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Table 1 Hybridization signals detected in sample channel and reference channel

From: Non-coding antisense transcription detected by conventional and single-stranded cDNA microarray

  Detected N signals Masked IMAGE ID Putative antisense signals C signals
  total* reported** repeats*** double hits**** self-complementarity+ repeats, double, or self++ reported+++ total++++ reported$ new$$ total$$$ % paired N signal$$$$
UACC812 (A) 281 59 148 61 7 151 31 130 28 (21,5%) 102 353 27
ZR7530 (B) 316 67 149 57 8 153 33 163 34 (20,9%) 129 353 35
BT474 (C) 610 134 252 74 11 257 50 353 84 (23,8%) 269 478 64
MDA361 (D) 603 132 241 71 0 246 49 357 83 (23,2%) 274 465 66
MCF10A (E) 556 114 241 72 11 246 46 310 68 (21,9%) 242 473 57
SKBR3 (F) 449 94 192 65 8 196 41 253 53 (20,9%) 200 431 48
UACC893 (G) 516 110 216 67 8 220 43 296 67 (22,6%) 229 442 56
MDA453 (H) 562 115 233 72 9 238 47 324 68 (21,0%) 256 460 60
CAMA1 (I) 695 151 276 76 11 282 53 413 98 (23,7%) 315 501 74
Mean 509,78 108,44 216,44 68,33 9,22 221 43,67 288,8 64,78 (22,2%) 224 439,56 54,14
SD 137,63 30,55 44,89 6,32 1,56 45,7 7,53 92,37 23,10 (1,2%) 69,52 53,03 15,18
Nmbr(union) 776 169 300 78 11 306 60 470 109 (23,2%) 361 511  
Nmbr(intersection) 244 52 125 55 7 128 27 116 25 (21,6%) 91 315  
Reference (A) 753 169 296 78 11 303 62 450 107 (23,8%) 343 510 81
Reference (B) 751 169 288 79 11 295 59 456 110 (24,1%) 346 505 82
Reference (C) 813 185 303 77 11 309 65 504 120 (23,8%) 384 513 90
Reference (D) 808 179 301 79 11 308 62 500 117 (23,4%) 383 514 89
Reference (E) 806 178 301 80 11 307 62 499 116 (23,2%) 383 513 89
Reference (F) 826 186 307 79 11 314 65 512 121 (23,6%) 391 519 91
Reference (G) 745 169 288 78 11 294 62 451 107 (23,7%) 344 502 80
Reference (H) 822 182 311 78 11 317 66 505 116 (23,0%) 389 520 90
Reference (I) 874 196 316 79 11 323 64 551 132 (24,0%) 419 524 97
Mean 799,78 179,22 301,22 78,56 11 307,8 63 492 116,22 (23,6%) 375,8 513,33 87,79
SD 42,63 9,24 9,54 0,88 0 9,58 2,18 33,63 7,84 (0,4%) 26,02 7,07 5,65
Nmbr(union) 885 198 322 81 11 329 66 556 132 (23,7%) 424 525  
Nmbr(intersection) 673 153 269 75 11 275 57 398 96 (24,1%) 302 489  
  1. *Number of IMAGE clones where N probe SNR > 10
  2. **Number of IMAGE clones previously reported (ref 9) as transcribed from antisense (out of Detected N signals total*)
  3. ***Number of IMAGE clones with > = 40 continuous bases homologous to repeats (out of Detected N signals total*)
  4. ****Number of IMAGE clones with > = 30 continuous bases on both sense- and antisense strand that match RefSeq (out of Detected N signals total*)
  5. +Number of IMAGE clones with > = 30 continuous bases complementary between sense- and antisense transcript (out of Detected N signals total*)
  6. ++Number of IMAGE clones with either repeats***, double hits****, or self-complementarity+(out of Detected N signals total*)
  7. +++Number of IMAGE clones that overlap between masked++and clones priviously reported** (out of Detected N signals total*)
  8. ++++Number of IMAGE clones with putative antisense transcription, i.e. those clones that are not masked++(out of Detected N signals total*)
  9. $Number of IMAGE clones previously reported as transcribed from antisense out of, Putative antisense signals total++++(percentage within parenthesis)
  10. $$Number of IMAGE clones not masked++ and not privously reported** as transcribed from antisense (out of Detected N signals total*)
  11. $$$Number of IMAGE clones with putative sense transcription, i.e. where C probe SNR > 10, excluding clones that are masked++
  12. $$$$Percent of IMAGE clones displaying N signal out of those that display C signals excluding clones that are masked++
  13. Note: values are paired per clone, i.e. the number of IMAGE clones with C signal and N signal as percentage of the number of IMAGE clones with C signal