BioKC: a collaborative platform for systems biology model curation and annotation
暂无分享,去创建一个
Reinhard Schneider | Marek Ostaszewski | Valentin Grouès | Venkata Satagopam | Carlos Vega | Reinhard Schneider | V. Satagopam | M. Ostaszewski | V. Grouès | Carlos Vega
[1] Inna Kuperstein,et al. NaviCell: a web-based environment for navigation, curation and maintenance of large molecular interaction maps , 2013, BMC Systems Biology.
[2] Fengkai Zhang,et al. SBML Level 3 package: Multistate, Multicomponent and Multicompartment Species, Version 1, Release 1 , 2018, J. Integr. Bioinform..
[3] Henning Hermjakob,et al. The Reactome pathway knowledgebase , 2013, Nucleic Acids Res..
[4] Mudita Singhal,et al. COPASI - a COmplex PAthway SImulator , 2006, Bioinform..
[5] Sb Ras,et al. BioUML: VISUAL MODELING, AUTOMATED CODE GENERATION AND SIMULATION OF BIOLOGICAL SYSTEMS , 2006 .
[6] Valentin Grouès,et al. BioKB - Text mining and semantic technologies for the biomedical content discovery , 2017, SWAT4LS.
[7] Nicolas Le Novère,et al. Identifiers.org and MIRIAM Registry: community resources to provide persistent identification , 2011, Nucleic Acids Res..
[8] Armando Blanco,et al. Collaborative semi-automatic annotation of the biomedical literature , 2011, 2011 11th International Conference on Intelligent Systems Design and Applications.
[9] Ugur Dogrusoz,et al. SBGNViz: A Tool for Visualization and Complexity Management of SBGN Process Description Maps , 2015, PloS one.
[10] D Garfinkel,et al. Computer applications to biochemical kinetics. , 1970, Annual review of biochemistry.
[11] Jurica Ševa,et al. An extensive review of tools for manual annotation of documents , 2019, Briefings Bioinform..
[12] Henning Hermjakob,et al. The Reactome pathway Knowledgebase , 2015, Nucleic acids research.
[13] B. Chance,et al. The kinetics of the enzyme-substrate compound of peroxidase. 1943. , 1943, Advances in enzymology and related areas of molecular biology.
[14] Marek Ostaszewski,et al. Closing the gap between formats for storing layout information in systems biology , 2019, Briefings Bioinform..
[15] Piotr Gawron,et al. MINERVA—a platform for visualization and curation of molecular interaction networks , 2016, npj Systems Biology and Applications.
[16] Henning Hermjakob,et al. The Minimum Information about a Molecular Interaction Causal Statement (MI2CAST). , 2020, Bioinformatics.
[17] W. John Wilbur,et al. Assisting manual literature curation for protein–protein interactions using BioQRator , 2014, Database J. Biol. Databases Curation.
[18] Sampo Pyysalo,et al. A method for integrating and ranking the evidence for biochemical pathways by mining reactions from text , 2013, Bioinform..
[19] Burkhard Rost,et al. tagtog: interactive and text-mining-assisted annotation of gene mentions in PLOS full-text articles , 2014, Database J. Biol. Databases Curation.
[20] M Hucka,et al. Evolving a lingua franca and associated software infrastructure for computational systems biology: the Systems Biology Markup Language (SBML) project. , 2004, Systems biology.
[21] Chris J. Myers,et al. Harmonizing semantic annotations for computational models in biology , 2018, bioRxiv.
[22] Jacky L. Snoep,et al. BioModels Database: a free, centralized database of curated, published, quantitative kinetic models of biochemical and cellular systems , 2005, Nucleic Acids Res..
[23] Paul T. Groth,et al. The anatomy of a nanopublication , 2010, Inf. Serv. Use.
[24] Mariana L. Neves,et al. A survey on annotation tools for the biomedical literature , 2014, Briefings Bioinform..
[25] Sampo Pyysalo,et al. brat: a Web-based Tool for NLP-Assisted Text Annotation , 2012, EACL.
[26] Zhiyong Lu,et al. ezTag: tagging biomedical concepts via interactive learning , 2018, Nucleic Acids Res..
[27] Yukiko Matsuoka,et al. Using process diagrams for the graphical representation of biological networks , 2005, Nature Biotechnology.
[28] P. Shannon,et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. , 2003, Genome research.
[29] A. Ruepp,et al. CIDeR: multifactorial interaction networks in human diseases , 2012, Genome Biology.
[30] Ryan Miller,et al. WikiPathways: capturing the full diversity of pathway knowledge , 2015, Nucleic Acids Res..
[31] Iryna Gurevych,et al. WebAnno: A Flexible, Web-based and Visually Supported System for Distributed Annotations , 2013, ACL.
[32] Minoru Kanehisa,et al. KEGG: new perspectives on genomes, pathways, diseases and drugs , 2016, Nucleic Acids Res..
[33] Hiroaki Kitano,et al. The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models , 2003, Bioinform..
[34] L. Levin,et al. Biodiversity on the Rocks: Macrofauna Inhabiting Authigenic Carbonate at Costa Rica Methane Seeps , 2015, PloS one.
[35] Hiroaki Kitano,et al. CellDesigner: a process diagram editor for gene-regulatory and biochemical networks , 2003 .
[36] Alfonso Valencia,et al. MyMiner: a web application for computer-assisted biocuration and text annotation , 2012, Bioinform..