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 2551 to 2600 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	Hugo	description	Interaction Map	red	green	network_comparison
1276	no value	histone h2b. [refseq;acc:nm_175055]	Low confidence	203.671	199.194	1.02248
	CHRNA3	neuronal acetylcholine receptor protein, alpha-3 chain precursor. [swissprot;acc:p32297]	High confidence	171.231	167.177	1.02425
1277	no value	histone h2b.s (h2b/s). [swissprot;acc:p57053]	Low confidence	203.671	199.194	1.02248
	SPHK2	sphingosine kinase 2 (ec 2.7.1.-) (sk 2) (spk 2). [swissprot;acc:q9nra0]	High confidence	171.231	167.177	1.02425
1278	no value	histone h2b.e (h2b/e). [swissprot;acc:q99879]	Low confidence	203.671	199.194	1.02248
	SESN3	sestrin 3. [swissprot;acc:p58005]	High confidence	218.368	213.219	1.02415
1279	no value	protein-tyrosine phosphatase, non-receptor type 1 (ec 3.1.3.48) (protein-tyrosine phosphatase 1b) (ptp-1b). [swissprot;acc:p18031]	Low confidence	200.75	196.336	1.02248
	SESN2	sestrin 2 (hi95). [swissprot;acc:p58004]	High confidence	218.368	213.219	1.02415
1280	CYP4A11	cytochrome p450 4a11 precursor (ec 1.14.15.3) (cypiva11) (fatty acid omega-hydroxylase) (p-450 hk omega) (lauric acid omega-hydroxylase) (cyp4aii) (p450-hl-omega). [swissprot;acc:q02928]			213.22	1.02414
	HIST1H2BL	histone h2b.c (h2b/c). [swissprot;acc:q99880]	Low confidence	203.672	199.196	1.02247
1281	no value	histone h2b.d (h2b/d). [swissprot;acc:q99877]		203.671	199.195
	CYP4F3	cytochrome p450 4f3 (ec 1.14.13.30) (cypivf3) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:q08477]	High confidence	218.368	213.22	1.02414
1282	CTGF	connective tissue growth factor precursor (hypertrophic chondrocyte- specific protein 24). [swissprot;acc:p29279]	Low confidence	208.383	203.805	1.02246
	CYP4F8	cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187]	High confidence	218.368	213.22	1.02414
1283	no value	casein kinase ii beta chain (ck ii) (phosvitin) (g5a). [swissprot;acc:p13862]	Low confidence	205.134	200.628	1.02246
	CYP4X1	likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033]	High confidence	218.368	213.22	1.02414
1284	CYP4F12	cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [swissprot;acc:q9hcs2]
	FAH	fumarylacetoacetase (ec 3.7.1.2) (fumarylacetoacetate hydrolase) (beta-diketonase) (faa). [swissprot;acc:p16930]	Low confidence	202.294	197.852	1.02245
1285	CYP4F2	cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329]	High confidence	218.368	213.22	1.02414
	PHB	prohibitin. [swissprot;acc:p35232]	Low confidence	186.195	182.109	1.02244
1286	CYP4F11	cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6]	High confidence	218.368	213.22	1.02414
	GNL3	nucleostemin; putative nucleotide binding protein, estradiol-induced. [refseq;acc:nm_014366]	Low confidence	202.806	198.355	1.02244
1287	ACSL3	long-chain-fatty-acid--coa ligase 3 (ec 6.2.1.3) (long-chain acyl-coa synthetase 3) (lacs 3). [swissprot;acc:o95573]		201.127	196.714	1.02243
	CYP4A22	dj18d14.4 (cytochrome p450, subfamily iva, polypeptide 11). [sptrembl;acc:q9ntl5]	High confidence	218.368	213.22	1.02414
1288	C21orf66	gc-rich sequence dna-binding factor homolog. [swissprot;acc:q9y5b6]	Low confidence	204.236	199.757	1.02242
	CYP4B1	cytochrome p450 4b1 (ec 1.14.14.1) (cypivb1) (p450-hp). [swissprot;acc:p13584]	High confidence	218.368	213.22	1.02414
1289	FLOT1	flotillin-1. [swissprot;acc:o75955]
	GLI2	zinc finger protein gli2 (tax helper protein). [swissprot;acc:p10070]	Low confidence	203.073	198.619	1.02242
1290	PPP1R12B	protein phosphatase 1, regulatory (inhibitor) subunit 12b isoform a; myosin phosphatase regulatory subunit; myosin phosphatase, target subunit 2. [refseq;acc:nm_002481]		195.789	191.498	1.02241
	SESN1	sestrin 1 (p53-regulated protein pa26). [swissprot;acc:q9y6p5]	High confidence	218.368	213.22	1.02414
1291	ACSL4	long-chain-fatty-acid--coa ligase 4 (ec 6.2.1.3) (long-chain acyl-coa synthetase 4) (lacs 4). [swissprot;acc:o60488]	Low confidence	201.117	196.709	1.02241
	HAS2	hyaluronan synthase 2 (ec 2.4.1.212) (hyaluronate synthase 2) (hyaluronic acid synthase 2) (ha synthase 2). [swissprot;acc:q92819]	High confidence	221.093	226.399	1.024
1292	CASP7	caspase-7 precursor (ec 3.4.22.-) (ice-like apoptotic protease 3) (ice-lap3) (apoptotic protease mch-3) (cmh-1). [swissprot;acc:p55210]		233.942	228.46
	NONO	54 kda nuclear rna- and dna-binding protein (p54(nrb)) (p54nrb) (55 kda nuclear protein) (nmt55) (non-pou domain-containing octamer- binding protein) (dna-binding p52/p100 complex, 52 kda subunit). [swissprot;acc:q15233]	Low confidence	200.544	196.152	1.02239
1293	CASP3	apopain precursor (ec 3.4.22.-) (cysteine protease cpp32) (yama protein) (cpp-32) (caspase-3) (casp-3) (srebp cleavage activity 1) (sca-1). [swissprot;acc:p42574]	High confidence	233.942	228.46	1.024
	PSPC1	paraspeckle protein 1. [refseq;acc:nm_018282]	Low confidence	200.543	196.152	1.02239
1294	HAS1	hyaluronan synthase 1 (ec 2.4.1.212) (hyaluronate synthase 1) (hyaluronic acid synthase 1) (ha synthase 1) (huhas1). [swissprot;acc:q92839]	High confidence	221.093	226.399	1.024
	SEC31A	yeast sec31p homolog. [refseq;acc:nm_014933]	Low confidence	204.144	199.676	1.02238
1295	HAS3	hyaluronan synthase 3 (ec 2.4.1.212) (hyaluronate synthase 3) (hyaluronic acid synthase 3) (ha synthase 3). [swissprot;acc:o00219]	High confidence	221.093	226.399	1.024
	SLC3A1	neutral and basic amino acid transport protein rbat (b(0,+)-type amino acid transport protein) (nbat) (d2h). [swissprot;acc:q07837]	Low confidence	199.695	195.323	1.02238
1296	SEC31B	secretory pathway component sec31b-1. [refseq;acc:nm_015490]		204.174	199.705
	SLC37A1	glycerol-3-phosphate transporter (g-3-p transporter) (g-3-p permease). [swissprot;acc:p57057]	High confidence	209.062	204.174	1.02394
1297	MAPK11	mitogen-activated protein kinase 12 (ec 2.7.1.37) (extracellular signal-regulated kinase 6) (erk-6) (erk5) (stress-activated protein kinase-3) (mitogen-activated protein kinase p38 gamma) (map kinase p38 gamma). [swissprot;acc:p53778]	Low confidence	200.193	195.812	1.02237
	PRODH	proline oxidase, mitochondrial precursor (ec 1.5.3.-) (proline dehydrogenase). [swissprot;acc:o43272]	High confidence	209.062	204.174	1.02394
1298	DLAT	dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex, mitochondrial precursor (ec 2.3.1.12) (e2) (pdc-e2) (70 kda mitochondrial autoantigen of primary biliary cirrhosis) (pbc) (m2 antigen complex 70 kda subunit). [swissprot;acc:p10515]		206.482	211.404	1.02384
	GLI1	zinc finger protein gli1 (glioma-associated oncogene) (oncogene gli). [swissprot;acc:p08151]	Low confidence	203.074	198.63	1.02237
1299	ACO2	aconitate hydratase, mitochondrial precursor (ec 4.2.1.3) (citrate hydro-lyase) (aconitase). [swissprot;acc:q99798]		200.342	195.959
	PMPCB	mitochondrial processing peptidase beta subunit, mitochondrial precursor (ec 3.4.24.64) (beta-mpp) (p-52). [swissprot;acc:o75439]	High confidence	217.635	212.575	1.0238
1300	no value	proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931]	Low confidence	199.276	194.918	1.02236
	PMPCA	mitochondrial processing peptidase alpha subunit, mitochondrial precursor (ec 3.4.24.64) (alpha-mpp) (p-55) (ha1523). [swissprot;acc:q10713]	High confidence	217.634	212.576	1.02379

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.