Literature DB >> 33755673

Knowledge Beacons: Web services for data harvesting of distributed biomedical knowledge.

Lance M Hannestad1,2, Vlado Dančík3, Meera Godden1,2, Imelda W Suen1,4, Kenneth C Huellas-Bruskiewicz1,5, Benjamin M Good6, Christopher J Mungall6, Richard M Bruskiewich1.   

Abstract

AVAILABILITY: The API and associated software is open source and currently available for access at https://github.com/NCATS-Tangerine/translator-knowledge-beacon.

Entities:  

Year:  2021        PMID： 33755673      PMCID： PMC7987184          DOI： 10.1371/journal.pone.0231916

Source DB:  PubMed          Journal:  PLoS One        ISSN： 1932-6203            Impact factor:   3.240


  14 in total

1.  SemMedDB: a PubMed-scale repository of biomedical semantic predications.

Authors:  Halil Kilicoglu; Dongwook Shin; Marcelo Fiszman; Graciela Rosemblat; Thomas C Rindflesch
Journal:  Bioinformatics       Date:  2012-10-08       Impact factor: 6.937

2.  SADI, SHARE, and the in silico scientific method.

Authors:  Mark D Wilkinson; Luke McCarthy; Benjamin Vandervalk; David Withers; Edward Kawas; Soroush Samadian
Journal:  BMC Bioinformatics       Date:  2010-12-21       Impact factor: 3.169

3.  SMPDB 2.0: big improvements to the Small Molecule Pathway Database.

Authors:  Timothy Jewison; Yilu Su; Fatemeh Miri Disfany; Yongjie Liang; Craig Knox; Adam Maciejewski; Jenna Poelzer; Jessica Huynh; You Zhou; David Arndt; Yannick Djoumbou; Yifeng Liu; Lu Deng; An Chi Guo; Beomsoo Han; Allison Pon; Michael Wilson; Shahrzad Rafatnia; Philip Liu; David S Wishart
Journal:  Nucleic Acids Res       Date:  2013-11-06       Impact factor: 16.971

4.  Updates in Rhea - an expert curated resource of biochemical reactions.

Authors:  Anne Morgat; Thierry Lombardot; Kristian B Axelsen; Lucila Aimo; Anne Niknejad; Nevila Hyka-Nouspikel; Elisabeth Coudert; Monica Pozzato; Marco Pagni; Sébastien Moretti; Steven Rosanoff; Joseph Onwubiko; Lydie Bougueleret; Ioannis Xenarios; Nicole Redaschi; Alan Bridge
Journal:  Nucleic Acids Res       Date:  2017-04-20       Impact factor: 16.971

5.  Addendum: The FAIR Guiding Principles for scientific data management and stewardship.

Authors:  Mark D Wilkinson; Michel Dumontier; Ijsbrand Jan Aalbersberg; Gabrielle Appleton; Myles Axton; Arie Baak; Niklas Blomberg; Jan-Willem Boiten; Luiz Bonino da Silva Santos; Philip E Bourne; Jildau Bouwman; Anthony J Brookes; Tim Clark; Mercè Crosas; Ingrid Dillo; Olivier Dumon; Scott Edmunds; Chris T Evelo; Richard Finkers; Alejandra Gonzalez-Beltran; Alasdair J G Gray; Paul Groth; Carole Goble; Jeffrey S Grethe; Jaap Heringa; Peter A C 't Hoen; Rob Hooft; Tobias Kuhn; Ruben Kok; Joost Kok; Scott J Lusher; Maryann E Martone; Albert Mons; Abel L Packer; Bengt Persson; Philippe Rocca-Serra; Marco Roos; Rene van Schaik; Susanna-Assunta Sansone; Erik Schultes; Thierry Sengstag; Ted Slater; George Strawn; Morris A Swertz; Mark Thompson; Johan van der Lei; Erik van Mulligen; Andra Waagmeester; Peter Wittenburg; Katherine Wolstencroft; Jun Zhao; Barend Mons
Journal:  Sci Data       Date:  2019-03-19       Impact factor: 6.444

6.  Toward A Universal Biomedical Data Translator.

Authors: 
Journal:  Clin Transl Sci       Date:  2018-11-09       Impact factor: 4.689

7.  Cytoscape Automation: empowering workflow-based network analysis.

Authors:  David Otasek; John H Morris; Jorge Bouças; Alexander R Pico; Barry Demchak
Journal:  Genome Biol       Date:  2019-09-02       Impact factor: 13.583

8.  The Monarch Initiative in 2019: an integrative data and analytic platform connecting phenotypes to genotypes across species.

Authors:  Kent A Shefchek; Nomi L Harris; Michael Gargano; Nicolas Matentzoglu; Deepak Unni; Matthew Brush; Daniel Keith; Tom Conlin; Nicole Vasilevsky; Xingmin Aaron Zhang; James P Balhoff; Larry Babb; Susan M Bello; Hannah Blau; Yvonne Bradford; Seth Carbon; Leigh Carmody; Lauren E Chan; Valentina Cipriani; Alayne Cuzick; Maria Della Rocca; Nathan Dunn; Shahim Essaid; Petra Fey; Chris Grove; Jean-Phillipe Gourdine; Ada Hamosh; Midori Harris; Ingo Helbig; Maureen Hoatlin; Marcin Joachimiak; Simon Jupp; Kenneth B Lett; Suzanna E Lewis; Craig McNamara; Zoë M Pendlington; Clare Pilgrim; Tim Putman; Vida Ravanmehr; Justin Reese; Erin Riggs; Sofia Robb; Paola Roncaglia; James Seager; Erik Segerdell; Morgan Similuk; Andrea L Storm; Courtney Thaxon; Anne Thessen; Julius O B Jacobsen; Julie A McMurry; Tudor Groza; Sebastian Köhler; Damian Smedley; Peter N Robinson; Christopher J Mungall; Melissa A Haendel; Monica C Munoz-Torres; David Osumi-Sutherland
Journal:  Nucleic Acids Res       Date:  2020-01-08       Impact factor: 16.971

9.  The FAIR Guiding Principles for scientific data management and stewardship.

Authors:  Mark D Wilkinson; Michel Dumontier; I Jsbrand Jan Aalbersberg; Gabrielle Appleton; Myles Axton; Arie Baak; Niklas Blomberg; Jan-Willem Boiten; Luiz Bonino da Silva Santos; Philip E Bourne; Jildau Bouwman; Anthony J Brookes; Tim Clark; Mercè Crosas; Ingrid Dillo; Olivier Dumon; Scott Edmunds; Chris T Evelo; Richard Finkers; Alejandra Gonzalez-Beltran; Alasdair J G Gray; Paul Groth; Carole Goble; Jeffrey S Grethe; Jaap Heringa; Peter A C 't Hoen; Rob Hooft; Tobias Kuhn; Ruben Kok; Joost Kok; Scott J Lusher; Maryann E Martone; Albert Mons; Abel L Packer; Bengt Persson; Philippe Rocca-Serra; Marco Roos; Rene van Schaik; Susanna-Assunta Sansone; Erik Schultes; Thierry Sengstag; Ted Slater; George Strawn; Morris A Swertz; Mark Thompson; Johan van der Lei; Erik van Mulligen; Jan Velterop; Andra Waagmeester; Peter Wittenburg; Katherine Wolstencroft; Jun Zhao; Barend Mons
Journal:  Sci Data       Date:  2016-03-15       Impact factor: 6.444

10.  CyREST: Turbocharging Cytoscape Access for External Tools via a RESTful API.

Authors:  Keiichiro Ono; Tanja Muetze; Georgi Kolishovski; Paul Shannon; Barry Demchak
Journal:  F1000Res       Date:  2015-08-05
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