Zobrazeno 1 - 10
of 26
pro vyhledávání: '"Christopher J Lanczycki"'
Autor:
Jiyao Wang, Farideh Chitsaz, Myra K Derbyshire, Noreen R Gonzales, Marc Gwadz, Shennan Lu, Gabriele H Marchler, James S Song, Narmada Thanki, Roxanne A Yamashita, Mingzhang Yang, Dachuan Zhang, Chanjuan Zheng, Christopher J Lanczycki, Aron Marchler-Bauer
Publikováno v:
Nucleic Acids Res
NLM’s conserved domain database (CDD) is a collection of protein domain and protein family models constructed as multiple sequence alignments. Its main purpose is to provide annotation for protein and translated nucleotide sequences with the locati
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a23e8d285740f47fa03d9ff6ed76ca9e
https://pubmed.ncbi.nlm.nih.gov/36477806
https://pubmed.ncbi.nlm.nih.gov/36477806
Autor:
Farideh Chitsaz, Narmada Thanki, A Scott Durkin, Azat Badretdin, Jiyao Wang, Wenjun Li, Marc Gwadz, James S. Song, George Coulouris, Françoise Thibaud-Nissen, Kathleen R O’Neill, Michael DiCuccio, Aron Marchler-Bauer, Christopher J. Lanczycki, Noreen R. Gonzales, Mingzhang Yang, Chanjuan Zheng, Vyacheslav Chetvernin, Daniel H. Haft, Myra K. Derbyshire, Roxanne A. Yamashita
Publikováno v:
Nucleic Acids Res
The Reference Sequence (RefSeq) project at the National Center for Biotechnology Information (NCBI) contains nearly 200 000 bacterial and archaeal genomes and 150 million proteins with up-to-date annotation. Changes in the Prokaryotic Genome Annotati
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f4abe9be36ae164020859ea6292a580f
https://doi.org/10.1093/nar/gkaa1105
https://doi.org/10.1093/nar/gkaa1105
Autor:
Gabriele H. Marchler, Jiyao Wang, Farideh Chitsaz, Chanjuan Zheng, Mingzhang Yang, Christopher J. Lanczycki, Aron Marchler-Bauer, Noreen R. Gonzales, Renata C. Geer, Marc Gwadz, Narmada Thanki, Myra K. Derbyshire, Shennan Lu, James S. Song, Dachuan Zhang, Roxanne A. Yamashita, David I. Hurwitz
As NLM’s Conserved Domain Database (CDD) enters its 20th year of operations as a publicly available resource, CDD curation staff continues to develop hierarchical classifications of widely distributed protein domain families, and to record conserve
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::02467eba4b85828c38c5e5c811539d4c
https://europepmc.org/articles/PMC6943070/
https://europepmc.org/articles/PMC6943070/
Publikováno v:
Database: The Journal of Biological Databases and Curation
For optimal performance, machine learning methods for protein sequence/structural analysis typically require as input a large multiple sequence alignment (MSA), which is often created using query-based iterative programs, such as PSI-BLAST or JackHMM
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::0406cd07c5642bd01ed31a9d946c2fb0
https://pubmed.ncbi.nlm.nih.gov/32500917
https://pubmed.ncbi.nlm.nih.gov/32500917
Autor:
Stephen H. Bryant, Dachuan Zhang, Yanli Wang, Philippe Youkharibache, Renata C. Geer, Christopher J. Lanczycki, Gabriele H. Marchler, Lewis Y. Geer, Jiyao Wang, Lon Phan, Shennan Lu, Thomas Madej, Minghong Ward, Aron Marchler-Bauer
SummaryiCn3D (I-see-in-3D) is a web-based 3D molecular structure viewer focusing on the interactive structural analysis. It can simultaneously show 3D structure, 2D molecular contacts, and 1D protein and nucleotide sequences through an integrated seq
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f4e83e8d76416eff56cc2e4bf864aab7
https://doi.org/10.1101/501692
https://doi.org/10.1101/501692
Autor:
Renata C. Geer, Aron Marchler-Bauer, Paul A. Thiessen, Christopher J. Lanczycki, Stephen H. Bryant, Dachuan Zhang, Thomas Madej
Publikováno v:
Nucleic Acids Research
The computational detection of similarities between protein 3D structures has become an indispensable tool for the detection of homologous relationships, the classification of protein families and functional inference. Consequently, numerous algorith
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b6a5a035130f43853ad19cabb72f0457
http://europepmc.org/articles/PMC3965051
http://europepmc.org/articles/PMC3965051
Autor:
James S. Song, Yu Bo, Narmada Thanki, Dachuan Zhang, Zhouxi Wang, Jane He, Myra K. Derbyshire, Roxanne A. Yamashita, Stephen H. Bryant, Farideh Chitsaz, Noreen R. Gonzales, Lianyi Han, Lewis Y. Geer, Aron Marchler-Bauer, Chanjuan Zheng, Christopher J. Lanczycki, Marc Gwadz, Renata C. Geer, Fu Lu, Gabriele H. Marchler, Shennan Lu, David I. Hurwitz
Publikováno v:
Nucleic Acids Research
NCBI's Conserved Domain Database (CDD) aims at annotating biomolecular sequences with the location of evolutionarily conserved protein domain footprints, and functional sites inferred from such footprints. An archive of pre-computed domain annotation
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9c30d634a911db3a43593b0153fe530a
https://pubmed.ncbi.nlm.nih.gov/27899674
https://pubmed.ncbi.nlm.nih.gov/27899674
Autor:
David I. Hurwitz, Christopher J. Lanczycki, Noreen R. Gonzales, Stephen H. Bryant, Farideh Chitsaz, James S. Song, Marc Gwadz, Gabriele H. Marchler, Narmada Thanki, Lewis Y. Geer, Dachuan Zhang, Renata C. Geer, Fu Lu, Chanjuan Zheng, Roxanne A. Yamashita, Myra K. Derbyshire, Aron Marchler-Bauer, Shennan Lu
Publikováno v:
Nucleic Acids Research
CDD, the Conserved Domain Database, is part of NCBI’s Entrez query and retrieval system and is also accessible via http://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml. CDD provides annotation of protein sequences with the location of conserved doma
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::787c383621913c688df271dad84f6428
http://europepmc.org/articles/PMC3531192
http://europepmc.org/articles/PMC3531192
Autor:
Chunlei Liu, Renata C. Geer, Kenneth J. Addess, Anna R. Panchenko, Lewis Y. Geer, Thomas Madej, Stephen H. Bryant, Aron Marchler-Bauer, Christopher J. Lanczycki, Shennan Lu, Jie Chen, Jessica H. Fong, Dachuan Zhang, Yanli Wang, Paul A. Thiessen
Publikováno v:
Nucleic Acids Research
Close to 60% of protein sequences tracked in comprehensive databases can be mapped to a known three-dimensional (3D) structure by standard sequence similarity searches. Potentially, a great deal can be learned about proteins or protein families of in
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d29ecd5a142c81cda012cb91e5a433f2
http://europepmc.org/articles/PMC3245041
http://europepmc.org/articles/PMC3245041
Autor:
Fu-Ping Lu, Carol DeWeese-Scott, John B. Anderson, James S. Song, Christopher J. Lanczycki, Zhaoxi Ke, Farideh Chitsaz, John D. Jackson, Mikhail Mullokandov, Roxanne A. Yamashita, Aron Marchler-Bauer, Marina V. Omelchenko, Chanjuan Zheng, Naigong Zhang, Noreen R. Gonzales, Marc Gwadz, Cynthia L. Robertson, Stephen H. Bryant, Gabriele H. Marchler, Jessica H. Fong, David I. Hurwitz, Lewis Y. Geer, Narmada Thanki, Renata C. Geer, Dachuan Zhang, Myra K. Derbyshire, Shennan Lu
Publikováno v:
Nucleic Acids Research
NCBI's Conserved Domain Database (CDD) is a resource for the annotation of protein sequences with the location of conserved domain footprints, and functional sites inferred from these footprints. CDD includes manually curated domain models that make
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::4f2c026177984fae9f84c055b453ce27
http://europepmc.org/articles/PMC3013737
http://europepmc.org/articles/PMC3013737