文档介绍：11/16/05 Genomics
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D Dobbs ISU - BCB 444/544X: Genomics
Bioinformatics Seminars
Nov 17 Thurs 4:10 BBMB Seminar in 1414 MBB
C2 and PH Domains: Diverse regulators of membrane signaling events Joe Falke, UC Boulder
Nov 18 Fri 12:10 BCB Seminar in E164 Lago
Using P-Values for the Planning and Analysis of Microarray Experiments tleton, Stat
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D Dobbs ISU - BCB 444/544X: Genomics
Protein Structure Prediction Genome Analysis
Mon Protein 3' structure prediction
Wed Genome analysis & genome projects
Comparative genomics; ENCODE, SNPs, HapMaps, medical genomics
Thur Lab Protein structure prediction, SNPs
Fri Experimental approaches: microarrays, proteomics, metabolomics, chemical genomics
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D Dobbs ISU - BCB 444/544X: Genomics
Reading Assignment (for Mon-Fri)
Mount Bioinformatics
Chp 11 Genome Analysis
/ch11/
pp. 495 - 547
Ck Errata: p/
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D Dobbs ISU - BCB 444/544X: Genomics
BCB 544 Additional Readings
Required:
Gene Prediction
Burge & Karlin 1997 JMB 268:78
Prediction plete gene structures in human genomic DNA
Human HapMap (Nature 437, Oct 27, 2005)
Commentary (437:1233)
ure/journal/v437/n7063/full/
News & Views (437: 1241)
ure/journal/v437/n7063/full/
Optional:
Article (437:1299) A haplotype map of the human genome
The International HapMap Consortium
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D Dobbs ISU - BCB 444/544X: Genomics
Review last lecture: Protein Structure Prediction focus on: Threading
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D Dobbs ISU - BCB 444/544X: Genomics
Align target sequence with template structures (fold library) from the Protein Data Bank (PDB)
Calculate energy (score) to evaluate goodness of fit between target sequence and template structure
Rank models based on energy scores (assumption: native-like structures have lowest energy)
Target Sequence
Structure
Templates
ALKKGF…HFDTSE
Protein Structure Prediction using Threading
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D Dobbs ISU - BCB 444/544X: Genomics
Protein Threading: typical energy function
MTYKLILNGKTKGETTTEAVDAATA