associations. In parenthesis the total number of associations is given. ... module number is indicated preceded by 'c' for 'cluster' and in parentheses the number.
A
B
ta b as es Ex pe ri m en Ge ts ne Fu sio Te n xtmi n in Ne g igh bo r ho Co od -o c cu r re n Co ce -e x p re ss io n
80
All Network Associations
% Contribution
Da
70 60
Cell growth regulation, c4 (5)
50
Secretory pathway, c22 (8)
40
Glutamine family met., c24 (5) Cyt. lipid met., c45 (8)
C
30
Cell wall org. and biogen., c54 (5)
20
Vacuolar acidification, c58 (16)
10
Fatty acid syn., c12 (5)
Da tab as es (26 Ex 72 pe ) rim en ts (24 Ge 82 ne ) Fu sio n( Te 25 xt) mi nin g( 28 Ne 61 igh ) bo rho od Co (67 -oc 9) cu rre nc e Co (22 -ex 7) pre ss ion (45 35 )
Cyt. ribosome, c132 (13)
0
Mito./cyt. lipid met., c30 (5) Glutamate syn., c31 (6)
M/C
Glycerol met., c48 (8) tRNA aminoacyl., c80 (7) Alcohol/aldehyde dehy., c103 (10) RCC-IV, c1 (14) Mito. org. and morph., c6 (9) Ubiquinone met., c7 (11) Branched chain aa syn., c8 (10) RCC asm 1, c9 (6) Mito. protein targeting, c10 (5) Matrix protein import, c15 (10) Tim23/Tim22 complex, c16 (16) Unknown 2, c17 (5) Iron-sulfur cluster asm, c20 (13) Unknown 1, c27 (6)
80
Arg syn., c51 (5)
30
RNA splicing, c61 (12)
eF 9) us ion (9) ini ng Ne (18 igh 34 bo r ) h Co o o -oc d( 4 cu 2 5 r ren ) Co ce -ex (14 pre 3) ss ion (38 71 )
(26
aa met., c66 (8) RCC-IV asm, c69 (5)
ts (
es
Ge n
as tab
Ex
Ex
Da
as
Fusion/fission, c64 (6)
MRPL, c79 (48)
t-m
0
NAD met.,/TCA cycle c95 (13)
Te x
0
Translat. regulator activity, c62 (15)
6)
10
83
20
10
(24 pe rim 06 ) Ge ents (16 ne Fu 43 ) Te sio xtn( mi 16 nin ) Ne g (10 igh bo 27 rho ) Co od -oc (25 cu 4) rre Co nc -ex e (84 pre ) ss ion (66 4)
20
tab
TOM complex, c49 (11)
40
en
30
M
50
rim
40
Folate and glycine met., c46 (10)
60
pe
50
Pyr./α-ketoglutarate dehy., c37 (13)
Between Module Associations
70
% Contribution
60
es
% Contribution
70
Da
RCC asm 2, c28 (5)
80
Within Module Associations
tRNA/rRNA proces., c98 (11) MRPS, c99 (38) Transport, c115 (5) RCC-II, c147 (9) Isocitrate met., c149 (6) RCC-V, c155 (18) RCC-III, c156 (10) Response to DNA damage, c35 (7)
N/M
DNA replication, c41 (8)
N N M C 0%
Perocchi_Figure S3
Mismatch repair, c105 (5) (Nucleus) (Mitochondria) (Cytoplasm ) Evidence in module 100%
Figure S3. Breakdown of Association Evidence for Entire Network and Modules. A, Each protein-protein association has an evidence score associated with it. The percent contribution of each evidence type is plotted for the entire network and for each subcategory of associations: within module associations and between module associations. In parenthesis the total number of associations is given. B, The percent contribution of each evidence type to the total evidence in each module is plotted using a color scale. The modules are assigned to localization categories. For each module the module number is indicated preceded by ‘c’ for ‘cluster’ and in parentheses the number of proteins in the module.
