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Tools
Affiliated External Analysis Tools
Visualize genomic annotation via Sockeye
Run SOCKEYE
Use state-of-the-art regulatory prediction programs via Chinook
Run CHINOOK
Sequence Fetchers/Scanners
Using a NCBI accession ID and a start and a stop coordinate, map a sequence
Run NCBIFETCH
Using an ENSEMBL transcript ID and a start and a stop coordinate, map a sequence upstream of a TSS
Run ENSFETCH
Using a NCBI accession ID and a start and a stop coordinate, look for exact matches to a sequence
Run NCBISCAN
Using an ENSEMBL transcript ID and a start and a stop coordinate, look for exact matches to a sequence
Run ENSSCAN
External tools useful for extracting/finding sequences
Find a short sequence in a UCSC genome, and find associated SNPs, using Blat
Run BLAT
Extract a sequence with defined coordinates from any EnsEMBL genome
Run EnsEMBL Export (on Human)
Affiliated Databases
Look at predicted transcription factor binding sites using the CisRED pipeline
Questions or comments to
oreganno@bcgsc.ca
.
(Archived here)
Look at predicted transcription factor binding sites using the CisRED pipeline
