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Table 1 Assessment of the genome-wide TFBS predictions when |W| = 1,000 bp

From: Genome-wide prediction of transcription factor binding sites using an integrated model

  Chromia TP (PPV)
TF Promoters Enhancers
CTCF 319 (16.0%) 195 (9.8%)
E2f1 1,920 (96.0%) 618 (30.9%)
Esrrb 585 (29.2%) 491 (24.6%)
Klf4 917 (45.9%) 351 (17.5%)
Nanog 138 (6.9%) 376 (18.8%)
Myc (n-Myc + c-Myc) 1,436 (71.8%) 167 (8.3%)
Oct4 240 (12.0%) 208 (10.4%)
Oct4-Sox2-Nanog 384 (19.2%) 431 (21.6%)
Smad1 6 (0.3%) 95 (4.8%)
Sox2 63 (3.1%) 235 (11.8%)
STAT3 99 (5.0%) 82 (4.1%)
Tcfcp2l1 716 (35.8%) 595 (29.8%)
Zfx 1,320 (66.0%) 219 (10.9%)
  1. A prediction was considered to be a true positive (TP) if it was within |W| = 1,000 bp of a TF binding peak. The total number of predictions is 2,000.