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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

Results: HTML CSV LaTeX

Showing element 2025 to 2074 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	description	Interaction Map	red	green	network_comparison
1013	inosine-5'-monophosphate dehydrogenase 2 (ec 1.1.1.205) (imp dehydrogenase 2) (impdh-ii) (impd 2). [swissprot;acc:p12268]	Low confidence	200.743	195.959	1.02441
	protein bap28. [swissprot;acc:q9h583]	High confidence	244.312	236.647	1.03239
1014	apoptosis antagonizing transcription factor. [refseq;acc:nm_012138]		243.045	235.422	1.03238
	methylenetetrahydrofolate reductase (ec 1.5.1.20). [swissprot;acc:p42898]	Low confidence	182.56	178.211	1.0244
1015	bai1-associated protein 1; ww domain-containing protein 3; atrophin-1 interacting protein 3. [refseq;acc:nm_004742]	High confidence	221.73	228.906	1.03236
	kinesin family member c3. [refseq;acc:nm_005550]	Low confidence	205.25	200.362	1.0244
1016	importin alpha-4 subunit (karyopherin alpha-4 subunit) (qip1 protein). [swissprot;acc:o00629]	High confidence	217.369	210.561	1.03233
	transcription initiation factor tfiid 55 kda subunit (tafii-55) (tafii55). [swissprot;acc:q15545]	Low confidence	201.283	196.49	1.02439
1017	inosine-5'-monophosphate dehydrogenase 1 (ec 1.1.1.205) (imp dehydrogenase 1) (impdh-i) (impd 1). [swissprot;acc:p20839]		200.745	195.966
	target of egr1, member 1 (nuclear); target of egr1, member 1. [refseq;acc:nm_025077]	High confidence	217.365	210.558	1.03233
1018	importin alpha-3 subunit (karyopherin alpha-3 subunit) (srp1-gamma). [swissprot;acc:o00505]		217.361	210.554
	similar to semaf cytoplasmic domain associated protein 3. [sptrembl;acc:q96cc2]	Low confidence	204.339	199.475	1.02438
1019	homeodomain interacting protein kinase 3; homeodomain-interacting protein kinase 3. [refseq;acc:nm_005734]		202.352	197.536
	tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677]	High confidence	221.302	214.409	1.03215
1020	dopachrome tautomerase precursor (ec 5.3.3.12) (dt) (dct) (dopachrome delta-isomerase) (tyrosinase-related protein 2) (trp-2) (trp2). [swissprot;acc:p40126]		221.28		1.03205
	short transient receptor potential channel 4 (trpc4) (trp-related protein 4) (htrp-4) (htrp4). [swissprot;acc:q9ubn4]	Low confidence	200.421	205.306	1.02437
1021	5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643]	High confidence	221.278	214.409	1.03204
	homeodomain-interacting protein kinase 2 (ec 2.7.1.-). [swissprot;acc:q9h2x6]	Low confidence	202.351	197.537	1.02437
1022	cystathionine beta-synthase (ec 4.2.1.22) (serine sulfhydrase) (beta-thionase). [swissprot;acc:p35520]	High confidence	205.632	199.266	1.03195
	homeodomain-interacting protein kinase 1; homeodomain interacting protein kinase 1-like protein; nuclear body associated kinase 2b. [refseq;acc:nm_152696]	Low confidence	202.351	197.538	1.02436
1023	geal-6 membrane-associated high-copy suppressor 1; unc-50 related. [refseq;acc:nm_014044]		203.215	208.165
	transforming protein rhoc (h9). [swissprot;acc:p08134]	High confidence	205.632	199.266	1.03195
1024	mitochondrial import inner membrane translocase subunit tim9 a. [swissprot;acc:q9y5j7]	Low confidence	205.995	201.097	1.02436
	thiosulfate sulfurtransferase (ec 2.8.1.1) (rhodanese). [swissprot;acc:q16762]	High confidence	205.632	199.266	1.03195
1025	3-mercaptopyruvate sulfurtransferase (ec 2.8.1.2) (mst). [swissprot;acc:p25325]
	nucleosome assembly protein 1-like 2 (brain-specific protein, x- linked). [swissprot;acc:q9ulw6]	Low confidence	201.047	196.275	1.02431
1026	gamma-sarcoglycan (gamma-sg) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q13326]		206.781	201.874
	transforming protein rhoa (h12). [swissprot;acc:p06749]	High confidence	205.632	199.266	1.03195
1027	protein cgi-147. [swissprot;acc:q9y3e5]	Low confidence	203.643	198.811	1.0243
	succinyl-coa ligase [gdp-forming] alpha-chain, mitochondrial precursor (ec 6.2.1.4) (succinyl-coa synthetase, alpha chain) (scs-alpha). [swissprot;acc:p53597]	High confidence	211.908	218.627	1.03171
1028	splicing factor, arginine/serine-rich 8 (suppressor of white apricot protein homolog). [swissprot;acc:q12872]	Low confidence	203.574	198.744	1.0243
	succinyl-coa ligase [adp-forming] beta-chain, mitochondrial precursor (ec 6.2.1.5) (succinyl-coa synthetase, betaa chain) (scs-betaa) (atp- specific succinyl-coa synthetase beta subunit). [swissprot;acc:q9p2r7]	High confidence	211.908	218.627	1.03171
1029	apical-like protein (apxl protein). [swissprot;acc:q13796]	Low confidence	204.847	199.989	1.02429
	dna damage binding protein 1 (damage-specific dna binding protein 1) (ddb p127 subunit) (ddba) (uv-damaged dna-binding protein 1) (uv-ddb 1) (xeroderma pigmentosum group e complementing protein) (xpce) (x- associated protein 1) (xap-1). [swissprot;acc:q16531]	High confidence	222.364	215.535	1.03168
1030	nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [swissprot;acc:q99733]	Low confidence	201.043	196.276	1.02429
	propionyl-coa carboxylase beta chain, mitochondrial precursor (ec 6.4.1.3) (pccase beta subunit) (propanoyl-coa:carbon dioxide ligase beta subunit). [swissprot;acc:p05166]	High confidence	222.364	215.535	1.03168
1031	probable ribosome biogenesis protein nep1 (c2f protein). [swissprot;acc:q92979]		242.978	235.518	1.03167
	thromboxane-a synthase (ec 5.3.99.5) (txa synthase) (txs). [swissprot;acc:p24557]	Low confidence	203.998	199.161	1.02429
1032	1-acyl-sn-glycerol-3-phosphate acyltransferase beta (ec 2.3.1.51) (1- agp acyltransferase 2) (1-agpat 2) (lysophosphatidic acid acyltransferase-beta) (lpaat-beta) (1-acylglycerol-3-phosphate o- acyltransferase 2). [swissprot;acc:o15120]	High confidence	186.664	180.943	1.03162
	sh3-containing grb2-like protein 1 (sh3 domain protein 2b) (extra eleven-nineteen leukemia fusion gene) (een) (een fusion partner of mll). [swissprot;acc:q99961]	Low confidence	203.946	199.111	1.02428
1033	septin 4 (peanut-like protein 2) (brain protein h5) (cell division control-related protein 2) (hcdcrel-2) (bradeion beta) (ce5b3 beta) (cerebral protein-7) (hucep-7). [swissprot;acc:o43236]		172.447	168.363	1.02426
	tyrosinase precursor (ec 1.14.18.1) (monophenol monooxygenase) (tumor rejection antigen ab) (sk29-ab) (lb24-ab). [swissprot;acc:p14679]	High confidence	221.183	214.406	1.03161
1034	multisynthetase complex auxiliary component p38 (jtv-1 protein) (pro0992). [swissprot;acc:q13155]	Low confidence	202.723	197.922	1.02426
	steroid hormone receptor err2 (estrogen-related receptor, beta) (err-beta) (estrogen receptor-like 2) (err beta-2). [swissprot;acc:o95718]	High confidence	186.551	180.837	1.0316
1035	atrophin-1 interacting protein 1; activin receptor interacting protein 1; likely ortholog of mouse activin receptor interacting protein 1; atrophin-1 interacting protein a; membrane associated guanylate kinase 2; activin receptor interacting p. [refseq;acc:nm_012301]		221.682	228.68	1.03157
	nucleosome assembly protein 1-like 1 (nap-1 related protein). [swissprot;acc:p55209]	Low confidence	201.037	196.277	1.02425
1036	coatomer beta subunit (beta-coat protein) (beta-cop). [swissprot;acc:p53618]	High confidence	171.341	176.746	1.03155
	ras-related protein rab-7. [swissprot;acc:p51149]	Low confidence	199.336	194.616	1.02425
1037	l-3-phosphoserine phosphatase (ec 3.1.3.3) (psp) (o-phosphoserine phosphohydrolase) (pspase). [swissprot;acc:p78330]		195.067	190.451	1.02424
	thioredoxin-like; pkc-interacting cousin of thioredoxin. [refseq;acc:nm_006541]	High confidence	228.412	235.609	1.03151

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.