Revealing the missing expressed genes beyond the human reference genome by RNA-Seq

BMC Genomics

Table 1 Novel transcript contigs in brain and cell lines.

Items	Brain	Cell lines
Total number of transcript contigs	254769	204625
Number of contigs unaligned to GRCh37, RefSeq genes and EST	16225	11638
Number of unmapped contigs aligned to Human Fosmid sequences	41	25
Number of unmapped contigs aligned to HuRef genome	184	100
Number of unmapped contigs aligned to Celera genome	181	90
Number of unmapped conitgs aligned to YH novel sequences	103	42
Number of unmapped contigs aligned to NA18507 novel sequences	137	46
Number of unmapped contigs aligned to chimpanzee genome	119	56
Number of unmapped contigs aligned to macaque genome	64	36
Total number of aligned unmapped contigs	313	173
Total contig length (bp)	50324	29664
N50 contig size (bp)	195	194

*The brain and cell line transcript contigs were aligned to the human reference genome (GRCh37), RefSeq genes and EST sequences with 90% indentify and 90% coverage as threshold. The unalignable brain and cell line transcript contigs were then aligned to human Fosmid sequences, HuRef genome, Celera genome, Asian (YH) and African (NA18507) novel sequences, chimpanzee and macaque genomes with 90% identity and 100% coverage as the threshold.

ISSN: 1471-2164