MK5 Microarray Data

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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Value Type	Gene	Interaction Map	Rank	green	Filtered	description	Network Comparison Type	network_comparison	red

Results: HTML CSV LaTeX

Showing element 1180 to 1229 of 3228 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Network Comparison Type  : Divided

Rank	green	description	network_comparison	red
1180	212.672	vacuolar atp synthase 21 kda proteolipid subunit (ec 3.6.3.14) (hatpl). [swissprot;acc:q99437]	1.02593	218.186
1181		gamma-sarcoglycan (gamma-sg) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q13326]
1182	230.931	neurocalcin delta. [swissprot;acc:p29554]	1.02589	225.104
1183	230.928	neuron specific calcium-binding protein hippocalcin (p23k) (calcium- binding protein bdr-2). [swissprot;acc:p32076]	1.02588	225.103
1184	222.334	arf gtpase-activating protein git1 (g protein-coupled receptor kinase- interactor 1). [swissprot;acc:q9y2x7]	1.02586	216.729
1185	230.913	visinin-like protein 3 (vilip-3) (calcium-binding protein bdr-1) (hlp2) (hippocalcin-like protein 1). [swissprot;acc:p37235]	1.02585	225.094
1186	212.904	adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559]	1.02582	218.402
1187		vacuolar atp synthase subunit d (ec 3.6.3.14) (v-atpase d subunit) (vacuolar proton pump d subunit) (v-atpase ac39 subunit) (v-atpase 40 kda accessory protein) (p39) (32 kda accessory protein). [swissprot;acc:p12953]
1188		adp-ribosylation factor-like protein 4. [swissprot;acc:p40617]
1189	204.406	alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652]	1.02565	209.649
1190	204.372	ubiquitin. [swissprot;acc:p02248]	1.02558	209.6
1191	215.237	upstream binding protein 1 (lbp-1a). [refseq;acc:nm_014517]		220.742
1192		transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653]
1193		lbp-9. [refseq;acc:nm_014553]
1194		splicing factor, arginine/serine-rich 3 (pre-mrna splicing factor srp20) (x16 protein). [swissprot;acc:p23152]
1195	276.493	skeletal muscle lim-protein 3 (slim 3) (lim-domain protein dral) (four and a half lim domains protein 2) (fhl-2). [swissprot;acc:q14192]	1.02554	269.608
1196	219.264	kinesin protein. [refseq;acc:nm_032559]	1.02551	224.858
1197	213.6	mstp028 protein. [refseq;acc:nm_031954]	1.02548	219.042
1198	276.454	skeletal muscle lim-protein 2 (slim 2) (four and a half lim domains protein 3) (fhl-3). [swissprot;acc:q13643]	1.02546	269.59
1199	235.508	u3 small nucleolar ribonucleoprotein protein mpp10 (m phase phosphoprotein 10). [swissprot;acc:o00566]	1.02543	241.496
1200	213.604	swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily b member 1 (integrase interactor 1 protein) (hsnf5) (baf47). [swissprot;acc:q12824]	1.0254	219.03
1201	216.344	succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial precursor (ec 1.3.5.1) (fp) (flavoprotein subunit of complex ii). [swissprot;acc:p31040]		210.986
1202	233.041	diphthamide biosynthesis-like protein 2. [refseq;acc:nm_001384]	1.02537	227.274
1203	213.606	tumor necrosis factor, alpha-induced protein 1, endothelial (b12 protein). [swissprot;acc:q13829]	1.02536	219.023
1204	213.607	polymerase delta-interacting protein 1; tnfaip1-like. [refseq;acc:nm_178863]	1.02535	219.022
1205	219.251	ny-ren-62 antigen (fragment). [sptrembl;acc:q9y590]	1.02533	224.805
1206	212.891	integral membrane protein cii-3b. [sptrembl;acc:o75609]	1.02526	207.646
1207	212.888	succinate dehydrogenase cytochrome b560 subunit, mitochondrial precursor (integral membrane protein cii-3) (qps1) (qps-1) (succinate dehydrogenase complex subunit c) (succinate-ubiquinone oxidoreductase cytochrome b large subunit) (cybl). [swissprot;acc:q99643]	1.02525	207.644
1208	219.342	signal recognition particle receptor alpha subunit (sr-alpha) (docking protein alpha) (dp-alpha). [swissprot;acc:p08240]	1.02524	224.878
1209	213.175	succinate dehydrogenase [ubiquinone] iron-sulfur protein, mitochondrial precursor (ec 1.3.5.1) (ip) (iron-sulfur subunit of complex ii). [swissprot;acc:p21912]	1.02522	207.931
1210	219.241	kinesin-like protein kif2 (kinesin-2) (hk2). [swissprot;acc:o00139]	1.02519	224.764
1211	219.759	chromosome 11 open reading frame2; chromosome 11 open reading frame2. [refseq;acc:nm_013265]	1.02517	214.364
1212		kinesin-like protein kif13a (kinesin-like protein rbkin). [swissprot;acc:q9h1h9]
1213		conserved oligomeric golgi complex component 2 (low density lipoprotein receptor defect c-complementing protein). [swissprot;acc:q14746]
1214		kinesin-like protein kif13b (kinesin-like protein gakin). [swissprot;acc:q9nqt8]
1215	212.916	daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959]	1.02514	218.268
1216	212.918	retinoic acid induced 17; pias-like protein hzimp10. [refseq;acc:nm_020338]	1.02513	218.269
1217	217.258	glutaminyl-trna synthase (glutamine-hydrolyzing)-like 1. [refseq;acc:nm_018292]	1.025	211.959
1218		fatty-acid amide hydrolase (ec 3.1.-.-) (oleamide hydrolase) (anandamide amidohydrolase). [swissprot;acc:o00519]
1219		coactosin-like protein. [swissprot;acc:q14019]
1220		uracil-dna glycosylase, mitochondrial precursor (ec 3.2.2.-) (udg). [swissprot;acc:p13051]
1221		probable glutamyl-trna(gln) amidotransferase subunit b, mitochondrial precursor (ec 6.3.5.-) (glu-adt subunit b) (cytochrome oxidase assembly factor pet112 homolog). [swissprot;acc:o75879]
1222	211.936	tumor protein d53 (hd53) (d52-like 1). [swissprot;acc:q16890]	1.02496	206.774
1223	211.926	tumor protein d52 (n8 protein). [swissprot;acc:p55327]	1.02493	206.771
1224	231.524	folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [swissprot;acc:q05932]	1.02487	225.906
1225	170.989	ubiquitin-conjugating enzyme e2 e1 (ec 6.3.2.19) (ubiquitin-protein ligase e1) (ubiquitin carrier protein e1) (ubch6). [swissprot;acc:p51965]	1.02483	166.846
1226		ubiquitin-conjugating enzyme e2e 3; ubiquitin carrier protein; ubiquitin-protein ligase. [refseq;acc:nm_006357]
1227	168.219	pyrroline 5-carboxylate reductase isoform. [refseq;acc:nm_013328]	1.02465	172.365
1228	218.325	glutamate--cysteine ligase regulatory subunit (ec 6.3.2.2) (gamma- glutamylcysteine synthetase) (gamma-ecs) (gcs light chain) (glutamate--cysteine ligase modifier subunit). [swissprot;acc:p48507]	1.02462	213.079
1229		glutamate--cysteine ligase catalytic subunit (ec 6.3.2.2) (gamma- glutamylcysteine synthetase) (gamma-ecs) (gcs heavy chain). [swissprot;acc:p48506]

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.