The Nucleome Data Bank: Web-based resources to simulate and analyze the three-dimensional genome

Registro completo de metadados
MetadadosDescriçãoIdioma
Autor(es): dc.contributorRice University-
Autor(es): dc.contributorBrazilian Center for Research in Energy and Materials-CNPEM-
Autor(es): dc.contributorUniversidade Estadual Paulista (Unesp)-
Autor(es): dc.contributorUniversity of Houston-
Autor(es): dc.contributorUniversity of Costa Rica-
Autor(es): dc.contributorMilitary Institute of Engineering-
Autor(es): dc.contributorBaylor College of Medicine-
Autor(es): dc.contributorNortheastern University-
Autor(es): dc.creatorContessoto, Vinícius G. [UNESP]-
Autor(es): dc.creatorCheng, Ryan R.-
Autor(es): dc.creatorHajitaheri, Arya-
Autor(es): dc.creatorDodero-Rojas, Esteban-
Autor(es): dc.creatorMello, Matheus F.-
Autor(es): dc.creatorLieberman-Aiden, Erez-
Autor(es): dc.creatorWolynes, Peter G.-
Autor(es): dc.creatorDi Pierro, Michele-
Autor(es): dc.creatorOnuchic, José N.-
Data de aceite: dc.date.accessioned2022-02-22T00:44:20Z-
Data de disponibilização: dc.date.available2022-02-22T00:44:20Z-
Data de envio: dc.date.issued2021-06-25-
Data de envio: dc.date.issued2021-06-25-
Data de envio: dc.date.issued2021-01-07-
Fonte completa do material: dc.identifierhttp://dx.doi.org/10.1093/nar/gkaa818-
Fonte completa do material: dc.identifierhttp://hdl.handle.net/11449/205441-
Fonte: dc.identifier.urihttp://educapes.capes.gov.br/handle/11449/205441-
Descrição: dc.descriptionWe introduce the Nucleome Data Bank (NDB), a web-based platform to simulate and analyze the three-dimensional (3D) organization of genomes. The NDB enables physics-based simulation of chromosomal structural dynamics through the MEGABASE + MiChroM computational pipeline. The input of the pipeline consists of epigenetic information sourced from the Encode database; the output consists of the trajectories of chromosomal motions that accurately predict Hi-C and fluorescence insitu hybridization data, as well as multiple observations of chromosomal dynamics in vivo. As an intermediate step, users can also generate chromosomal sub-compartment annotations directly from the same epigenetic input, without the use of any DNA-DNA proximity ligation data. Additionally, the NDB freely hosts both experimental and computational structural genomics data. Besides being able to perform their own genome simulations and download the hosted data, users can also analyze and visualize the same data through custom-designed web-based tools. In particular, the one-dimensional genetic and epigenetic data can be overlaid onto accurate 3D structures of chromosomes, to study the spatial distribution of genetic and epigenetic features. The NDB aims to be a shared resource to biologists, biophysicists and all genome scientists. The NDB is available at https://ndb.rice.edu.-
Descrição: dc.descriptionWelch Foundation-
Descrição: dc.descriptionNational Science Foundation-
Descrição: dc.descriptionCenter for Theoretical Biological Physics Rice University-
Descrição: dc.descriptionBrazilian Biorenewables National Laboratory-LNBR Brazilian Center for Research in Energy and Materials-CNPEM-
Descrição: dc.descriptionDepartment of Physics São Paulo State University (UNESP) Institute of Biosciences Humanities and Exact Sciences-
Descrição: dc.descriptionDepartment of Computer Science University of Houston-
Descrição: dc.descriptionTheoretical and Computational Physics Laboratory University of Costa Rica-
Descrição: dc.descriptionChemical Engineering Department Military Institute of Engineering-
Descrição: dc.descriptionThe Center for Genome Architecture Department of Molecular and Human Genetics Baylor College of Medicine-
Descrição: dc.descriptionDepartment of Physics and Astronomy Rice University-
Descrição: dc.descriptionDepartment of Chemistry Rice University-
Descrição: dc.descriptionDepartment of Biosciences Rice University-
Descrição: dc.descriptionDepartment of Physics Northeastern University-
Descrição: dc.descriptionDepartment of Physics São Paulo State University (UNESP) Institute of Biosciences Humanities and Exact Sciences-
Descrição: dc.descriptionWelch Foundation: C-0016-
Descrição: dc.descriptionWelch Foundation: C-1792-
Descrição: dc.descriptionNational Science Foundation: CHE-1614101-
Descrição: dc.descriptionNational Science Foundation: PHY-2019745-
Formato: dc.formatD172-D182-
Idioma: dc.languageen-
Relação: dc.relationNucleic Acids Research-
???dc.source???: dc.sourceScopus-
Título: dc.titleThe Nucleome Data Bank: Web-based resources to simulate and analyze the three-dimensional genome-
Tipo de arquivo: dc.typelivro digital-
Aparece nas coleções:Repositório Institucional - Unesp

Não existem arquivos associados a este item.