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Table 2 The numbers of genomic regions bound in blastoderm embryos

From: Developmental roles of 21 Drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions

    Number of bound regions Overlap between antibodies for the same factor
Regulatory class Factor antibody Amino acids recognized 1% FDR 25% FDR % overlap r
A-P early BCD 1* 56-330 619 3,295 95 0.79
maternal BCD 2* 330-489 702 3,404 93 0.81
  CAD 1* 1-240 1,591 6,326 NA NA
A-P early gap GT 2* 182-353 1,070 3,968 NA NA
  HB 1* 1-305 1,832 4,707 86 0.64
  HB 2* 306-758 1,718 6,675 92 0.80
  KNI 1* 130-280 36 330 97 0.90
  KNI 2* 281-425 197 5,167 83 0.86
  KR 1* 1-230 3,593 11,323 96 0.91
  KR 2* 350-502 4,084 12,255 93 0.93
A-P early terminal HKB 1 1-100 1,012 5,339 99, 94 0.88, 0.64
  HKB 2 101-200 614 4,241 99, 89 0.81, 0.34
  HKB 3 201-297 638 3,766 99, 99 0.92, 0.99
  TLL 1 110-259 429 2,650 NA NA
A-P early gap-like D 1 1-103 6,452 16,501 NA NA
A-P pair rule FTZ 3 All 403 3,721 NA NA
  HRY 1 123-221 1,704 6,053 97 0.80
  HRY 2 254-337 2,729 10,979 80 0.73
  PRD 1 355-450 2,061 7,145 96 0.93
  PRD 2 450-613 1,273 5691 99 0.92
  RUN 1 24-127, 240-318 921 8,809 77 0.79
  RUN 2 319-510 172 2,903 99 0.75
  SLP1 1 1-119 1,171 6,974 NA NA
D-V maternal DA 2 511-693 5,534 14,144 NA NA
  DL 3 All 9,358 18,113 NA NA
D-V zygotic MAD 2 144-254 204 10,969 NA NA
  MED 2 385-523, 630-713 5,458 9,273 NA NA
  SHN 2 1617-1750 341 1,400 47 0.70
  SHN 3 2115-2279 121 363 87 0.38
  SNA 1 75-166 596 4,868 100 0.87
  SNA 2 167-258 2,800 15,811 61 0.82
  TWI 1 1-178 6,686 17,486 99 0.98
  TWI 2 259-363 7,416 19,605 98 0.98
General Pol II H14* CTD 3,108 7,991 NA NA
  TFIIB All 1,943 6,002 NA NA
  1. The number of bound regions at 1% and 25% false discovery rate (FDR) thresholds were determined by the symmetric null test [11]. The percentage overlap is defined as the percentage of 1% FDR 500-bp peak windows for one antibody that completely overlap a 25% FDR bound region for the other antibody/antibodies for the same factor. The Pearson correlation coefficient (r) is the correlation between the peak score from 1% FDR bound regions for one antibody and the corresponding 500 bp window score for the second antibody. Asterisks indicate previously published data [11]. NA, not applicable.