Welcome to QUILTS, a tool for creating sample specific protein sequence databases. It uses genomic and transcriptomic information to create comprehensive sample specific protein database that supports the identification of novel proteins, resulting from single nucleotide variants, splice variants and fusion genes. If you'd like to run it locally, the code is up on GitHub here.

To create your sample specific protein database, please choose a reference database:
Ensembl (GRCh37/hg19)        RefSeq (GRCh37/hg19)

If you're using junctions, please choose your junction software (if not, ignore this):
MapSplice        TopHat        STAR

And upload at least one sample-specific file:
Germline variants (VCF) (Example, only first 6 columns necessary) :
Somatic variants (VCF) (Example, only first 6 columns necessary) :
Junction (TXT for MapSplice, BED for TopHat, TAB for STAR) (Example) :
Fusion (TXT) (Example, fifth column can be any quality measure) :

Variant quality threshold:

Threshold of supporting reads for novel splice junctions
Both boundaries annotated:
Left boundary annotated:
No boundaries annotated:

No missed cleavage

Once all data is uploaded click here: