Abstract

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Public Health Relevance

This project involves development and application of new multiscale computational methods to study the organization of chromosomes in the cell and the structure and activity of RNAs. A linking of the many relevant biological scales is essential for understanding the complex biological activities of these macromolecules in the cellular environment which affect fundamental processes including gene expression and cell differentiation and development. An improved understanding of these structures and dynamics of the genetic material (DNA) and of its RNA cousin, together will establishment of systematic methods for their study, advances the diagnosis and treatment of human diseases such as genetic syndromes, degenerative diseases, and cancers associated with chromosomal or epigenetic abnormalities through molecular design and targeted therapies.

  Funding Agency

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Unknown (R35)
Project #
5R35GM122562-02
Application #
9552891
Study Section
Special Emphasis Panel (ZGM1)
Program Officer
Preusch, Peter
Project Start
2017-09-01
Project End
2022-05-31
Budget Start
2018-06-01
Budget End
2019-05-31
Support Year
2
Fiscal Year
2018
Total Cost
Indirect Cost

  Institution

Name
New York University
Department
Chemistry
Type
Schools of Arts and Sciences
DUNS #
041968306
City
New York
State
NY
Country
United States
Zip Code
10012

  Publications

Jain, Swati; Bayrak, Cigdem S; Petingi, Louis et al. (2018) Dual Graph Partitioning Highlights a Small Group of Pseudoknot-Containing RNA Submotifs. Genes (Basel) 9:
Bascom, Gavin D; Schlick, Tamar (2018) Chromatin Fiber Folding Directed by Cooperative Histone Tail Acetylation and Linker Histone Binding. Biophys J 114:2376-2385
Schlick, Tamar (2018) Adventures with RNA graphs. Methods 143:16-33
Jain, Swati; Laederach, Alain; V Ramos, Silvia B et al. (2018) A pipeline for computational design of novel RNA-like topologies. Nucleic Acids Res 46:7040-7051
Schlick, Tamar; Pyle, Anna Marie (2017) Opportunities and Challenges in RNA Structural Modeling and Design. Biophys J 113:225-234
Bascom, Gavin; Schlick, Tamar (2017) Linking Chromatin Fibers to Gene Folding by Hierarchical Looping. Biophys J 112:434-445
Jain, Swati; Schlick, Tamar (2017) F-RAG: Generating Atomic Coordinates from RNA Graphs by Fragment Assembly. J Mol Biol 429:3587-3605