There is a shared need for genomic and other high dimensional data analysis among project investigators. The Bioinformatics Core will establish a centralized, intelligent and robust computational platform for high dimensional data analysis powered by a well-developed open source software code base that will integrate novel techniques to more quantitatively map chromatin and epigenetic changes during aging. To accelerate the computational aims of this Program Project, the Core will lead a collaborative endeavor 1) to improve data accessibility and security by implementing a NIH and GEO compliant database solution, 2) to promote bioinformatics collaboration and reproducibility by implementing an application programming interface (API) that interconnects analysis software and establishes a shared and well documented development and analysis language, and 3) to enable facile data exploration and interpretation by creating web based portals for project specific data analysis and visualization. Through these Aims, this central resource for the Molecular Regulation of Stem Cell Aging Program Project will promote intra-lab interactions and coordinate high dimensional data analysis to help meet the broader goals of better understanding the epigenetic regulation of aging in stem cells.

Agency
National Institute of Health (NIH)
Institute
National Institute on Aging (NIA)
Type
Research Program Projects (P01)
Project #
2P01AG036695-06
Application #
9211410
Study Section
Special Emphasis Panel (ZAG1-ZIJ-7 (O2))
Project Start
Project End
Budget Start
2017-05-01
Budget End
2018-04-30
Support Year
6
Fiscal Year
2017
Total Cost
$141,835
Indirect Cost
$14,250
Name
Stanford University
Department
Type
Domestic Higher Education
DUNS #
009214214
City
Stanford
State
CA
Country
United States
Zip Code
94304
Liu, Ling; Charville, Gregory W; Cheung, Tom H et al. (2018) Impaired Notch Signaling Leads to a Decrease in p53 Activity and Mitotic Catastrophe in Aged Muscle Stem Cells. Cell Stem Cell 23:544-556.e4
Jeong, Mira; Park, Hyun Jung; Celik, Hamza et al. (2018) Loss of Dnmt3a Immortalizes Hematopoietic Stem Cells In Vivo. Cell Rep 23:1-10
Quarta, Marco; Cromie Lear, Melinda J; Blonigan, Justin et al. (2018) Biomechanics show stem cell necessity for effective treatment of volumetric muscle loss using bioengineered constructs. NPJ Regen Med 3:18
Tabula Muris Consortium; Overall coordination; Logistical coordination et al. (2018) Single-cell transcriptomics of 20 mouse organs creates a Tabula Muris. Nature 562:367-372
Paulk, Nicole K; Pekrun, Katja; Charville, Gregory W et al. (2018) Bioengineered Viral Platform for Intramuscular Passive Vaccine Delivery to Human Skeletal Muscle. Mol Ther Methods Clin Dev 10:144-155
Wosczyna, Michael N; Rando, Thomas A (2018) A Muscle Stem Cell Support Group: Coordinated Cellular Responses in Muscle Regeneration. Dev Cell 46:135-143
Dulken, Ben W; Brunet, Anne (2018) Same path, different beginnings. Nat Neurosci 21:159-160
Leeman, Dena S; Hebestreit, Katja; Ruetz, Tyson et al. (2018) Lysosome activation clears aggregates and enhances quiescent neural stem cell activation during aging. Science 359:1277-1283
Judson, Robert N; Quarta, Marco; Oudhoff, Menno J et al. (2018) Inhibition of Methyltransferase Setd7 Allows the In Vitro Expansion of Myogenic Stem Cells with Improved Therapeutic Potential. Cell Stem Cell 22:177-190.e7
Nakayama, Karina H; Alcazar, Cynthia; Yang, Guang et al. (2018) Rehabilitative exercise and spatially patterned nanofibrillar scaffolds enhance vascularization and innervation following volumetric muscle loss. NPJ Regen Med 3:16

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