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Table 8 The genes composing the complete ethanol and non-ethanol signatures (see Tables 6 and 7) are organized here by functional groups as described by Riley and Serres [20].

From: A novel data mining method to identify assay-specific signatures in functional genomic studies

Functional Group Gene Name
Known Functions (92, 100%)
   Carbon compound catabolism (4/4%) nagA mhpB; bglA alsE
   Central intermediary metabolism (6/7%) tktB speD ylbC sfcA cpsB; tktA
   Energy metabolism (3/3%) nrfG hyfD; nrfE
   Amino acid biosynthesis (3/3%) argH; leuA trpD
   Cofactors and prosthetic groups (6/7%) moaE grxB hemX nadB; gshA
   Lipid metabolism (1/1%) plsC
   Transport (13/14%) mngA amtB glvC livJ mtlA uhpT livK fes; cvrA feoB nagE kdpB betT
   Cell processes (10/11%) fliF zipA xerC fliG tolB; pqiB aidB norV amiA hscC
   Cell structure (5/5%) mepA nlpC fhuA ynfA; dsbC
   Regulatory function (15/16%) wzzB uidR hcaR nagC hnr cbl lysR rstA gcvA pspF; evgS arcB gppA cyaA lon
   DNA replication, repair, modification (7/8%) yaiD xthA topB uvrC parC tus; dnaN
   Transcription/RNA processing/degradation (4/4%) pnp dbpA; rne deaD
   Translation/post-translational modification (12/13%) aat mnmE; tufA fusA rplO tufB alaS rplD rplX glnS infC rplP
   Phage, transposon, or plasmid (3/3%) ydaP intA ylbF
   Putative Functions (59, 100%)  
General (21/36%) yfeA ycbX ydhS yibN yagX yeiQ yiaL yhhX yneB yccU ycdJ yhiI yciQ yggF ycdI ybdL ybfL; ygjK ynfE yphG ygbE
Cell processes an energy metabolism (1/2%) caiA
Cell structure (1/2%) yebU
Central intermediary metabolism (1/2%) sgbU
Carbon catabolism (1/2%) ydiF
Nucleotide biosynthesis (1/2%) hyuA
Transport (7/12%) fdrA yheH yhiP ybhS ybgH; ybbA yejA
Regulation (26/44%) ygfZ yhfR ybhD ycfX yeeY yiaJ kdgR yfeR ygbI ypdC ydhB yhaJ uvrY yidL recX nanR yidF ycgE yfcD ydcI ygcP ybjN yidP; yehI yehU yfiE
   Hypothetical Functions (26, 100%) yaiY ydcK ychA ydfU yqcD yagB ybgI ydfP yjcZ yhcP yaeJ yagR yagZ yaeQ ydiU yhaM ydfE ytfM ynjH ynfC ybfO; ybhH ybeQ yqjI yoaD yhgF
  1. A semicolon separates the two groups of genes and those corresponding to the non-ethanol signature are underlined. The composition of the groups was updated using the latest information available in the literature [21-43]. Functional groups were organized in three categories: (1) known functions, (2) putative functions, and (3) hypothetical functions. The putative category was subdivided according to the specific putative function of each gene. Numbers in parenthesis are the total number of genes identified for the functional group and the percentage they represent respect to the total number of genes identified for the category, respectively.