deleted region Two-condition experiment, del7q-iPSCs vs. isogenic normal iPSCs and del7q-iPSCs vs spontaneously corrected-iPSCs. Biological replicates: 3 control replicates, 3 del7q-iPSC replicates and 3 spontaneously corrected-iPSC replicates

2015-02-16 | E-GEOD-65215 | biostudies-arrayexpress

Human Pluripotent stem cells: Normal diploid line vs lines with deletions of Chr7

Project description:Mapping deletions of Chr7 in human iPSC and ESCs derived from patients cells through reprogramming or chromosome engineering

2015-02-16 | GSE65386 | GEO

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Project description:Mapping deletions of Chr7 in human iPSC derived from patients cells through reprogramming

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Human induced pluripotent stem cells: diploid, chr7q deletion, spontaneous chr7 correction

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Pluripotent stem cells: Normal diploid line vs lines with deletions of Chr7

Project description:This SuperSeries is composed of the SubSeries listed below.

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DNA Methylation Changes and Childhood Asthma in the Inner City [gene expression]

Project description:Background: Epigenetic marks, like asthma, are heritable. They are influenced by the environment, direct the maturation of T cellslymphocytes, and have been shown to enhance the development of allergic airways disease in mice. Thus, we hypothesized that epigenetic marks are associated with allergic asthma in inner-city children. Methods: We compared methylation patterns and gene expression in inner-city children with persistent atopic asthma versus healthy controls, using DNA and RNA from peripheral blood mononuclear cells (PBMCs) from inner city children aged 6-12 years with persistent atopic asthma children and healthy controls. Results were externally validated with the GABRIELA study population. Results: Comparing asthmatics (N=97) to controls (N=97), we identified 81 regions that were differentially methylated. Several immune genes were hypomethylated in asthmatics, including IL-13, RUNX3, and a number of specific genes relevant to natural killer cells (KIR2DL4, KIR2DL3, KIR3DL1, and KLRD1) and T cells lymphocytes (TIGIT). 14 differentially methylated regions (DMRs) were associated with the serum IgE concentration of IgE, including RUNX3. These results were internally and externally validated with a global methylation assessment using a different methodology in our inner-city cohort and an independent European cohort (GABRIELA). Hypo- and hypermethylated genes tended to be associated with increased and decreased gene expression, respectively (P<0.6x10-11 for asthma and ; P<0.01 for IgE). To further explore the relationship between methylation and gene expression, we created a matrix of genomic changes in methylation versus transcriptional changes (methyl eQTL) for asthma, and identified cis- and trans-regulated genes whose expression was related to asthma asthma-associated methylation marks. peripheral blood mononuclear cells (PBMCs) from 97 atopic asthmatic and 97 nonatopic nonasthmatic children

2015-02-02 | E-GEOD-40732 | biostudies-arrayexpress

RNA-seq of yeast with human chr7 YACs

Project description:RNA-seq was performed of S. cerevisiae harboring human chr7 YACs in order to gauge the frequency and form of transcription in naïve DNA (i.e. DNA that did not evolve in the host cell)

2022-11-15 | GSE217781 | GEO

Evolution of microRNA expression at the onset of drosophila metamorphosis by mRNA

Project description:We found two lines of evidence suggesting that miRNA abundance has been shaped by different evolutionary regimes at the two developmental stages attributed to functional constraints, which points to mechanisms more subtle and diverse than previously thought. 4 genotypes and 2 developmental states were investigated in this study, each with 3 biological replicates, so a total of 24 (4x2x3) hybridizations were conducted. Differential analysis between genotypes or sexes were analyzed.

2014-03-01 | E-GEOD-55398 | biostudies-arrayexpress

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