ALTSCAN
Combining ALTSCAN with RNA-seq data
ALTSCAN has a great capability of detecting novel transcripts when integrated with RNA-seq data.
We applied ALTSCAN to candidate human gene regions, and validated the prediction result with RNA-seq data. Finally, 11,549 VHC (validation with high confidence, FDR=9.38%) novel transcripts and 31,566 VMC (validation with median confidence, FDR=15.9%) novel transcripts were obtained.
VMC and VHC transcripts can also help detect proteins from shotgun proteomics data.
Downloads for hg19:
Non-redundant annotation combining Refseq and Gencode V12 (GTF)
ALTSCAN prediction of human genome(hg19) (GTF)
VHC transcripts (GTF)
VHC transcripts (FASTA)
Translated proteins from VHC transcripts (FASTA)
VMC transcripts (GTF)
VMC transcripts (FASTA)
Translated proteins from VMC transcripts (FASTA)
View ALTSCAN predictions directly on UCSC Genome Browser (hg19):
Clik here to view VHC transcripts
Clik here to view VMC transcripts
