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 2058 to 2107 of 6456 in total

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

Rank	description	Network Comparison Type	red	green	network_comparison
1029	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]
	t-complex protein 1, epsilon subunit (tcp-1-epsilon) (cct-epsilon). [swissprot;acc:p48643]	Divided	163.24	168.359	1.03136
1041	3-oxo-5-alpha-steroid 4-dehydrogenase 2 (ec 1.3.99.5) (steroid 5-alpha-reductase 2) (sr type 2) (5 alpha-sr2). [swissprot;acc:p31213]	Subtracted	220.118	213.685	6.433
	heterogeneous nuclear ribonucleoprotein l (hnrnp l). [swissprot;acc:p14866]	Divided	186.774	181.099	1.03134
1042	estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [swissprot;acc:o75454]		186.799	181.127	1.03132
	ww domain binding protein 2 (wbp-2). [swissprot;acc:q969t9]	Subtracted	216.901	210.485	6.416
1043	1-acyl-sn-glycerol-3-phosphate acyltransferase gamma (ec 2.3.1.51) (1- agp acyltransferase 3) (1-agpat 3) (lysophosphatidic acid acyltransferase-gamma) (lpaat-gamma) (1-acylglycerol-3-phosphate o- acyltransferase 3). [swissprot;acc:q9nrz7]	Divided	187.834	182.137	1.03128
	nucleolar protein nop5 (nucleolar protein 5) (nop58) (hspc120). [swissprot;acc:q9y2x3]	Subtracted	239.219	232.837	6.382
1044	activator of camp-responsive element modulator (crem) in testis; lim protein act. [refseq;acc:nm_020482]		269.157	275.531	6.374
	t-complex associated-testis-expressed 1-like (protein 91/23). [swissprot;acc:p51808]	Divided	173.475	178.889	1.03121
1045	cystathionine beta-synthase (ec 4.2.1.22) (serine sulfhydrase) (beta-thionase). [swissprot;acc:p35520]	Subtracted	205.632	199.266	6.366
	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	Divided	115.817	119.432	1.03121
1046	double-strand break repair protein mre11a (mre11 homolog 1). [swissprot;acc:p49959]		173.475	178.889
	transforming protein rhoc (h9). [swissprot;acc:p08134]	Subtracted	205.632	199.266	6.366
1047	steroid hormone receptor err1 (estrogen-related receptor, alpha) (err-alpha) (estrogen receptor-like 1). [swissprot;acc:p11474]	Divided	187.022	181.391	1.03104
	thiosulfate sulfurtransferase (ec 2.8.1.1) (rhodanese). [swissprot;acc:q16762]	Subtracted	205.632	199.266	6.366
1048	1-acyl-sn-glycerol-3-phosphate acyltransferase delta (ec 2.3.1.51) (1- agp acyltransferase 4) (1-agpat 4) (lysophosphatidic acid acyltransferase-delta) (lpaat-delta) (1-acylglycerol-3-phosphate o- acyltransferase 4). [swissprot;acc:q9nrz5]	Divided	187.96	182.308	1.031
	3-mercaptopyruvate sulfurtransferase (ec 2.8.1.2) (mst). [swissprot;acc:p25325]	Subtracted	205.632	199.266	6.366
1049	adenine phosphoribosyltransferase (ec 2.4.2.7) (aprt). [swissprot;acc:p07741]	Divided	211.449	217.998	1.03097
	transforming protein rhoa (h12). [swissprot;acc:p06749]	Subtracted	205.632	199.266	6.366
1050	bystin. [swissprot;acc:q13895]		239.505	233.185	6.32
	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]	Divided	211.449	217.998	1.03097
1051	17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034]
	annexin a11 (annexin xi) (calcyclin-associated annexin 50) (cap-50) (56 kda autoantigen). [swissprot;acc:p50995]	Subtracted	219.673	213.378	6.295
1052	lysyl-trna synthetase (ec 6.1.1.6) (lysine--trna ligase) (lysrs). [swissprot;acc:q15046]		220.291	226.584	6.293
	retinol dehydrogenase 8 (all-trans); photoreceptor outer segment all-trans retinol dehydrogenase. [refseq;acc:nm_015725]	Divided	211.449	217.998	1.03097
1053	annexin a7 (annexin vii) (synexin). [swissprot;acc:p20073]	Subtracted	219.655	213.385	6.27
	proteasome subunit alpha type 5 (ec 3.4.25.1) (proteasome zeta chain) (macropain zeta chain) (multicatalytic endopeptidase complex zeta chain). [swissprot;acc:p28066]	Divided	207.04	200.84	1.03087
1054	60s ribosomal protein l21. [swissprot;acc:p46778]		223.958	217.263	1.03082

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.