Links and resources
Category quick-links
- Tools and services
- Data resources
- Journals
- Conferences
- Collaborating groups
- Special-interest groups, projects, and communities
- Lectures, books, and articles
- Standards
Tools and services
- Information retrieval: PubMed Entrez, eUtils;Yahoo API
- Stemmers: Porter Stemmer
- POS taggers: GeniaTagger
- Term and Named Entity Recognisers
ABNER (A Biomedical Named Entity Recognizer);
Lingpipe (Java libraries for the linguistic analysis)
TerMine
Whatizit
GeniaTagger
BANNER - Parsers
Stanford Parser
Enju - IE frameworks
GATE
Data resources
- Ontologies and thesauri
Gene Ontology
Genia Ontology
UMLS (Unified Medical Language System)
MeSH (Medical Subject Headings thesaurus) - Corpora
Genia corpus
BioCreative corpora
BioInfer
BioMed Central's open access full-text corpus
PennBioIE corpus
[K. Cohen's list of bio-corpora] - Databases
ORegAnno
FlyTF
HIV interactions
BioCatalogue of Life Science services
Journals
- BMC Bioinformatics
- Bioinformatics
- Biomedical Semantics
- BioData Mining
- Journal of Biomedical Informatics
- International Journal of Medical Informatics
- Journal of Web Semantics
- PLOS Biology
- PLOS ONE
- Nature
- Computational Lingustics
- Terminology
- ACM Transactions
- Computer Science and Information Systems
Conferences
- Intelligent Systems for Molecular Biology (ISMB)
- European Conference on Computational Biology (ECCB)
- Semantic Mining in Biomedicine (SMBM)
- Languages in Biology and Medicine (LBM)
- Computational Liguistics (COLING)
- Language Resources and Evaluation (LREC)
- The UK Special-interest Group for Computational Linguistics (CLUK)
- Asia Pacific Bioinformatics Conference (APBC)
- Pacific Symposium on Biocomputing (PSB)
- IEEE International Conference on Bioinformatics and Bioengineering (BIBE)
Collaborating groups
- Manchester Interdisciplinary Biocentre (MIB)
- Manchester's Text Mining Group
- Bioinformatics @ Manchester
- EBI Text Mining Group (Rebholz)
- Bergman Lab (FLS, Manchester)
- Robertson Lab (FLS, Manchester)
- MyGrid Project
Special-interest groups, projects, communities etc.
- NaCTeM
- Genia project, Tsujii lab
- bioNLP
- myExperiment
- BioCatalogue
- IEEE
- ACM-SIGMOD
- Science Direct
- IEEE Computers Society
- IEEE Bioinformatics & Systems Biology Forum
Lectures, Books, Articles
- Biomedicall literature and text mining publications (BLIMP)
- MIT OpenCourse - Genomics and Computational Biology
- FreeTechBooks - Free Technology text books online
- Analyzing Language in Restricted Domains: Sublanguage Description and Processing
- The University of Manchester eContent Collection