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

Results: HTML CSV LaTeX

Showing element 2025 to 2074 of 6456 in total

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

Rank	Network Comparison Type	Hugo	description	red	green	network_comparison
1013	Divided	HEATR1	protein bap28. [swissprot;acc:q9h583]	244.312	236.647	1.03239
	Subtracted	TOE1	target of egr1, member 1 (nuclear); target of egr1, member 1. [refseq;acc:nm_025077]	217.365	210.558	6.807
1014	Divided	AATF	apoptosis antagonizing transcription factor. [refseq;acc:nm_012138]	243.045	235.422	1.03238
	Subtracted	KPNA3	importin alpha-3 subunit (karyopherin alpha-3 subunit) (srp1-gamma). [swissprot;acc:o00505]	217.361	210.554	6.807
1015	Divided	MAGI1	bai1-associated protein 1; ww domain-containing protein 3; atrophin-1 interacting protein 3. [refseq;acc:nm_004742]	221.73	228.906	1.03236
	Subtracted	EXOC3	exocyst complex component sec6. [swissprot;acc:o60645]	207.186	200.398	6.788
1016	Divided	KPNA4	importin alpha-4 subunit (karyopherin alpha-4 subunit) (qip1 protein). [swissprot;acc:o00629]	217.369	210.561	1.03233
	Subtracted	TYR	tyrosinase precursor (ec 1.14.18.1) (monophenol monooxygenase) (tumor rejection antigen ab) (sk29-ab) (lb24-ab). [swissprot;acc:p14679]	221.183	214.406	6.777
1017	Divided	TOE1	target of egr1, member 1 (nuclear); target of egr1, member 1. [refseq;acc:nm_025077]	217.365	210.558	1.03233
	Subtracted	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
1018	Divided	KPNA3	importin alpha-3 subunit (karyopherin alpha-3 subunit) (srp1-gamma). [swissprot;acc:o00505]	217.361	210.554	1.03233
	Subtracted	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]	211.908	218.627	6.719
1019	Divided	TYRL	tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677]	221.302	214.409	1.03215
	Subtracted	no value	60s ribosomal protein l21. [swissprot;acc:p46778]	223.958	217.263	6.695
1020	Divided	DCT	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	214.409	1.03205
	Subtracted	no value	similar to ribosomal protein, large, p0. [sptrembl;acc:q96fq9]	226.218	232.88	6.662
1021	Divided	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]	221.278	214.409	1.03204
	Subtracted	no value	block 23. [sptrembl;acc:q8nhw5]	226.205	232.858	6.653
1022	Divided	CBS	cystathionine beta-synthase (ec 4.2.1.22) (serine sulfhydrase) (beta-thionase). [swissprot;acc:p35520]	205.632	199.266	1.03195
	Subtracted	RPLP0	60s acidic ribosomal protein p0 (l10e). [swissprot;acc:p05388]	226.203	232.855	6.652
1023	Divided	RHOC	transforming protein rhoc (h9). [swissprot;acc:p08134]	205.632	199.266	1.03195
	Subtracted	BLOC1S1	gcn5-like protein 1 (rt14 protein). [swissprot;acc:p78537]	202.027	195.386	6.641
1024	Divided	TST	thiosulfate sulfurtransferase (ec 2.8.1.1) (rhodanese). [swissprot;acc:q16762]	205.632	199.266	1.03195
	Subtracted	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]	203.381	196.76	6.621
1025	Divided	MPST	3-mercaptopyruvate sulfurtransferase (ec 2.8.1.2) (mst). [swissprot;acc:p25325]	205.632	199.266	1.03195
	Subtracted	FAU	40s ribosomal protein s30. [swissprot;acc:q05472]	223.44	216.875	6.565
1026	Divided	RHOA	transforming protein rhoa (h12). [swissprot;acc:p06749]	205.632	199.266	1.03195
	Subtracted	HAO1	hydroxyacid oxidase 1 (ec 1.1.3.15) (haox1) (glycolate oxidase) (gox). [swissprot;acc:q9ujm8]	231.922	238.486	6.564
1027	Divided	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	1.03171
	Subtracted	no value	adenine phosphoribosyltransferase (ec 2.4.2.7) (aprt). [swissprot;acc:p07741]	211.449	217.998	6.549
1028	Divided	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]	211.908	218.627	1.03171
	Subtracted	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]	211.449	217.998	6.549
1029	Divided	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]	222.364	215.535	1.03168
	Subtracted	no value	17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034]	211.449	217.998	6.549
1030	Divided	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]	222.364	215.535	1.03168
	Subtracted	RDH8	retinol dehydrogenase 8 (all-trans); photoreceptor outer segment all-trans retinol dehydrogenase. [refseq;acc:nm_015725]	211.449	217.998	6.549
1031	Divided	EMG1	probable ribosome biogenesis protein nep1 (c2f protein). [swissprot;acc:q92979]	242.978	235.518	1.03167
	Subtracted	ASNSD1	hcv ns3-transactivated protein 1. [refseq;acc:nm_019048]	219.01	212.468	6.542
1032	Divided	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
	Subtracted	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]	219.01	212.468	6.542
1033	Divided	TYR	tyrosinase precursor (ec 1.14.18.1) (monophenol monooxygenase) (tumor rejection antigen ab) (sk29-ab) (lb24-ab). [swissprot;acc:p14679]	221.183	214.406	1.03161
	Subtracted	ASNS	asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243]	219.01	212.468	6.542
1034	Divided	ESRRB	steroid hormone receptor err2 (estrogen-related receptor, beta) (err-beta) (estrogen receptor-like 2) (err beta-2). [swissprot;acc:o95718]	186.551	180.837	1.0316
	Subtracted	no value	40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677]	229.442	235.974	6.532
1035	Divided	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
	Subtracted	RPS27L	ribosomal protein s27-like protein; 40s ribosomal protein s27 isoform. [refseq;acc:nm_015920]	229.441	235.972	6.531
1036	Divided	COPB1	coatomer beta subunit (beta-coat protein) (beta-cop). [swissprot;acc:p53618]	171.341	176.746	1.03155
	Subtracted	DLD	dihydrolipoamide dehydrogenase, mitochondrial precursor (ec 1.8.1.4) (glycine cleavage system l protein). [swissprot;acc:p09622]	207.719	214.236	6.517
1037	Divided	GLRX3	thioredoxin-like; pkc-interacting cousin of thioredoxin. [refseq;acc:nm_006541]	228.412	235.609	1.03151
	Subtracted	NLK	nemo-like kinase; likely ortholog of mouse nemo like kinase. [refseq;acc:nm_016231]	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.