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

Results: HTML CSV LaTeX

Showing element 701 to 750 of 66312 in total

Filtered  : 1

Rank	description	Network Comparison Type	Hugo	Value Type	Interaction Map	red	green	network_comparison
44	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	Divided	no value	Rooted	Low confidence	55.7075	63.2842	1.13601
	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	Subtracted	PPP1R14D	Ranked		242.742	217.217	25.525
	transcription factor jun-b. [swissprot;acc:p17275]		JUNB	Rooted		67.118	75.5523	8.4343
	transcription factor jun-d. [swissprot;acc:p17535]	Divided	JUND	Measured		6614.51	7680.25	1.16112
45	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]	Subtracted	FCN2	Ranked		242.742	217.217	25.525
	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]		FOSL1	Rooted	High confidence	60.875	77.7152	16.8402
	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	Divided	no value	Squared		129597	73157.5	1.77148
	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0]		GNB4	Measured		1926.69	1056.02	1.82448
	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520]		GNB3	Rooted		40.081	25.1546	1.59339
	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	Subtracted	KHDRBS2	Ranked		332.874	267.246	65.628
	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	Divided	MAGEA10	Squared	Low confidence	82347.8	61881.5	1.33073
	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	Subtracted	no value					20466.3
	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	Divided	MFAP4	Ranked		242.742	217.217	1.11751
	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	Subtracted	no value	Squared	High confidence	110342	184298	73956
	protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]	Divided	FOSB	Ranked		204.641	161.051	1.27066
	protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712]	Subtracted	PPP1R7	Measured		27642.5	22440.4	5202.1
	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]	Divided	FOS	Rooted	Low confidence	66.5831	75.4064	1.13252
	regulator of g-protein signaling 12 (rgs12). [swissprot;acc:o14924]	Subtracted	RGS12			54.8296	63.2347	8.4051
	transcription factor jun-b. [swissprot;acc:p17275]	Divided	JUNB	Measured		6613.42	7678.76	1.16109
	transcription regulator protein bach2 (btb and cnc homolog 2). [swissprot;acc:q9byv9]	Subtracted	BACH2			8313.02	9645.34	1332.32
46	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	Divided	ATG3	Squared	High confidence	129597	73157.5	1.77148
	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]	Subtracted	no value	Rooted	Low confidence	75.6323	67.6572	7.9751
	cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [refseq;acc:nm_006693]		CPSF4	Measured	High confidence	24896.4	20431.7	4464.7
	deltex 2. [refseq;acc:nm_020892]	Divided	DTX2	Rooted		27.634	43.9629	1.5909
	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]		FOSL1	Ranked		204.642	161.068	1.27053
	jun dimerization protein. [refseq;acc:nm_130469]		no value	Rooted	Low confidence	66.5831	75.4064	1.13252
	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	Subtracted	MAGED4		High confidence	137.446	120.823	16.623
	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]		MAGEA9	Squared	Low confidence	82347.8	61881.5	20466.3
	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	Divided	MAGEB4					1.33073
	neuralized-like. [refseq;acc:nm_004210]	Subtracted	NEURL	Ranked	High confidence	332.326	266.948	65.378
	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	Divided	NEUROD2	Measured		779.167	1390.33	1.78438
	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	Subtracted	PAPOLA	Squared		210445	136779	73666
	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]		no value	Ranked	Low confidence	242.742	217.217	25.525
	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	Divided	PPP1R14D					1.11751
	septin 7 (cdc10 protein homolog). [swissprot;acc:q16181]	Subtracted	SEPT7	Measured		11616	12942.3	1326.3
	transcription regulator protein bach1 (btb and cnc homolog 1) (ha2303). [swissprot;acc:o14867]	Divided	BACH1			8313.02	9645.34	1.16027
47	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]		CHD3		High confidence	779.167	1390.33	1.78438
	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]		DTX1	Rooted		27.7078	44.017	1.58861
	exocyst complex component sec5. [swissprot;acc:q96kp1]	Subtracted	EXOC2	Squared		210335	136716	73619
	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]	Divided	FCN2	Ranked	Low confidence	242.742	217.217	1.11751
	fos-related antigen 2. [swissprot;acc:p15408]		FOSL2	Rooted		66.6469	75.3812	1.13105
	gbp protein isoform a. [refseq;acc:nm_017870]		TMEM132A	Ranked	High confidence	325.586	256.492	1.26938
	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	Subtracted	MAGEE2	Rooted		137.446	120.823	16.623
	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]		MAGEA8	Squared	Low confidence	82347.8	61881.5	20466.3
	melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1]	Divided	MAGED2					1.33073
	nuclear factor erythroid 2 related factor 2 (nf-e2 related factor 2) (nfe2-related factor 2) (nuclear factor, erythroid derived 2, like 2) (hebp1). [swissprot;acc:q16236]		NFE2L2	Measured		8313.02	9645.34	1.16027
	rab11-family interacting protein 4. [refseq;acc:nm_032932]	Subtracted	RAB11FIP4			7407.56	8696.7	1289.14
				Rooted		73.6221	81.4944	7.8723
	testis-specific protein tex28. [swissprot;acc:o15482]		TEX28P2	Ranked		259.517	235.017	24.5
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]		TOB2		High confidence	350	290	60

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.