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Genomic Databases

Genomic Databases. Cédric Notredame. Databases The Next Generation. Cédric Notredame. HOT !!!. VERY HOT !!!. ENSEMBL. TRANSFAC. KEGG. GENECARD. DIP, BIND. Gene Ontology: Words to describe all this. ANNOTATION. -Where are the genes ?. -What do they do: Biochemistry ?.

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Genomic Databases

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  1. Genomic Databases Cédric Notredame

  2. Databases The Next Generation Cédric Notredame

  3. HOT !!! VERY HOT !!!

  4. ENSEMBL TRANSFAC KEGG GENECARD DIP, BIND Gene Ontology: Words to describe all this

  5. ANNOTATION -Where are the genes ? -What do they do: Biochemistry ? -When do they do it: Regulation ? -Who do they do it for: Metabolic ?

  6. What is inside the resource Gory Details Biological Questions You Can Ask Alternative Ressources

  7. Watch Out!

  8. ENSEMBL: Where is my Gene in the Human Genome (who are its neighbors) ?

  9. Using ENSEMBL www.ensembl.org

  10. Using ENSEMBL: Asking a question What are the Neighbours of the DUT GeneIn the Human Genome ?

  11. Using ENSEMBL: Asking a question

  12. Using ENSEMBL: Asking a question

  13. Using ENSEMBL: Asking a question What are the genes, on chromosome 1, that have been linked to a disease, and for which SNPs (Single Nucleotide Polymorphisms) have been identified?

  14. Using ENSEMBL: Asking a question

  15. Using ENSEMBL: Asking a question Select a Chromosome

  16. Using ENSEMBL: Asking a question Select your filter

  17. Using ENSEMBL: Asking a question Select The Information You Need

  18. Using ENSEMBL: Asking a question

  19. Using ENSEMBL: Asking a question

  20. ENSEMBL Questions What are the Neighbours of the DUT GeneIn the Human Genome ? What are the genes, on chromosome 1, that have been linked to a disease, and for which SNPs (Single Nucleotide Polymorphisms) have been identified?

  21. ENSEMBL: Watch Out Your Transcript of Interest May not be mapped Use Sim4 All the potential alternative splice forms are not always mapped Exons may be lost

  22. ENSEMBL: A Few Alternative Resources www.ncbi.nlm.nih.gov NCBI genome.ucsc.edu UCSC www.genome.ad.jp GenomeNet

  23. ENSEMBL TRANSFAC KEGG GENECARD DIP, BIND Gene Ontology: Words to describe all this

  24. TRANSFAC: Who Turns On My Gene?

  25. TRANSFAC Introducing TRANSFAC

  26. www.gene-regulation.com

  27. Using TRANSFAC What are the transcription Factor Classes that contain a Zinc Finger

  28. Select a Class

  29. Keyword

  30. Using TRANSFAC What is Known about the ACE2 Transcription Factor

  31. Using TRANSFAC What is The Specificity of my Factor

  32. TRANSFAC: A Few Related Resources www.epd.isb-sib.ch

  33. TRANSFAC: A Few Alternative Resources prodoric.tu-bs.de PRODORIC GenomeNet www.cbrc.jp/research/db/TFSEARCH.html

  34. ENSEMBL TRANSFAC KEGG GENECARD DIP, BIND Gene Ontology: Words to describe all this

  35. KEGG: Where Does My Protein Work?

  36. KEGG Introducing KEGG

  37. www.genome.ad.jp/kegg/

  38. 2003 2004

  39. KEGG How Does it Work ?

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