TrypsNetDB: An integrated framework for the functional characterization of trypanosomatid proteins.
Trypanosomatid parasites cause serious infections in humans and production losses in livestock. Due to the high divergence from other eukaryotes, such as humans and model organisms, the functional roles of many trypanosomatid proteins cannot be predicted by homology-based methods, rendering a signif...
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ftdoajarticles:oai:doaj.org/article:e1945c5a7f07442a83e14ba706895703 2023-05-15T15:06:39+02:00 TrypsNetDB: An integrated framework for the functional characterization of trypanosomatid proteins. Vahid H Gazestani Chun Wai Yip Najmeh Nikpour Natasha Berghuis Reza Salavati 2017-02-01T00:00:00Z https://doi.org/10.1371/journal.pntd.0005368 https://doaj.org/article/e1945c5a7f07442a83e14ba706895703 EN eng Public Library of Science (PLoS) http://europepmc.org/articles/PMC5310917?pdf=render https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0005368 https://doaj.org/article/e1945c5a7f07442a83e14ba706895703 PLoS Neglected Tropical Diseases, Vol 11, Iss 2, p e0005368 (2017) Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 article 2017 ftdoajarticles https://doi.org/10.1371/journal.pntd.0005368 2022-12-31T07:00:08Z Trypanosomatid parasites cause serious infections in humans and production losses in livestock. Due to the high divergence from other eukaryotes, such as humans and model organisms, the functional roles of many trypanosomatid proteins cannot be predicted by homology-based methods, rendering a significant portion of their proteins as uncharacterized. Recent technological advances have led to the availability of multiple systematic and genome-wide datasets on trypanosomatid parasites that are informative regarding the biological role(s) of their proteins. Here, we report TrypsNetDB (http://trypsNetDB.org), a web-based resource for the functional annotation of 16 different species/strains of trypanosomatid parasites. The database not only visualizes the network context of the queried protein(s) in an intuitive way but also examines the response of the represented network in more than 50 different biological contexts and its enrichment for various biological terms and pathways, protein sequence signatures, and potential RNA regulatory elements. The interactome core of the database, as of Jan 23, 2017, contains 101,187 interactions among 13,395 trypanosomatid proteins inferred from 97 genome-wide and focused studies on the interactome of these organisms. Article in Journal/Newspaper Arctic Directory of Open Access Journals: DOAJ Articles Arctic PLOS Neglected Tropical Diseases 11 2 e0005368 |
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Directory of Open Access Journals: DOAJ Articles |
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English |
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Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 |
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Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 Vahid H Gazestani Chun Wai Yip Najmeh Nikpour Natasha Berghuis Reza Salavati TrypsNetDB: An integrated framework for the functional characterization of trypanosomatid proteins. |
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Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 |
description |
Trypanosomatid parasites cause serious infections in humans and production losses in livestock. Due to the high divergence from other eukaryotes, such as humans and model organisms, the functional roles of many trypanosomatid proteins cannot be predicted by homology-based methods, rendering a significant portion of their proteins as uncharacterized. Recent technological advances have led to the availability of multiple systematic and genome-wide datasets on trypanosomatid parasites that are informative regarding the biological role(s) of their proteins. Here, we report TrypsNetDB (http://trypsNetDB.org), a web-based resource for the functional annotation of 16 different species/strains of trypanosomatid parasites. The database not only visualizes the network context of the queried protein(s) in an intuitive way but also examines the response of the represented network in more than 50 different biological contexts and its enrichment for various biological terms and pathways, protein sequence signatures, and potential RNA regulatory elements. The interactome core of the database, as of Jan 23, 2017, contains 101,187 interactions among 13,395 trypanosomatid proteins inferred from 97 genome-wide and focused studies on the interactome of these organisms. |
format |
Article in Journal/Newspaper |
author |
Vahid H Gazestani Chun Wai Yip Najmeh Nikpour Natasha Berghuis Reza Salavati |
author_facet |
Vahid H Gazestani Chun Wai Yip Najmeh Nikpour Natasha Berghuis Reza Salavati |
author_sort |
Vahid H Gazestani |
title |
TrypsNetDB: An integrated framework for the functional characterization of trypanosomatid proteins. |
title_short |
TrypsNetDB: An integrated framework for the functional characterization of trypanosomatid proteins. |
title_full |
TrypsNetDB: An integrated framework for the functional characterization of trypanosomatid proteins. |
title_fullStr |
TrypsNetDB: An integrated framework for the functional characterization of trypanosomatid proteins. |
title_full_unstemmed |
TrypsNetDB: An integrated framework for the functional characterization of trypanosomatid proteins. |
title_sort |
trypsnetdb: an integrated framework for the functional characterization of trypanosomatid proteins. |
publisher |
Public Library of Science (PLoS) |
publishDate |
2017 |
url |
https://doi.org/10.1371/journal.pntd.0005368 https://doaj.org/article/e1945c5a7f07442a83e14ba706895703 |
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Arctic |
geographic_facet |
Arctic |
genre |
Arctic |
genre_facet |
Arctic |
op_source |
PLoS Neglected Tropical Diseases, Vol 11, Iss 2, p e0005368 (2017) |
op_relation |
http://europepmc.org/articles/PMC5310917?pdf=render https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0005368 https://doaj.org/article/e1945c5a7f07442a83e14ba706895703 |
op_doi |
https://doi.org/10.1371/journal.pntd.0005368 |
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PLOS Neglected Tropical Diseases |
container_volume |
11 |
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2 |
container_start_page |
e0005368 |
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1766338213329240064 |