Table 2

Enrichment analysis of 10 randomly selected modules

Module

Protein

Main functions


BP(-log P-value)

MF(-log P-value)

CC(-log P-value)


3

CDC39/MOT2/NOT3/NOT5/

nuclear-transcribed mRNA poly(A) tail shortening (21.60)

ubiquitin-protein ligase activity (10.50)

CCR4-NOT core complex (24.36)

5

MSH2/MLH1/MSH3/MSH6/PMS1/

meiotic mismatch repair (31.64)

mismatched DNA binding (33.15)

mismatch repair complex (33.61)

11

SEN15/SEN2/SEN34/SEN54/

tRNA-type intron splice site recognition and cleavage (29.28)

endoribonuclease activity, producing 3'-phosphomonoesters (30.03)

tRNA-intron endonuclease complex (29.00)

12

DIS3/RRP4/RRP42/RRP43/SKI6/

nuclear polyadenylation-dependent mRNA catabolic process (27.68)

molecular function unknown (RRP4/RRP42/RRP43/SKI6)

cytoplasmic exosome (RNase complex (30.24)

21

CDC23/CDC16/APC9/APC4/APC2/APC11/APC1/APC5/CDC26/CDC27/DOC1/MND2/SWM1/

anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (75.04)

ubiquitin-protein ligase activity (44.07)

anaphase-promoting complex (83.63)

25

MRS11/TIM12/TIM22/TIM18/TIM54/TIM10/MRS5/TIM9/

protein import into mitochondrial inner membrane (38.73)

protein transporter activity (27.42)

mitochondrial inner membrane protein insertion complex (43.22)

26

TOM6/TOM5/TOM40/TOM20/TOM22/TOM7/TOM70/

protein targeting to mitochondrion (31.14)

protein channel activity

(42.21)

mitochondrial outer membrane translocase complex (47.98)

98

YOL103w-b/PAN6/YOR142w-a/YER159c-a/YPR158w-a/

transposition, RNA-mediated (14.06)

RNA binding (6.37)

retrotransposon nucleocapsid (13.24)

103

TRS85/TRS33/TRS130/TRS20/GSG1/TRS65/TRS31/TRS23/TRS120/BET3/SED5/SLY1/BOS1/BET5/DSS4/YPT1/BET1/SEC34/YKT6/YPT6/SEC22/KRE11/

golgi vesicle transport (62.74)

rab guanyl-nucleotide exchange factor activity (35.95)

TRAPP complex (55.19)

115

rox3/sfl1/sin4/srb11/srb9/

positive regulation of transcription from RNA polymerase II promoter (9.93)

transcription factor binding transcription factor activity (15.39)

mediator complex (18.12)


Main functions: the GO term that obtained according to -log P-values of all modules for biological process (BP), molecular functions (MF) and cellular component (CC).

Wang et al. BMC Bioinformatics 2012 13(Suppl 7):S4   doi:10.1186/1471-2105-13-S7-S4

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