Table 1

Comparison of ReAnoCDS05 and Ensembl

ReAnoCDS05

Ensembl


Total CDSs

31,254

16,148

Total exons

155,680

58,579

Average exons per CDS

4.98

3.62

CDS completion rate*

96%

37%

CDSs overlapped by cDNA pair contigs

1,885

2,257

CDSs perfectly matched to cDNA pair contigs

752

672

cDNA pair contigs not overlapping any CDSs

1%

8%

Specificity (nucleotide)

0.96

0.99

Sensitivity (overall)§

99%

92%

Sensitivity (perfect)

45%

30%

Protein hits yielded by MS peptides

4,737

1,413

MS peptide missing rate¥

12%

62%


*Proportion of CDSs with start and stop codon. Paired end sequences of full-length cDNAs from [7]. Calculation for ReAnoCDS05 described in Materials and methods, Ensembl value from [18]. §Proportion of cDNA pair contigs overlapping a CDS. Proportion of overlapped CDSs precisely matching cDNA pair contig boundaries. ¥Proportion of mass spectrometry (MS) peptides failing to hit any protein in database.

Li et al. Genome Biology 2006 7:R24   doi:10.1186/gb-2006-7-3-r24

Open Data