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 2030 to 2079 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Network Comparison Type	red	green	network_comparison
1015	exocyst complex component sec6. [swissprot;acc:o60645]	Subtracted	207.186	200.398	6.788
1016	importin alpha-4 subunit (karyopherin alpha-4 subunit) (qip1 protein). [swissprot;acc:o00629]	Divided	217.369	210.561	1.03233
	tyrosinase precursor (ec 1.14.18.1) (monophenol monooxygenase) (tumor rejection antigen ab) (sk29-ab) (lb24-ab). [swissprot;acc:p14679]	Subtracted	221.183	214.406	6.777
1017	succinyl-coa ligase [gdp-forming] alpha-chain, mitochondrial precursor (ec 6.2.1.4) (succinyl-coa synthetase, alpha chain) (scs-alpha). [swissprot;acc:p53597]		211.908	218.627	6.719
	target of egr1, member 1 (nuclear); target of egr1, member 1. [refseq;acc:nm_025077]	Divided	217.365	210.558	1.03233
1018	importin alpha-3 subunit (karyopherin alpha-3 subunit) (srp1-gamma). [swissprot;acc:o00505]		217.361	210.554
	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]	Subtracted	211.908	218.627	6.719
1019	60s ribosomal protein l21. [swissprot;acc:p46778]		223.958	217.263	6.695
	tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677]	Divided	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
	similar to ribosomal protein, large, p0. [sptrembl;acc:q96fq9]	Subtracted	226.218	232.88	6.662
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]	Divided	221.278	214.409	1.03204
	block 23. [sptrembl;acc:q8nhw5]	Subtracted	226.205	232.858	6.653
1022	60s acidic ribosomal protein p0 (l10e). [swissprot;acc:p05388]		226.203	232.855	6.652
	cystathionine beta-synthase (ec 4.2.1.22) (serine sulfhydrase) (beta-thionase). [swissprot;acc:p35520]	Divided	205.632	199.266	1.03195
1023	gcn5-like protein 1 (rt14 protein). [swissprot;acc:p78537]	Subtracted	202.027	195.386	6.641
	transforming protein rhoc (h9). [swissprot;acc:p08134]	Divided	205.632	199.266	1.03195
1024	dolichol-phosphate mannosyltransferase (ec 2.4.1.83) (dolichol- phosphate mannose synthase) (dolichyl-phosphate beta-d- mannosyltransferase) (mannose-p-dolichol synthase) (mpd synthase) (dpm synthase). [swissprot;acc:o60762]	Subtracted	203.381	196.76	6.621
	thiosulfate sulfurtransferase (ec 2.8.1.1) (rhodanese). [swissprot;acc:q16762]	Divided	205.632	199.266	1.03195
1025	3-mercaptopyruvate sulfurtransferase (ec 2.8.1.2) (mst). [swissprot;acc:p25325]
	40s ribosomal protein s30. [swissprot;acc:q05472]	Subtracted	223.44	216.875	6.565
1026	hydroxyacid oxidase 1 (ec 1.1.3.15) (haox1) (glycolate oxidase) (gox). [swissprot;acc:q9ujm8]		231.922	238.486	6.564
	transforming protein rhoa (h12). [swissprot;acc:p06749]	Divided	205.632	199.266	1.03195
1027	adenine phosphoribosyltransferase (ec 2.4.2.7) (aprt). [swissprot;acc:p07741]	Subtracted	211.449	217.998	6.549
	succinyl-coa ligase [gdp-forming] alpha-chain, mitochondrial precursor (ec 6.2.1.4) (succinyl-coa synthetase, alpha chain) (scs-alpha). [swissprot;acc:p53597]	Divided	211.908	218.627	1.03171
1028	estradiol 17 beta-dehydrogenase 1 (ec 1.1.1.62) (17-beta-hsd 1) (placental 17-beta-hydroxysteroid dehydrogenase) (20 alpha- hydroxysteroid dehydrogenase) (20-alpha-hsd) (e2dh). [swissprot;acc:p14061]	Subtracted	211.449	217.998	6.549
	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]	Divided	211.908	218.627	1.03171
1029	17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034]	Subtracted	211.449	217.998	6.549
	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]	Divided	222.364	215.535	1.03168
1030	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]
	retinol dehydrogenase 8 (all-trans); photoreceptor outer segment all-trans retinol dehydrogenase. [refseq;acc:nm_015725]	Subtracted	211.449	217.998	6.549
1031	hcv ns3-transactivated protein 1. [refseq;acc:nm_019048]		219.01	212.468	6.542
	probable ribosome biogenesis protein nep1 (c2f protein). [swissprot;acc:q92979]	Divided	242.978	235.518	1.03167
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]		186.664	180.943	1.03162
	vacuolar atp synthase catalytic subunit a, ubiquitous isoform (ec 3.6.3.14) (v-atpase a subunit 1) (vacuolar proton pump alpha subunit 1) (v-atpase 69 kda subunit 1) (isoform va68). [swissprot;acc:p38606]	Subtracted	219.01	212.468	6.542
1033	asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243]
	tyrosinase precursor (ec 1.14.18.1) (monophenol monooxygenase) (tumor rejection antigen ab) (sk29-ab) (lb24-ab). [swissprot;acc:p14679]	Divided	221.183	214.406	1.03161
1034	40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677]	Subtracted	229.442	235.974	6.532
	steroid hormone receptor err2 (estrogen-related receptor, beta) (err-beta) (estrogen receptor-like 2) (err beta-2). [swissprot;acc:o95718]	Divided	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
	ribosomal protein s27-like protein; 40s ribosomal protein s27 isoform. [refseq;acc:nm_015920]	Subtracted	229.441	235.972	6.531
1036	coatomer beta subunit (beta-coat protein) (beta-cop). [swissprot;acc:p53618]	Divided	171.341	176.746	1.03155
	dihydrolipoamide dehydrogenase, mitochondrial precursor (ec 1.8.1.4) (glycine cleavage system l protein). [swissprot;acc:p09622]	Subtracted	207.719	214.236	6.517
1037	nemo-like kinase; likely ortholog of mouse nemo like kinase. [refseq;acc:nm_016231]		218.162	211.648	6.514
	thioredoxin-like; pkc-interacting cousin of thioredoxin. [refseq;acc:nm_006541]	Divided	228.412	235.609	1.03151
1038	1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (ec 2.3.1.51) (1- agp acyltransferase 1) (1-agpat 1) (lysophosphatidic acid acyltransferase-alpha) (lpaat-alpha) (1-acylglycerol-3-phosphate o- acyltransferase 1) (g15 protein). [swissprot;acc:q99943]		186.741	181.041	1.03148
	elks protein. [refseq;acc:nm_015064]	Subtracted	218.162	211.648	6.514
1039	dihydrolipoamide dehydrogenase, mitochondrial precursor (ec 1.8.1.4) (glycine cleavage system l protein). [swissprot;acc:p09622]	Divided	207.719	214.236	1.03137
	phafin 2; ph and fyve domain-containing protein 2. [refseq;acc:nm_024613]	Subtracted	220.118	213.685	6.433
1040	3-oxo-5-alpha-steroid 4-dehydrogenase 1 (ec 1.3.99.5) (steroid 5-alpha-reductase 1) (sr type 1) (s5ar). [swissprot;acc:p18405]

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.