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Table 4 Differentially-expressed genes with significance a

From: Differential gene expression in an elite hybrid rice cultivar (Oryza sativa, L) and its parental lines based on SAGE data

   Tag  
   P < 0.05 P < 0.01 Microarray-confirmed
  Tissue Total Up/Down (>= 2)b Up/Down (>1)b Total Up/Down (>= 2)b Up/Down (>1)b Total/<0.05/<0.01c
N vs L Panicle 371 99/80 188/167 123 33/25 52/66 1335/133/75
  Leave 411 130/64 231/126 199 81/37 124/51  
  Root 283 80/58 148/112 113 39/29 61/44  
  Panicle 666 136/238 265/332 558 123/220 221/281  
P vs L Leave 476 157/84 272/179 319 131/66 194/108 1209/142/35
  Root 346 81/88 155/162 185 47/56 80/89  
  Panicle 322 91/68 175/134 91 32/16 46/42  
Both Leave 286 121/39 194/77 125 76/21 97/29 232/53/8
  Root 194 65/36 102/73 65 31/16 37/28  
  Panicle 715 144/250 278/365 590 124/229 191/305  
Total Leave 601 166/109 309/228 393 136/72 221/130 2312/222/102
  Root 435 96/110 201/201 233 55/69 104/105  
  1. a We listed tags that have P-value less than 0.05 and 0.01 as significant thresholds for the dataset, and divided into three categories: PA64s vs. LYP9 (P vs. L), 93-11 vs. LYP9 (N vs. L), and the overlapped tags (Both). The statistics was based on the Audic and Claverie test statistic (IDEG6, http://telethon.bio.unipd.it/bioinfo/IDEG6_form/). b Up/Down are calculated with L/[(P+N)/2] for up-regulated tags and [(P+N)/2]/L for down-regulated tags. c The microarray data were extracted from experiments performed in our laboratory for a parallel analysis. Total consistent and significant gene numbers are listed