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 Please play with the following tools using your research theme/gene/author  We will use: prostate cancer bioinformatics, slit2, Trevino.

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Presentation on theme: " Please play with the following tools using your research theme/gene/author  We will use: prostate cancer bioinformatics, slit2, Trevino."— Presentation transcript:

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2  Please play with the following tools using your research theme/gene/author  We will use: prostate cancer bioinformatics, slit2, Trevino V

3  PubMed (Medline) / Entrez  National Center for Biological Information USA Prostate Cancer

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6  Searches are “AND” by default  Queries using … are more powerful  AND  OR  NOT

7  Use MyNCBI and highlights query words  Fields  [TI]  [TIAB]  [AB]  Authors[AU]  Journal[TA]  bmed.section.pubmedhelp.Search_Field_Descrip bmed.section.pubmedhelp.Search_Field_Descrip  Mesh Terms help

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9 We wanted all software "published" so we query:  software=88448  *Software[MH] =  "*Software"[MH] =  Software[MH] =64315

10  MAIN abstracts source from published papers in the WORLD about biosciences.  Versatile query and search engine  Access to specific fields, e. g. 'prostate "bmc"[TA]', 'Trevino V[AU]'  Several data formats  Citations  EndNote  Links to paper  Clipboard, History  User-Specific Features

11  EBI (European Bioinformatics Institute) (similar to PubMed)  EBIMed – Related to Genes  CiteXplore do do

12  PubMed Central  Free Papers  Tec:  CiteSeer: (Ingeniería)http://citeseer.ist.psu.edu/  Google Scholar  authors (normally corresponding author)  Friends (but not so many nor so often)  Your Tutor/Supervisor  Springer Books from ITESM:  Biblioteca Virtual de Biotecnología para las Américas 

13 PaísNombre BDLiga MXBANAPANET USAUSPTOhttp://www.uspto.gov/patft/index.html ESESPACENET mGen&Template=es/ES/home.hts Am Latinalatipat documentales/latipat_sp?ACTION=RETOUR JPJPDLhttp://www.ipdl.inpit.go.jp/homepg_e.ipdl ALdepatisnet &space=unknown&content=index&action=index&session=c23 b66f330d986fd2581bfdf4e20939cdc40df8949e5&stamp= OMPI CanadaCIPOhttp://patents1.ic.gc.ca/srch_adv-e.html TaiwanIPOhttp://patents1.ic.gc.ca/srch_adv-e.html

14  XplorMed  eTBLAST  HubMed

15  HubMed (is it working at the moment?, but as seen in html) html

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19  Try as many tools/services as you can  Remember/SAVE your favorites  Use PubMed/CiteXplore user features  Save your research queries, so systems keep you updated  Search and try NEW TOOLS  Use EndNoteWeb 

20  Databases and WebServices Paper Original Paper published in 2005, then updated in 2006 and 2007

21 AIM: Common repository/links to Free Tools, Free Databases, and Free Resources for Bioinformatics and Molecular Biology Research.

22  Materials and Methods:  Published in NAR  Includes NAR WebServer Issue  Done by British Columbia Univ & NAR

23  Results:   Links with descriptive biological categories  PubMed citations  Searchable  Browsable  RSS feeds  Done by British Columbia Univ & NAR  Community-driven

24  Results (cont):  2006: More than 1000 links

25  Results (cont):  2006: More than 1000 links

26 Results (Cont) 2008:

27 Results (Cont) 2007:

28  The Bioinformatics Links Directory is a growing rich source of searchable, and browsable bioinformatics tools, services, and databases. –http://bioinformatics.ca/links_directory/narweb2007http://bioinformatics.ca/links_directory/narweb2007

29  Disadvantages:  ONLY NAR PAPERS  Wish List  FAVORITES?  BOOKMARKS?  AUTOSARCHES?


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