Literature DB >> 33816986

Search, access, and explore life science nanopublications on the Web.

Fabio Giachelle1, Dennis Dosso1, Gianmaria Silvello1.   

Abstract

Nanopublications are Resource Description Framework (RDF) graphs encoding scientific facts extracted from the literature and enriched with provenance and attribution information. There are millions of nanopublications currently available on the Web, especially in the life science domain. Nanopublications are thought to facilitate the discovery, exploration, and re-use of scientific facts. Nevertheless, they are still not widely used by scientists outside specific circles; they are hard to find and rarely cited. We believe this is due to the lack of services to seek, find and understand nanopublications' content. To this end, we present the NanoWeb application to seamlessly search, access, explore, and re-use the nanopublications publicly available on the Web. For the time being, NanoWeb focuses on the life science domain where the vastest amount of nanopublications are available. It is a unified access point to the world of nanopublications enabling search over graph data, direct connections to evidence papers, and scientific curated databases, and visual and intuitive exploration of the relation network created by the encoded scientific facts.
© 2021 Giachelle et al.

Entities:  

Keywords:  Data access; Data citation; Data exploration; Data search; Graph exploration; Nanopublication; Scientific data

Year:  2021        PMID: 33816986      PMCID: PMC7959622          DOI: 10.7717/peerj-cs.335

Source DB:  PubMed          Journal:  PeerJ Comput Sci        ISSN: 2376-5992


  10 in total

1.  The value of data.

Authors:  Barend Mons; Herman van Haagen; Christine Chichester; Peter-Bram 't Hoen; Johan T den Dunnen; Gertjan van Ommen; Erik van Mulligen; Bharat Singh; Rob Hooft; Marco Roos; Joel Hammond; Bruce Kiesel; Belinda Giardine; Jan Velterop; Paul Groth; Erik Schultes
Journal:  Nat Genet       Date:  2011-03-29       Impact factor: 38.330

2.  A pathology atlas of the human cancer transcriptome.

Authors:  Mathias Uhlen; Cheng Zhang; Sunjae Lee; Evelina Sjöstedt; Linn Fagerberg; Gholamreza Bidkhori; Rui Benfeitas; Muhammad Arif; Zhengtao Liu; Fredrik Edfors; Kemal Sanli; Kalle von Feilitzen; Per Oksvold; Emma Lundberg; Sophia Hober; Peter Nilsson; Johanna Mattsson; Jochen M Schwenk; Hans Brunnström; Bengt Glimelius; Tobias Sjöblom; Per-Henrik Edqvist; Dijana Djureinovic; Patrick Micke; Cecilia Lindskog; Adil Mardinoglu; Fredrik Ponten
Journal:  Science       Date:  2017-08-18       Impact factor: 47.728

3.  Mesalazine reduces mutations in transforming growth factor beta receptor II and activin type II receptor by improvement of replication fidelity in mononucleotide repeats.

Authors:  Christoph Campregher; Clemens Honeder; Heekyung Chung; John M Carethers; Christoph Gasche
Journal:  Clin Cancer Res       Date:  2010-03-02       Impact factor: 12.531

4.  The Human Protein Atlas--a tool for pathology.

Authors:  F Pontén; K Jirström; M Uhlen
Journal:  J Pathol       Date:  2008-12       Impact factor: 7.996

5.  The Implicitome: A Resource for Rationalizing Gene-Disease Associations.

Authors:  Kristina M Hettne; Mark Thompson; Herman H H B M van Haagen; Eelke van der Horst; Rajaram Kaliyaperumal; Eleni Mina; Zuotian Tatum; Jeroen F J Laros; Erik M van Mulligen; Martijn Schuemie; Emmelien Aten; Tong Shu Li; Richard Bruskiewich; Benjamin M Good; Andrew I Su; Jan A Kors; Johan den Dunnen; Gert-Jan B van Ommen; Marco Roos; Peter A C 't Hoen; Barend Mons; Erik A Schultes
Journal:  PLoS One       Date:  2016-02-26       Impact factor: 3.240

6.  WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research.

Authors:  Denise N Slenter; Martina Kutmon; Kristina Hanspers; Anders Riutta; Jacob Windsor; Nuno Nunes; Jonathan Mélius; Elisa Cirillo; Susan L Coort; Daniela Digles; Friederike Ehrhart; Pieter Giesbertz; Marianthi Kalafati; Marvin Martens; Ryan Miller; Kozo Nishida; Linda Rieswijk; Andra Waagmeester; Lars M T Eijssen; Chris T Evelo; Alexander R Pico; Egon L Willighagen
Journal:  Nucleic Acids Res       Date:  2018-01-04       Impact factor: 16.971

7.  Liberating links between datasets using lightweight data publishing: an example using plant names and the taxonomic literature.

Authors:  Roderic Page
Journal:  Biodivers Data J       Date:  2018-07-23

8.  Representing vaccine misinformation using ontologies.

Authors:  Muhammad Amith; Cui Tao
Journal:  J Biomed Semantics       Date:  2018-08-31

9.  The DisGeNET knowledge platform for disease genomics: 2019 update.

Authors:  Janet Piñero; Juan Manuel Ramírez-Anguita; Josep Saüch-Pitarch; Francesco Ronzano; Emilio Centeno; Ferran Sanz; Laura I Furlong
Journal:  Nucleic Acids Res       Date:  2020-01-08       Impact factor: 16.971

10.  Using the Semantic Web for Rapid Integration of WikiPathways with Other Biological Online Data Resources.

Authors:  Andra Waagmeester; Martina Kutmon; Anders Riutta; Ryan Miller; Egon L Willighagen; Chris T Evelo; Alexander R Pico
Journal:  PLoS Comput Biol       Date:  2016-06-23       Impact factor: 4.475

  10 in total

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