Table 2 |
||||
|
Sensitivity and specificity of each method at detecting the 1,556 consensus transcripts |
||||
|
Track |
Number of models with introns |
Consensual models (of 1,556 total) |
Sensitivity |
Specificity |
|
|
||||
|
*AceView |
1,792 |
1,302 |
84% |
73% |
|
Gencode |
1,691 |
1,255 |
81% |
74% |
|
*ECgene |
3,851 |
1,198 |
77% |
31% |
|
AceView |
1,630 |
1,165 |
75% |
71% |
|
*ExonWalk |
892 |
511 |
33% |
57% |
|
*Known Gene |
501 |
432 |
28% |
86% |
|
Exogean |
554 |
404 |
26% |
73% |
|
*RefSeq |
342 |
332 |
21% |
97% |
|
Pairagon |
471 |
310 |
20% |
66% |
|
*Ensembl |
427 |
295 |
19% |
69% |
|
*MGC |
323 |
217 |
14% |
67% |
|
Fgenesh |
462 |
217 |
14% |
47% |
|
*P CCDS |
201 |
152 |
10% |
76% |
|
UP Jigsaw |
259 |
150 |
10% |
58% |
|
*U NscanEst |
282 |
104 |
7% |
37% |
|
UP Augustus |
312 |
100 |
6% |
32% |
|
P Twinscan |
547 |
77 |
5% |
14% |
|
UP GeneMark |
551 |
50 |
3% |
9% |
|
UP SGP2 |
552 |
48 |
3% |
9% |
|
UP GeneZilla |
477 |
47 |
3% |
10% |
|
UP ExonHunter |
807 |
41 |
3% |
5% |
|
UP GeneID |
267 |
38 |
2% |
14% |
|
*UP GenScan |
395 |
37 |
2% |
9% |
|
UP Dogfish |
204 |
33 |
2% |
16% |
|
UP Saga |
331 |
18 |
1% |
5% |
|
|
||||
|
Sensitivity and specificity of each method at detecting the 1,556 consensus transcripts across the pool of the following evidence based tracks: RefSeq, Known Gene, Ensembl, Gencode, AceView, ECgene and ExonWalk, as in Figure 3a. Coded information has been added in front of the track name: asterisks distinguish standard gene tracks, available genome-wide, from an ENCODE only track; a U track predicts a unique model per gene; P predicts protein coding regions only. |
||||
|
Thierry-Mieg and Thierry-Mieg Genome Biology 2006 7(Suppl 1):S12 doi:10.1186/gb-2006-7-s1-s12 |
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