Genetics Education

Agenda

Dates and Location

Contact

Cost

Faculty

Links and Files

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Click here to see an interview with workshop organizer, Dr. Simon Gregory.

The 2007 DBW was featured on NPR by WUNC's Rose Hoban. Click here to listen to the report.

Links and Files

Welcome

Module 1: De novo sequence analysis

NCBI BLAST
ORF Finder
SPIDEY
SRS
InterPro

Links for Module 1:
SRS at EBI
ClustalW
Vega


Module 2: Genome browsing

Map Viewer
Ensembl
Human Genome Browser
Human Genome Browser (mirror)


Module 3: Comparative genomics

NCBI Entrez
CCDS
Entrez Gene
Ensembl
PolyPhen
GEPIS
Approved Sequencing Targets and level of coverage proposed/completed
International Sequencing Consortium
NCBI Trace Archive BLAST search
Ensembl Trace BLAST search
Integrated Protein Informatics Resource for Genomic and Proteomic Research
Constructing Phylogenetic Trees
MEGA
MrBAYES
GARLI

Reference:  Wheeler, D. L., D. M. Church, et al. (2003). "Database resources of the National Center for Biotechnology." Nucleic Acids Res 31(1): 28-33.


Module 4: Introduction to sequence variation

Ensembl
NCBI Entrez
HapMap
Haploview


Module 5: Working with sequence variation

Ensembl
Phylip
TreeView X
NCBI Entrez
UCSC
ZPicture
SIM4
VISTA


Module 6: Exploring gene function and disease

Entrez Gene
GEO
Oncomine
DNA-Chip Analyzer (dChip)
Febbo
Gene Pattern installation


Module 7: Introduction to microarrays

CAPWEB
VAMP
Clone Locations
GBMS File


Module 8: Genomic arrays

Module 9: Expression arrays

Module 10: Analytic approaches and applications to microarrays

References for Module 10
Directions for Expression Practical
Data files


Software

GeneDoc     (PC only)
Cn3D(PC & Mac)
Haploview (PC & Mac)
Deep View (PC & Mac)


Download

Genotype Data (.txt)
Genotype Data (.ped)
Phylip (.phylip)
SNP Locations (.txt)
SNP Locations (.info)
Q9UBS5
Genome Graphs