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	Hugo	description	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

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Showing element 2025 to 2074 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
1013	HEATR1	protein bap28. [swissprot;acc:q9h583]	Divided	244.312	236.647	1.03239
	TOE1	target of egr1, member 1 (nuclear); target of egr1, member 1. [refseq;acc:nm_025077]	Subtracted	217.365	210.558	6.807
1014	AATF	apoptosis antagonizing transcription factor. [refseq;acc:nm_012138]	Divided	243.045	235.422	1.03238
	KPNA3	importin alpha-3 subunit (karyopherin alpha-3 subunit) (srp1-gamma). [swissprot;acc:o00505]	Subtracted	217.361	210.554	6.807
1015	EXOC3	exocyst complex component sec6. [swissprot;acc:o60645]		207.186	200.398	6.788
	MAGI1	bai1-associated protein 1; ww domain-containing protein 3; atrophin-1 interacting protein 3. [refseq;acc:nm_004742]	Divided	221.73	228.906	1.03236
1016	KPNA4	importin alpha-4 subunit (karyopherin alpha-4 subunit) (qip1 protein). [swissprot;acc:o00629]		217.369	210.561	1.03233
	TYR	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	SUCLG1	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
	TOE1	target of egr1, member 1 (nuclear); target of egr1, member 1. [refseq;acc:nm_025077]	Divided	217.365	210.558	1.03233
1018	KPNA3	importin alpha-3 subunit (karyopherin alpha-3 subunit) (srp1-gamma). [swissprot;acc:o00505]		217.361	210.554
	SUCLA2	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	no value	60s ribosomal protein l21. [swissprot;acc:p46778]		223.958	217.263	6.695
	TYRL	tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677]	Divided	221.302	214.409	1.03215
1020	no value	similar to ribosomal protein, large, p0. [sptrembl;acc:q96fq9]	Subtracted	226.218	232.88	6.662
	DCT	dopachrome tautomerase precursor (ec 5.3.3.12) (dt) (dct) (dopachrome delta-isomerase) (tyrosinase-related protein 2) (trp-2) (trp2). [swissprot;acc:p40126]	Divided	221.28	214.409	1.03205
1021	no value	block 23. [sptrembl;acc:q8nhw5]	Subtracted	226.205	232.858	6.653
	TYRP1	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
1022	CBS	cystathionine beta-synthase (ec 4.2.1.22) (serine sulfhydrase) (beta-thionase). [swissprot;acc:p35520]		205.632	199.266	1.03195
	RPLP0	60s acidic ribosomal protein p0 (l10e). [swissprot;acc:p05388]	Subtracted	226.203	232.855	6.652
1023	BLOC1S1	gcn5-like protein 1 (rt14 protein). [swissprot;acc:p78537]		202.027	195.386	6.641
	RHOC	transforming protein rhoc (h9). [swissprot;acc:p08134]	Divided	205.632	199.266	1.03195
1024	DPM1	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
	TST	thiosulfate sulfurtransferase (ec 2.8.1.1) (rhodanese). [swissprot;acc:q16762]	Divided	205.632	199.266	1.03195
1025	FAU	40s ribosomal protein s30. [swissprot;acc:q05472]	Subtracted	223.44	216.875	6.565
	MPST	3-mercaptopyruvate sulfurtransferase (ec 2.8.1.2) (mst). [swissprot;acc:p25325]	Divided	205.632	199.266	1.03195
1026	HAO1	hydroxyacid oxidase 1 (ec 1.1.3.15) (haox1) (glycolate oxidase) (gox). [swissprot;acc:q9ujm8]	Subtracted	231.922	238.486	6.564
	RHOA	transforming protein rhoa (h12). [swissprot;acc:p06749]	Divided	205.632	199.266	1.03195
1027	no value	adenine phosphoribosyltransferase (ec 2.4.2.7) (aprt). [swissprot;acc:p07741]	Subtracted	211.449	217.998	6.549
	SUCLG1	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	HSD17B1	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
	SUCLA2	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	no value	17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034]	Subtracted	211.449	217.998	6.549
	DDB1	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	PCCB	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]
	RDH8	retinol dehydrogenase 8 (all-trans); photoreceptor outer segment all-trans retinol dehydrogenase. [refseq;acc:nm_015725]	Subtracted	211.449	217.998	6.549
1031	ASNSD1	hcv ns3-transactivated protein 1. [refseq;acc:nm_019048]		219.01	212.468	6.542
	EMG1	probable ribosome biogenesis protein nep1 (c2f protein). [swissprot;acc:q92979]	Divided	242.978	235.518	1.03167
1032	AGPAT2	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
	ATP6V1A	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	ASNS	asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243]
	TYR	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	no value	40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677]	Subtracted	229.442	235.974	6.532
	ESRRB	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	MAGI2	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
	RPS27L	ribosomal protein s27-like protein; 40s ribosomal protein s27 isoform. [refseq;acc:nm_015920]	Subtracted	229.441	235.972	6.531
1036	COPB1	coatomer beta subunit (beta-coat protein) (beta-cop). [swissprot;acc:p53618]	Divided	171.341	176.746	1.03155
	DLD	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	GLRX3	thioredoxin-like; pkc-interacting cousin of thioredoxin. [refseq;acc:nm_006541]	Divided	228.412	235.609	1.03151
	NLK	nemo-like kinase; likely ortholog of mouse nemo like kinase. [refseq;acc:nm_016231]	Subtracted	218.162	211.648	6.514

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
- Hugo is the HGNC identifier if it exists
- 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.