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Table 1 Whole embryo mRNA decay analysis: functional annotation of high-stability and low-stability mRNAs

From: Dynamic regulation of mRNA decay during neural development

Whole embryo measurements: high-stability mRNAs
GO term Definition P value FDR Count Fold enrichment
0022626 Cytosolic ribosome 2 × 10−57 5 × 10−56 67 10.3
  RpL4, RpL23, RpS16, RpS24     
0000022 Microtubule cytoskeleton 8 × 10−17 3 × 10−14 57 3.5
  Tub84b, Tub56D, ssp4, robl     
0022900 Electron transport chain 1 × 10−14 2 × 10−12 29 5.9
  mt:Cyt-b, mt:CoI, mt:CoII, mt:ND1     
0031497 Chromatin assembly 2 × 10−9 2 × 10−7 15 7.8
  His1, His2A, His2Av, His2B, His3     
0045941 Positive regulation of transcription 4 × 10−3 .14 15 2.4
  DSIF, HP1, Trl, ash2, lid, arm, btd     
0048024 Regulation of mRNA splicing 7 × 10−3 .19 10 2.9
  Hrb27c, Hrb87f, B52, SC35, snf     
Whole embryo measurements: low-stability mRNAs
GO term Definition P value FDR Count Fold enrichment
0004672 Protein kinase activity 2 × 10−9 1 × 10−6 41 2.6
  S6kII, BubR1, mkk4, dTOR, wts, htl     
0048812 Neuron projection morphogenesis 2 × 10−8 2 × 10−6 40 2.7
  Con, trio, Ephrin, Eph, otk, drl, rl     
0006351 Transcription 1 × 10−5 4 × 10−4 47 1.8
  svp, dpn, Myc, grn, kn, Trx, eve     
0019226 Transmission of nerve impulse 3 × 10−5 9 × 10−4 26 2.6
  CASK, cha, synaptogyrin, cpx, shi     
0014706 Striated muscle tissue development 3 × 10−5 1 × 10−3 11 5.3
  Hem, Mef2, Mlp84B, flw, mbc     
0051674 Localization of cell 5 × 10−4 .01 23 2.3
  cbl, APC, Dl, Mhc, baz, dome, cv-c     
  1. Gene ontology categories enriched among the 500 most stable and 500 least stable transcripts were identified using DAVID. Representative genes are listed for each category. FDR is the Benjamini-Hochberg false discovery rate.