TY - JOUR
T1 - Integrated Genomic Analysis of Diverse Induced Pluripotent Stem Cells from the Progenitor Cell Biology Consortium
AU - Salomonis, Nathan
AU - Dexheimer, Phillip J.
AU - Omberg, Larsson
AU - Schroll, Robin
AU - Bush, Stacy
AU - Huo, Jeffrey
AU - Schriml, Lynn
AU - Ho Sui, Shannan
AU - Keddache, Mehdi
AU - Mayhew, Christopher
AU - Shanmukhappa, Shiva Kumar
AU - Wells, James
AU - Daily, Kenneth
AU - Hubler, Shane
AU - Wang, Yuliang
AU - Zambidis, Elias
AU - Margolin, Adam
AU - Hide, Winston
AU - Hatzopoulos, Antonis K.
AU - Malik, Punam
AU - Cancelas, Jose A.
AU - Aronow, Bruce J.
AU - Lutzko, Carolyn
N1 - Funding Information:
The authors thank the PCBC line contributors in Table S1; Dr. Michael Terrin, Ling Tang, Andrea Lefever, and Liz Casher from the Administrative Coordinating Center; and Dr. Elke Grassman and Diana Nordling from the CCHMC Translational Core Laboratories for support. This work was supported by the NHLBI Progenitor Cell Biology Consortium, Administrative Coordinating Center ( U01HL099997 ), Cell Characterization Core, Bioinformatics Core, and PCBC2012Pilot_01. Other support was provided by the National Heart, Lung, and Blood Institute (NHLBI) ( U01HL099775 ), the National Institute for Child Health and Human Development (NICHD) ( R01HD082098 ), the National Institute General Medical Sciences (NIGMS) ( R01GM110628 ), and the National Eye Institute (NEI) ( R01EY023962 ). Under a licensing agreement between Life Technologies Corporation and the Johns Hopkins University, E.Z. is entitled to a share of royalty received by the University on sales of human induced pluripotent stem cell lines. The terms of this arrangement are being managed by the Johns Hopkins University in accordance with its Conflict of Interest policies.
Publisher Copyright:
© 2016 The Authors
PY - 2016/7/12
Y1 - 2016/7/12
N2 - The rigorous characterization of distinct induced pluripotent stem cells (iPSC) derived from multiple reprogramming technologies, somatic sources, and donors is required to understand potential sources of variability and downstream potential. To achieve this goal, the Progenitor Cell Biology Consortium performed comprehensive experimental and genomic analyses of 58 iPSC from ten laboratories generated using a variety of reprogramming genes, vectors, and cells. Associated global molecular characterization studies identified functionally informative correlations in gene expression, DNA methylation, and/or copy-number variation among key developmental and oncogenic regulators as a result of donor, sex, line stability, reprogramming technology, and cell of origin. Furthermore, X-chromosome inactivation in PSC produced highly correlated differences in teratoma-lineage staining and regulator expression upon differentiation. All experimental results, and raw, processed, and metadata from these analyses, including powerful tools, are interactively accessible from a new online portal at https://www.synapse.org to serve as a reusable resource for the stem cell community.
AB - The rigorous characterization of distinct induced pluripotent stem cells (iPSC) derived from multiple reprogramming technologies, somatic sources, and donors is required to understand potential sources of variability and downstream potential. To achieve this goal, the Progenitor Cell Biology Consortium performed comprehensive experimental and genomic analyses of 58 iPSC from ten laboratories generated using a variety of reprogramming genes, vectors, and cells. Associated global molecular characterization studies identified functionally informative correlations in gene expression, DNA methylation, and/or copy-number variation among key developmental and oncogenic regulators as a result of donor, sex, line stability, reprogramming technology, and cell of origin. Furthermore, X-chromosome inactivation in PSC produced highly correlated differences in teratoma-lineage staining and regulator expression upon differentiation. All experimental results, and raw, processed, and metadata from these analyses, including powerful tools, are interactively accessible from a new online portal at https://www.synapse.org to serve as a reusable resource for the stem cell community.
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U2 - 10.1016/j.stemcr.2016.05.006
DO - 10.1016/j.stemcr.2016.05.006
M3 - Article
C2 - 27293150
AN - SCOPUS:84992166098
SN - 2213-6711
VL - 7
SP - 110
EP - 125
JO - Stem Cell Reports
JF - Stem Cell Reports
IS - 1
ER -