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	network_comparison	green

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Showing element 308 to 357 of 66312 in total

Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	Interaction Map	red	network_comparison	green
20	GABARAP	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	Measured	Subtracted	High confidence	23421.5	5841.1	17580.4
	GNG11	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152]	Ranked			266.868	69.291	336.159
	HOXA5	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]	Squared		Low confidence	122475	37292	159767
	HSD17B14	retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	Measured			15464.1	2108.6	17572.7
	MAGEB6B	melanoma antigen, family b, 6. [refseq;acc:nm_173523]	Squared		High confidence	219048	89286	129762
	PIGF	phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326]	Rooted	Divided	Low confidence	57.2538	1.24224	71.1231
	PPP1R14D	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	Measured		High confidence	677.5	2.75351	1865.5
			Squared			108.641	7.58176	823.69
	PRSS1	trypsin i precursor (ec 3.4.21.4) (cationic trypsinogen). [swissprot;acc:p07477]	Ranked		Low confidence	304.359	1.23354	246.737
	PSCD3	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Rooted	Subtracted	High confidence	203.673	21.035	182.638
	PYGL	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	Ranked	Divided		185.678	1.32082	245.247
	TOB2	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]		Subtracted	Low confidence	297.273	38.683	258.59
	UBR4	retinoblastoma-associated factor 600. [refseq;acc:nm_020765]	Measured	Divided		7256.71	1.29106	9368.87
21	no value	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	Squared	Subtracted		122475	37292	159767
		melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]			High confidence	219048	89286	129762
	ATG4A	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Measured		Low confidence	13689.1	1900.5	11788.6
			Rooted		High confidence	153.602	20.407	133.195
	CYP27A1	cytochrome p450 27, mitochondrial precursor (ec 1.14.-.-) (cytochrome p-450c27/25) (sterol 26-hydroxylase) (sterol 27-hydroxylase) (vitamin d(3) 25-hydroxylase) (5-beta-cholestane-3-alpha,7-alpha,12-alpha-triol 27-hydroxylase). [swissprot;acc:q02318]	Measured	Divided	Low confidence	3035.43	1.29072	3917.88
	FCN2	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]			High confidence	677.5	2.75351	1865.5
			Squared			108.641	7.58176	823.69
	GNG12	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]	Rooted			40.3337	1.66157	24.2744
	MAGED4	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	Measured	Subtracted		23693.7	5430.7	18263
	MYO15A	myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]	Ranked	Divided		185.678	1.32082	245.247
	PIGF	phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326]			Low confidence	198	1.21472	163
			Rooted	Subtracted		57.2538	13.8693	71.1231
	TMEM132A	gbp protein isoform a. [refseq;acc:nm_017870]	Ranked		High confidence	325.586	69.094	256.492
	TOB1	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]			Low confidence	296.837	38.507	258.33
	TUSC3	n33 protein. [swissprot;acc:q13454]	Rooted	Divided		57.2538	1.24224	71.1231
	UBAC1	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	Squared			189688	1.40732	134787
22	no value	implantation-associated protein. [refseq;acc:nm_032121]	Rooted			57.2538	1.24224	71.1231
		protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	Measured		High confidence	677.5	2.75351	1865.5
			Squared			108.641	7.58176	823.69
	ATG4A	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]			Low confidence	80340.8	1.39273	57685.7
	CYP24A1	cytochrome p450 24a1, mitochondrial precursor (ec 1.14.-.-) (p450- cc24) (vitamin d(3) 24-hydroxylase) (1,25-dihydroxyvitamin d(3) 24- hydroxylase) (24-ohase). [swissprot;acc:q07973]	Measured			3126.88	1.27828	3997.02
	GNG4	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150]	Rooted		High confidence	40.3357	1.66049	24.2915
	HSD17B14	retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	Squared	Subtracted	Low confidence	122475	37292	159767
	LAMP1	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	Measured			2399.5	1856	543.5
	MAGEA9	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	Squared		High confidence	219048	89286	129762
	MAGEE2	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	Measured			23693.7	5430.7	18263
	MAP1LC3B	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	Rooted			153.578	20.402	133.176
	MAP2K4	dual specificity mitogen-activated protein kinase kinase 4 (ec 2.7.1.-) (map kinase kinase 4) (jnk activating kinase 1) (c-jun n- terminal kinase kinase 1) (jnkk) (sapk/erk kinase 1) (sek1). [swissprot;acc:p45985]	Ranked		Low confidence	210.241	35.884	246.125
	PPP1R14A	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]			High confidence	322	69	253
	PYGM	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]		Divided		185.678	1.32082	245.247
	TUSC3	n33 protein. [swissprot;acc:q13454]			Low confidence	198	1.21472	163
			Rooted	Subtracted		57.2538	13.8693	71.1231
23	no value	implantation-associated protein. [refseq;acc:nm_032121]	Ranked	Divided		198	1.21472	163
			Rooted	Subtracted		57.2538	13.8693	71.1231
		melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Measured		High confidence	23693.7	5430.7	18263
	ATF3	cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847]	Rooted	Divided	Low confidence	63.2736	1.2127	76.7316
	CDK4	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	Measured	Subtracted		2399.5	1856	543.5

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.