Bioinformatics Slides (PDF) - Genomics & Medicine - Stanford ...

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Choose Standard Protein-Protein BLASThttp://www.ncbi.nlm.nih.gov/BLAST/
Paste Sequence, Choose SwissProt Databaseand BLAST!
Page 1 and 2: BioinformaticsGenomics& Medicinehtt
Page 3 and 4: Computational Goals of Bioinformati
Page 5 and 6: Central Paradigm of MedicineDNA RNA
Page 9 and 10: Soybean Leghemoglobin andSperm Whal
Page 11 and 12: Challenges Understanding Genetic In
Page 13 and 14: Dayhoff’s PAM 250Amino Acid Repla
Page 15 and 16: Discovering Function from Protein S
Page 17 and 18: A Typical Motif:Zinc Finger DNA Bin
Page 21 and 22: Position-Specifc Scoring Matrix for
Page 23 and 24: Blocks or Finger Prints fromMultipl
Page 25 and 26: Hidden Markov Models fromMultiple S
Page 27 and 28: Data Mining:The Seach for Buried Tr
Page 29 and 30: PROSITE Patternshttp://expasy.org/p
Page 31 and 32: Expasy Bioinformatics Resource Port
Page 33 and 34: UniProt Knowledge Basehttp://www.un
Page 35 and 36: UniProt Human Opsin Advanced Search
Page 37 and 38: UniProt Human Opsin OPN1MW Entryhtt
Page 39 and 40: Blast UniProt Human OPN1MW Resultsh
Page 41 and 42: NCBI BLAST Home Pagehttp://blast.nc
Page 45 and 46: Entrez Gene search for Colorblindne
Page 47 and 48: Entrez Gene search for Opsins
Page 49: BLAST Similarity Searchhttp://www.n
Page 53 and 54: BLAST Conserved Domain Output
Page 55 and 56: Most Signifcant Similarity Hits
Page 57 and 58: Bovine Blue Opsin Similarity
Page 59 and 60: Evaluation of ProflesNegative Prote
Page 61 and 62: MyHits Local Motifs Searchhttp://my
Page 63 and 64: MyHits Local Motifs Searchhttp://my
Page 65 and 66: MyHits Local Motif Hitshttp://myhit
Page 67 and 68: MyHits Local Motifs Hist (Cont.)
Page 69 and 70: InterProhttp://www.ebi.ac.uk/interp
Page 71 and 72: InterPro Scanhttp://www.ebi.ac.uk/T
Page 73 and 74: InterPro Scan Resultshttp://www.ebi
Page 75 and 76: GO: Gene Ontology Databasehttp://ww
Page 77 and 78: GO: Gene Ontology for Opsin OPN1MWh
Page 79 and 80: GO: Annotations for OPN1MWhttp://ww
Page 81 and 82: GO: Gene Ontology Terms for OPN1MWh
Page 83 and 84: GO: Gene Ontology GCPR Termhttp://w
Page 85 and 86: Bioinformatics Homeworkhttp://bioch
Page 87 and 88: Statistical vs. Biological Signifca
Page 89 and 90: Hidden Markov Models fromMultiple S
Page 91 and 92: Structure of 5’ CAP© Michael W.
Page 93 and 94: Intron Splicing Mechanism© Michael
Page 95 and 96: GENSCAN Gene Modelhttp://genes.mit.
Page 97 and 98: ESTs, Full Length cDNAUniGene & Ref
Page 99 and 100: HiddenMarkov modelsof genestructure
Page 101 and 102:
Genomics, Bioinformatics &Computati
Page 103 and 104:
Genomics, Bioinformatics &Computati
Page 105 and 106:
Hidden Markov Models (after Haussle
Page 107 and 108:
pFAM at Sanger Center (UK)http://pf
Page 109 and 110:
Page 111:
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