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The NIH Human Pluripotent Stem Cell Database (Illumina, methylation)

ABSTRACT: Methylation profiling was performed on DNA samples matched to the RNA samples included in the NIH Human Pluripotent Stem Cell Database (Series GSE32923). Nineteen undifferentiated human embryonic stem cell lines and 5 human induced pluripotent stem cells were analyzed. Expanded descriptions of methods used are available at: http://stemcelldb.nih.gov. 24 samples: 19 human ESC (UNDIFFerentiated) and 5 human iPSC (UNDIFFerentiated) lines

ORGANISM(S): Homo sapiens

SUBMITTER: Kory Johnson

PROVIDER: E-GEOD-34869 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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StemCellDB: the human pluripotent stem cell database at the National Institutes of Health.

Mallon Barbara S BS Chenoweth Josh G JG Johnson Kory R KR Hamilton Rebecca S RS Tesar Paul J PJ Yavatkar Amarendra S AS Tyson Leonard J LJ Park Kyeyoon K Chen Kevin G KG Fann Yang C YC McKay Ronald D G RD

Stem cell research 20120926 1

Much of the excitement generated by induced pluripotent stem cell technology is concerned with the possibility of disease modeling as well as the potential for personalized cell therapy. However, to pursue this it is important to understand the 'normal' pluripotent state including its inherent variability. We have performed various molecular profiling assays for 21 hESC lines and 8 hiPSC lines to generate a comprehensive snapshot of the undifferentiated state of pluripotent stem cells. Analysis ...[more]

PMID: 23117585

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The NIH Human Pluripotent Stem Cell Database (Illumina, snp)

Project description:Genotyping was performed on DNA samples matched to the RNA samples included in the NIH Human Pluripotent Stem Cell Database (Series GSE32923). Seventeen undifferentiated human embryonic stem cell lines and 11 human induced pluripotent stem cells were analyzed. Expanded descriptions of methods used are available at: http://stemcelldb.nih.gov. 17 samples: 17 human ESC (UNDIFFerentiated) lines

2012-10-31 | E-GEOD-35157 | biostudies-arrayexpress

The NIH Human Pluripotent Stem Cell Database (Agilent, cgh)

Project description:Array comparative genomic hybridization was performed on DNA samples matched to the RNA samples included in the NIH Human Pluripotent Stem Cell Database (Series GSE32923). Twenty two undifferentiated human embryonic stem cell lines were analyzed. Expanded descriptions of methods used are available at: http://stemcelldb.nih.gov. 22 hybridizations: 10 human male ESC (UNDIFFerentiated) lines vs human male reference, 12 human female ESC (UNDIFFerentiated) lines vs human female reference.

2012-10-31 | E-GEOD-35735 | biostudies-arrayexpress

The NIH Human Pluripotent Stem Cell Database (Agilent, miRNA)

Project description:MicroRNA profiling was performed on RNA samples matched to those included in the NIH Human Pluripotent Stem Cell Database (Series GSE32923). Twenty undifferentiated human embryonic stem cell lines and 4 human tissues were analyzed. Expanded descriptions of methods used are available at: http://stemcelldb.nih.gov. 49 samples: 38 human ESC (UNDIFFerentiated), 1 human Brain, 1 human Heart, 1 human Liver, 1 human Ovary and 7 processing controls (UniRef).

2012-10-31 | E-GEOD-34199 | biostudies-arrayexpress

The NIH Human Pluripotent Stem Cell Database

Project description:This SuperSeries is composed of the following subset Series: GSE32923: The NIH Human Pluripotent Stem Cell Database (Agilent, mRNA) GSE33789: The NIH Human Pluripotent Stem Cell Database (Affymetrix, mRNA) GSE34199: The NIH Human Pluripotent Stem Cell Database (Agilent, miRNA) GSE34869: The NIH Human Pluripotent Stem Cell Database (Illumina, methylation) GSE35157: The NIH Human Pluripotent Stem Cell Database (Illumina, snp) GSE35735: The NIH Human Pluripotent Stem Cell Database (Agilent, cgh) Refer to individual Series

2012-10-31 | E-GEOD-34200 | biostudies-arrayexpress

The NIH Human Pluripotent Stem Cell Database (Affymetrix, mRNA)

Project description:To broaden the appeal of the NIH Stem Cell Database, we analyzed a subset of undifferentiated human embryonic stem cell lines (5 lines in duplicate) on the Affymetrix platform. One standard culture protocol was used in conjunction with rigorous quality control. Expanded description of methods used and are available at: http://stemcelldb.nih.gov. 12 samples: 10 human ESC (UNDIFFiferentiated) and 2 processing controls (UniRef).

2012-10-31 | E-GEOD-33789 | biostudies-arrayexpress

The NIH Human Pluripotent Stem Cell Database (Agilent, miRNA)

2012-10-31 | GSE34199 | GEO

The NIH Human Pluripotent Stem Cell Database (Agilent, cgh)

2012-10-31 | GSE35735 | GEO

The NIH Human Pluripotent Stem Cell Database (Illumina, snp)

2012-10-31 | GSE35157 | GEO

The NIH Human Pluripotent Stem Cell Database (Illumina, methylation)

Project description:Methylation profiling was performed on DNA samples matched to the RNA samples included in the NIH Human Pluripotent Stem Cell Database (Series GSE32923). Nineteen undifferentiated human embryonic stem cell lines and 5 human induced pluripotent stem cells were analyzed. Expanded descriptions of methods used are available at: http://stemcelldb.nih.gov.

2012-10-31 | GSE34869 | GEO

Comparison of the molecular profiles of human embryonic and isogenic induced pluripotent stem cells. [Illumina]

Project description:Many studies have compared the genetic and epigenetic profiles of human induced pluripotent stem cells (hiPSCs) to human embryonic stem cells (hESCs) and yet the picture remains unclear. To address this, we derived a population of neural precursor cells (NPCs) from the H1 (WA01) hESC line and generated isogenic iPSC lines by reprogramming. The gene expression and methylation profile of three lines were compared to the parental line and intermediate NPC population. We found no gene probe with expression that differed significantly between hESC and iPSC samples under undifferentiated or differentiated conditions. Analysis of the global methylation pattern also showed no significant difference between the two PSC populations. Both undifferentiated populations were distinctly different from the intermediate NPC population in both gene expression and methylation profiles. One point to note is that H1 is a male line and so extrapolation to female lines should be cautioned. However, these data confirm our previous findings that there are no significant differences between hESCs and hiPSCs at the gene expression or methylation level. 12 samples: 1 human NPC, 5 human ESC (UNDIFF), 6 human iPSC (UNDIFF)

2014-01-01 | E-GEOD-51747 | biostudies-arrayexpress

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