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Literature DB >> 19480664

The Cell Cycle Ontology: an application ontology for the representation and integrated analysis of the cell cycle process.

Erick Antezana¹, Mikel Egaña, Ward Blondé, Aitzol Illarramendi, Iñaki Bilbao, Bernard De Baets, Robert Stevens, Vladimir Mironov, Martin Kuiper.

Abstract

The Cell Cycle Ontology (http://www.CellCycleOntology.org) is an application ontology that automatically captures and integrates detailed knowledge on the cell cycle process. Cell Cycle Ontology is enabled by semantic web technologies, and is accessible via the web for browsing, visualizing, advanced querying, and computational reasoning. Cell Cycle Ontology facilitates a detailed analysis of cell cycle-related molecular network components. Through querying and automated reasoning, it may provide new hypotheses to help steer a systems biology approach to biological network building.

Entities: Chemical Disease Gene Species

Mesh：

Year: 2009 PMID： 19480664 PMCID： PMC2718524 DOI： 10.1186/gb-2009-10-5-r58

Source DB: PubMed Journal: Genome Biol ISSN： 1474-7596 Impact factor: 13.583

58 in total

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Review 3. Data standards: a call to action.

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Review 4. National Center for Biomedical Ontology: advancing biomedicine through structured organization of scientific knowledge.

Authors: Daniel L Rubin; Suzanna E Lewis; Chris J Mungall; Sima Misra; Monte Westerfield; Michael Ashburner; Ida Sim; Christopher G Chute; Harold Solbrig; Margaret-Anne Storey; Barry Smith; John Day-Richter; Natalya F Noy; Mark A Musen
Journal: OMICS Date: 2006

Review 5. Resources for integrative systems biology: from data through databases to networks and dynamic system models.

Authors: Aylwin Ng; Borisas Bursteinas; Qiong Gao; Ewan Mollison; Marketa Zvelebil
Journal: Brief Bioinform Date: 2006-10-13 Impact factor: 11.622

6. Co-evolution of transcriptional and post-translational cell-cycle regulation.

Authors: Lars Juhl Jensen; Thomas Skøt Jensen; Ulrik de Lichtenberg; Søren Brunak; Peer Bork
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7. Putting proteins on the map.

Authors: Robert F Murphy
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8. Methods for gene ontology annotation.

Authors: Emily Dimmer; Tanya Z Berardini; Daniel Barrell; Evelyn Camon
Journal: Methods Mol Biol Date: 2007

9. IntAct--open source resource for molecular interaction data.

Authors: S Kerrien; Y Alam-Faruque; B Aranda; I Bancarz; A Bridge; C Derow; E Dimmer; M Feuermann; A Friedrichsen; R Huntley; C Kohler; J Khadake; C Leroy; A Liban; C Lieftink; L Montecchi-Palazzi; S Orchard; J Risse; K Robbe; B Roechert; D Thorneycroft; Y Zhang; R Apweiler; H Hermjakob
Journal: Nucleic Acids Res Date: 2006-12-01 Impact factor: 16.971

10. CYCLONET--an integrated database on cell cycle regulation and carcinogenesis.

Authors: Fedor Kolpakov; Vladimir Poroikov; Ruslan Sharipov; Yury Kondrakhin; Alexey Zakharov; Alexey Lagunin; Luciano Milanesi; Alexander Kel
Journal: Nucleic Acids Res Date: 2007-01 Impact factor: 16.971

10 in total

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Journal: J Med Syst Date: 2012-11 Impact factor: 4.460

2. Gauging triple stores with actual biological data.

Authors: Vladimir Mironov; Nirmala Seethappan; Ward Blondé; Erick Antezana; Andrea Splendiani; Martin Kuiper
Journal: BMC Bioinformatics Date: 2012-01-25 Impact factor: 3.169

Review 3. Accelerating cancer systems biology research through Semantic Web technology.

Authors: Zhihui Wang; Jonathan Sagotsky; Thomas Taylor; Patrick Shironoshita; Thomas S Deisboeck
Journal: Wiley Interdiscip Rev Syst Biol Med Date: 2012-11-27

4. Discovery of Emerging Design Patterns in Ontologies Using Tree Mining.

Authors: Agnieszka Ławrynowicz; Jedrzej Potoniec; Michał Robaczyk; Tania Tudorache
Journal: Semant Web Date: 2018-06-29 Impact factor: 2.214

5. OLSVis: an animated, interactive visual browser for bio-ontologies.

Authors: Steven Vercruysse; Aravind Venkatesan; Martin Kuiper
Journal: BMC Bioinformatics Date: 2012-07-10 Impact factor: 3.169

6. The 3rd DBCLS BioHackathon: improving life science data integration with Semantic Web technologies.

Authors: Toshiaki Katayama; Mark D Wilkinson; Gos Micklem; Shuichi Kawashima; Atsuko Yamaguchi; Mitsuteru Nakao; Yasunori Yamamoto; Shinobu Okamoto; Kenta Oouchida; Hong-Woo Chun; Jan Aerts; Hammad Afzal; Erick Antezana; Kazuharu Arakawa; Bruno Aranda; Francois Belleau; Jerven Bolleman; Raoul Jp Bonnal; Brad Chapman; Peter Ja Cock; Tore Eriksson; Paul Mk Gordon; Naohisa Goto; Kazuhiro Hayashi; Heiko Horn; Ryosuke Ishiwata; Eli Kaminuma; Arek Kasprzyk; Hideya Kawaji; Nobuhiro Kido; Young Joo Kim; Akira R Kinjo; Fumikazu Konishi; Kyung-Hoon Kwon; Alberto Labarga; Anna-Lena Lamprecht; Yu Lin; Pierre Lindenbaum; Luke McCarthy; Hideyuki Morita; Katsuhiko Murakami; Koji Nagao; Kozo Nishida; Kunihiro Nishimura; Tatsuya Nishizawa; Soichi Ogishima; Keiichiro Ono; Kazuki Oshita; Keun-Joon Park; Pjotr Prins; Taro L Saito; Matthias Samwald; Venkata P Satagopam; Yasumasa Shigemoto; Richard Smith; Andrea Splendiani; Hideaki Sugawara; James Taylor; Rutger A Vos; David Withers; Chisato Yamasaki; Christian M Zmasek; Shoko Kawamoto; Kosaku Okubo; Kiyoshi Asai; Toshihisa Takagi
Journal: J Biomed Semantics Date: 2013-02-11