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 5408 to 5457 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Value Type	red	green	network_comparison
1352	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]	Ranked	211.513	206.941	1.02209
1353	cyclin c. [swissprot;acc:p24863]	Measured	6200.93	6690.57	1.07896
	heparin sulfate n-deacetylase/n-sulfotransferase (ec 2.8.2.-) (n- hsst) (n-heparin sulfate sulfotransferase) (glucosaminyl n- deacetylase/n-sulfotransferase). [swissprot;acc:p52849]	Ranked	228.409	223.475	1.02208
	orphan nuclear receptor hmr (early response protein nak1) (tr3 orphan receptor). [swissprot;acc:p22736]	Rooted	65.1528	67.8168	1.04089
	pdz/coiled-coil domain binding partner for the rho-family gtpase tc10; fused in glioblastoma; golgi associated pdz and coiled-coil motif containing protein; cftr-associated ligand. [refseq;acc:nm_020399]	Squared	26925.7	30311.3	1.12574
1354	actin, cytoplasmic 2 (gamma-actin). [swissprot;acc:p02571]	Measured	6036.22	6512.64	1.07893
	n-deacetylase/n-sulfotransferase (heparan glucosaminyl) 3. [refseq;acc:nm_004784]	Ranked	228.409	223.475	1.02208
	nucleoporin-like protein rip (hiv-1 rev-binding protein) (rev interacting protein) (rev/rex activation domain-binding protein). [swissprot;acc:p52594]	Rooted	60.4911	58.1154	1.04088
	rad54-like protein; rad54 homolog. [refseq;acc:nm_003579]	Squared	25950.5	29212.5	1.1257
1355	glycine dehydrogenase [decarboxylating], mitochondrial precursor (ec 1.4.4.2) (glycine decarboxylase) (glycine cleavage system p- protein). [swissprot;acc:p23378]		25294.8	28473	1.12565
	intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811]	Rooted	60.4911	58.1154	1.04088
	n-deacetylase/n-sulfotransferase 4. [refseq;acc:nm_022569]	Ranked	228.409	223.475	1.02208
	ornithine carbamoyltransferase, mitochondrial precursor (ec 2.1.3.3) (otcase) (ornithine transcarbamylase). [swissprot;acc:p00480]	Measured	5783.9	6240.19	1.07889
1356	calcipressin 1 (down syndrome critical region protein 1) (myocyte- enriched calcineurin interacting protein 1) (mcip1) (adapt78). [swissprot;acc:p53805]		5657.71	6103.57	1.07881
	heparan sulfate n-deacetylase/n-sulfotransferase (ec 2.8.2.8) (n-hsst) (hsnst) ([heparan sulfate]-glucosamine n-sulfotransferase) (n-heparan sulfate sulfotransferase) (glucosaminyl n-deacetylase/n- sulfotransferase). [swissprot;acc:p52848]	Ranked	228.409	223.475	1.02208
	hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [swissprot;acc:p46597]	Squared	23066.6	25964.6	1.12564
	pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152]	Rooted	60.4911	58.1154	1.04088
1357	dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2]	Measured	5657.71	6103.54	1.0788
	importin 7; ran-binding protein 7. [refseq;acc:nm_006391]	Squared	24948.9	28072.6	1.1252
	nuclear hormone receptor nor-1 (neuron-derived orphan receptor 1) (mitogen induced nuclear orphan receptor). [swissprot;acc:q92570]	Rooted	65.1521	67.8158	1.04088
	protein cdc27hs (cell division cycle protein 27 homolog) (h-nuc). [swissprot;acc:p30260]	Ranked	228.409	223.475	1.02208
1358	importin 8; ran-binding protein 8. [refseq;acc:nm_006390]	Squared	24948.9	28072.6	1.1252
	intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3]	Rooted	60.4911	58.1154	1.04088
	upstream stimulatory factor 1 (major late transcription factor 1). [swissprot;acc:p22415]	Ranked	214.987	210.359	1.022
	zinc finger protein zic 4 (zinc finger protein of the cerebellum 4) (fragment). [swissprot;acc:q8n9l1]	Measured	5657.71	6103.54	1.0788
1359	brefeldin a-inhibited guanine nucleotide-exchange protein 2 (brefeldin a-inhibited gep 2). [swissprot;acc:q9y6d5]	Squared	24948.9	28072.6	1.1252
	dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]	Measured	5657.71	6103.54	1.0788
	glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712]	Ranked	228.642	223.726	1.02197
	hiv-1 rev binding protein-like; rev/rex activation domain binding protein-related. [refseq;acc:nm_006076]	Rooted	60.4911	58.1154	1.04088
1360	calcipressin 2 (thyroid hormone-responsive protein zaki-4) (down syndrome candidate region 1-like 1) (myocyte-enriched calcineurin interacting protein 2) (mcip2). [swissprot;acc:q14206]	Measured	5657.72	6103.52	1.07879
	cgthba protein (-14 gene protein). [swissprot;acc:q12980]	Rooted	60.4911	58.1154	1.04088
	hsgcn1 (fragment). [sptrembl;acc:q99736]	Squared	24948.9	28072.6	1.1252
	tgf-beta receptor type i precursor (ec 2.7.1.37) (tgfr-1) (tgf-beta type i receptor) (serine/threonine-protein kinase receptor r4) (skr4) (activin receptor-like kinase 5) (alk-5). [swissprot;acc:p36897]	Ranked	223.89	228.805	1.02195
1361	brefeldin a-inhibited guanine nucleotide-exchange protein 1 (brefeldin a-inhibited gep 1) (p200 arf-gep1) (p200 arf guanine nucleotide exchange factor). [swissprot;acc:q9y6d6]	Squared	24948.9	28072.6	1.1252
	calcipressin 3 (down syndrome candidate region 1-like protein 2) (myocyte-enriched calcineurin interacting protein 3) (mcip3). [swissprot;acc:q9uka8]	Measured	5657.72	6103.52	1.07879
	hiv tat specific factor 1; cofactor required for tat activation of hiv-1 transcription. [refseq;acc:nm_014500]	Rooted	60.4911	58.1154	1.04088
	upstream stimulatory factor 2 (upstream transcription factor 2) (fos-interacting protein) (fip) (major late transcription factor 2). [swissprot;acc:q15853]	Ranked	214.971	210.354	1.02195
1362	5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [swissprot;acc:q99707]	Rooted	61.5231	64.0358	1.04084
	peroxisomal n1-acetyl-spermine/spermidine oxidase. [refseq;acc:nm_152911]	Ranked	228.644	223.736	1.02194
	sequestosome 1; ubiquitin-binding protein p62; phosphotyrosine independent ligand for the lck sh2 domain p62. [refseq;acc:nm_003900]	Measured	6322.75	6820.5	1.07872
	zinc finger protein t86. [swissprot;acc:o00488]	Squared	16283.6	18321.8	1.12517
1363	camp response element-binding protein cre-bpa. [refseq;acc:nm_004904]	Ranked	218.591	213.899	1.02194
	hydroxyacid oxidase 1 (ec 1.1.3.15) (haox1) (glycolate oxidase) (gox). [swissprot;acc:q9ujm8]	Squared	17915.5	20153.8	1.12494
	nonspecific lipid-transfer protein, mitochondrial precursor (nsl-tp) (sterol carrier protein 2) (scp-2) (sterol carrier protein x) (scp-x) (scpx). [swissprot;acc:p22307]	Measured	6322.75	6820.5	1.07872
	orphan nuclear receptor nurr1 (immediate-early response protein not) (transcriptionally inducible nuclear receptor). [swissprot;acc:p43354]	Rooted	65.1444	67.8042	1.04083
1364	diphosphomevalonate decarboxylase (ec 4.1.1.33) (mevalonate pyrophosphate decarboxylase) (mevalonate (diphospho)decarboxylase). [swissprot;acc:p53602]	Squared	17001.7	19119	1.12453
	protein c20orf4 (protein cgi-23) (pro0225). [swissprot;acc:q9y312]	Measured	5815.14	6272.66	1.07868
	putative sialoglycoprotease type 2. [refseq;acc:nm_022353]	Rooted	60.4563	62.9199	1.04075
	serine/threonine-protein kinase receptor r2 precursor (ec 2.7.1.37) (skr2) (activin receptor-like kinase 4) (alk-4) (actr-ib). [swissprot;acc:p36896]	Ranked	223.885	228.797	1.02194
1365	atpase inhibitor, mitochondrial precursor. [swissprot;acc:q9uii2]		228.644	223.736

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.