Literature DB >> 29761467

Using WormBase ParaSite: An Integrated Platform for Exploring Helminth Genomic Data.

Bruce J Bolt1, Faye H Rodgers2, Myriam Shafie2, Paul J Kersey1, Matthew Berriman2, Kevin L Howe3.   

Abstract

WormBase ParaSite ( parasite.wormbase.org ) is a comprehensive resource for the genomes of parasitic nematodes and flatworms (helminths). It currently includes genomic data for over 100 helminth species, adding value by way of consistent functional annotation, gene comparative analysis and gene expression analysis. We provide several ways of exploring the data including a choice of genome browsers, genome and gene summary pages, text and sequence searching, a query wizard, bulk downloads, and programmatic interfaces. WormBase ParaSite is released three to six times per year, and is developed in collaboration with WormBase ( www.wormbase.org ) and Ensembl Genomes ( www.ensemblgenomes.org ).

Keywords:  Comparative genomics; Ensembl; Functional genomics; Genome browser; Helminths; Parasitology; WormBase

Mesh：

Year:  2018        PMID： 29761467     DOI： 10.1007/978-1-4939-7737-6_15

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  13 in total

1.  Multiple Pristionchus pacificus genomes reveal distinct evolutionary dynamics between de novo candidates and duplicated genes.

Authors:  Neel Prabh; Christian Rödelsperger
Journal:  Genome Res       Date:  2022-05-26       Impact factor: 9.438

2.  Large CRISPR-Cas-induced deletions in the oxamniquine resistance locus of the human parasite Schistosoma mansoni.

Authors:  Geetha Sankaranarayanan; Avril Coghlan; Patrick Driguez; Magda E Lotkowska; Mandy Sanders; Nancy Holroyd; Alan Tracey; Matthew Berriman; Gabriel Rinaldi
Journal:  Wellcome Open Res       Date:  2021-01-20

3.  Screening by deep sequencing reveals mediators of microRNA tailing in C. elegans.

Authors:  Karl-Frédéric Vieux; Katherine P Prothro; Leanne H Kelley; Cameron Palmer; Eleanor M Maine; Isana Veksler-Lublinsky; Katherine McJunkin
Journal:  Nucleic Acids Res       Date:  2021-11-08       Impact factor: 16.971

4.  A highly expressed intestinal cysteine protease of Ancylostoma ceylanicum protects vaccinated hamsters from hookworm infection.

Authors:  Jason B Noon; Erich M Schwarz; Gary R Ostroff; Raffi V Aroian
Journal:  PLoS Negl Trop Dis       Date:  2019-04-22

5.  The major secreted protein of the whipworm parasite tethers to matrix and inhibits interleukin-13 function.

Authors:  Allison J Bancroft; Colin W Levy; Thomas A Jowitt; Kelly S Hayes; Seona Thompson; Edward A Mckenzie; Matthew D Ball; Eamon Dubaissi; Aidan P France; Bruno Bellina; Catherine Sharpe; Aleksandr Mironov; Sheila L Brown; Peter C Cook; Andrew S MacDonald; David J Thornton; Richard K Grencis
Journal:  Nat Commun       Date:  2019-05-28       Impact factor: 14.919

6.  Identification of small molecule enzyme inhibitors as broad-spectrum anthelmintics.

Authors:  Rahul Tyagi; Mostafa A Elfawal; Scott A Wildman; Jon Helander; Christina A Bulman; Judy Sakanari; Bruce A Rosa; Paul J Brindley; James W Janetka; Raffi V Aroian; Makedonka Mitreva
Journal:  Sci Rep       Date:  2019-06-24       Impact factor: 4.379

7.  TDR Targets 6: driving drug discovery for human pathogens through intensive chemogenomic data integration.

Authors:  Lionel Urán Landaburu; Ariel J Berenstein; Santiago Videla; Parag Maru; Dhanasekaran Shanmugam; Ariel Chernomoretz; Fernán Agüero
Journal:  Nucleic Acids Res       Date:  2020-01-08       Impact factor: 16.971

8.  UniProt: the universal protein knowledgebase in 2021.

Authors: 
Journal:  Nucleic Acids Res       Date:  2021-01-08       Impact factor: 16.971

9.  Transcriptional profiles in Strongyloides stercoralis males reveal deviations from the Caenorhabditis sex determination model.

Authors:  Damia Gonzalez Akimori; Emily J Dalessandro; Thomas J Nolan; Christopher R Stieha; James B Lok; Jonathan D C Stoltzfus
Journal:  Sci Rep       Date:  2021-04-15       Impact factor: 4.379

10.  RNA-Guided AsCas12a- and SpCas9-Catalyzed Knockout and Homology Directed Repair of the Omega-1 Locus of the Human Blood Fluke, Schistosoma mansoni.

Authors:  Wannaporn Ittiprasert; Chawalit Chatupheeraphat; Victoria H Mann; Wenhui Li; André Miller; Taiwo Ogunbayo; Kenny Tran; Yousef N Alrefaei; Margaret Mentink-Kane; Paul J Brindley
Journal:  Int J Mol Sci       Date:  2022-01-06       Impact factor: 5.923
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