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Series GSE85828 Query DataSets for GSE85828
Status Public on Aug 20, 2016
Title Molecular, Phenotypic, and Sample-associated Data to Describe Pluripotent Stem Cell Lines and Derivatives
Organism Homo sapiens
Experiment type Methylation profiling by array
Summary The use of induced pluripotent stem cells (iPSC) derived from independent patients and sources holds considerable promise to improve the understanding of development and disease. However, optimized use of iPSC depends on our ability to develop methods to efficiently qualify cell lines and protocols, monitor genetic stability, and evaluate self-renewal and differentiation potential. To accomplish these goals, 57 stem cell lines from 10 laboratories were differentiated to 7 different states, resulting in 248 analyzed samples. Cell lines were differentiated and characterized at a central laboratory using standardized cell culture methodologies, protocols, and metadata descriptors. Stem cell and derived differentiated lines were characterized using RNA-seq, miRNA-seq, copy number arrays, DNA methylation arrays, flow cytometry, and molecular histology. All materials, including raw data, metadata, analysis and processing code, and methodological and provenance documentation are publicly available for re-use and interactive exploration at https://www.synapse.org/pcbc . The goal is to provide data that can improve our ability to robustly and reproducibly use human pluripotent stem cells to understand development and disease.
 
Overall design 114 samples
This submission represents DNA methylation component of study.
 
Contributor(s) Daily K
Citation missing Has this study been published? Please login to update or notify GEO.
BioProject PRJNA338817
Submission date Aug 19, 2016
Last update date Mar 22, 2019
Contact name Kenneth Daily
Organization name Sage Bionetworks
Street address 1100 Fairview Ave N
City Seattle
State/province WA
ZIP/Postal code 98109
Country USA
 
Platforms (1)
GPL13534 Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482)
Samples (114)
GSM2285106 SC14-069 MESO-5 [3999442133_R01C01]
GSM2285107 SC14-070 EB [3999442133_R01C02]
GSM2285108 SC14-067 ECTO [3999442133_R02C01]

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE85828_RAW.tar 1.1 Gb (http)(custom) TAR (of IDAT)
GSE85828_non-normalized.txt.gz 255.6 Mb (ftp)(http) TXT
Processed data included within Sample table
Raw data are available on Series record
Raw data provided as supplementary file

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