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 480 to 529 of 66312 in total

Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	Interaction Map	red	network_comparison	green
30	TRO	trophinin. [swissprot;acc:q12816]	Squared	Subtracted	High confidence	219048	89286	129762
31	no value	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]	Ranked		Low confidence	142	28	170
	ARRB2	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	Squared	Divided	High confidence	9924.76	2.53372	25146.6
	BEST4	vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274]	Measured		Low confidence	36469.3	1.19287	43503.3
	DNASE2B	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	Ranked			57.395	1.17568	48.8186
	GNAT1	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488]		Subtracted	High confidence	267.14	68.935	336.075
	GNG10	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151]	Measured	Divided		1834.63	2.04827	895.697
	HINT1	histidine triad nucleotide-binding protein 1 (adenosine 5'- monophosphoramidase) (protein kinase c inhibitor 1) (protein kinase c- interacting protein 1) (pkci-1). [swissprot;acc:p49773]	Rooted	Subtracted	Low confidence	67.7094	10.8344	56.875
	MAGEA11	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	Squared	Divided		82347.8	1.33073	61881.5
	MAGEB6B	melanoma antigen, family b, 6. [refseq;acc:nm_173523]	Measured	Subtracted	High confidence	23693.7	5430.7	18263
	MRPS17	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Squared			106226	85915	192141
			Rooted	Divided	Low confidence	145.551	1.1597	168.796
	PPP1R14D	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]			High confidence	26.0288	1.65937	43.1914
	PPP2R2B	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [swissprot;acc:q00005]	Ranked			187.458	1.2999	243.677
	PSCD3	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Squared	Subtracted	Low confidence	92920.4	21124	71796.4
	TUSC3	n33 protein. [swissprot;acc:q13454]	Measured			3278	1780.5	5058.5
	UFC1	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	Rooted		High confidence	40.0958	18.7028	58.7986
32	no value	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]	Measured	Divided		1834.73	2.04793	895.893
		implantation-associated protein. [refseq;acc:nm_032121]		Subtracted	Low confidence	3278	1780.5	5058.5
		melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]			High confidence	23693.7	5430.7	18263
		nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]		Divided	Low confidence	36360.3	1.19275	43368.8
	ARRB1	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	Squared		High confidence	9924.76	2.53372	25146.6
	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]	Rooted			26.0288	1.65937	43.1914
	GNAI2	guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899]	Ranked	Subtracted		267.142	68.932	336.074
	MAGEA2B	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	Squared	Divided	Low confidence	82347.8	1.33073	61881.5
	PANK1	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]		Subtracted	High confidence	106226	85915	192141
	PPP2R2C	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, gamma isoform (pp2a, subunit b, b-gamma isoform) (pp2a, subunit b, b55-gamma isoform) (pp2a, subunit b, pr55-gamma isoform) (pp2a, subunit b, r2-gamma isoform) (imypno1). [swissprot;acc:q9y2t4]	Ranked	Divided		187.462	1.29985	243.673
	PRKRAP1	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690]			Low confidence	273.188	1.17505	232.49
	PSCD4	cytohesin 4. [swissprot;acc:q9uia0]	Squared	Subtracted		92262.9	20862.7	71400.2
	RGS12	regulator of g-protein signaling 12 (rgs12). [swissprot;acc:o14924]	Ranked			247.768	27.927	219.841
	SLC25A43	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Rooted	Divided		145.551	1.1597	168.796
	TMEM132A	gbp protein isoform a. [refseq;acc:nm_017870]		Subtracted	High confidence	23.9771	18.5002	42.4773
	TOB2	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]			Low confidence	38.4152	10.7377	49.1529
33	no value	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	Squared	Divided		82347.8	1.33073	61881.5
		protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	Rooted		High confidence	26.0288	1.65937	43.1914
	ATG4B	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Squared	Subtracted	Low confidence	77316.3	20794.2	56522.1
	BEST2	vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682]	Measured	Divided		36360.3	1.19275	43368.8
	GNAI1	guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898]	Ranked	Subtracted	High confidence	267.144	68.929	336.073
	GNG11	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152]	Measured	Divided		1835.3	2.04611	896.972
	GSTO2	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]	Ranked	Subtracted	Low confidence	228.147	27.597	200.55
	MAGEA9	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	Measured		High confidence	23693.7	5430.7	18263
	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	Divided	Low confidence	210.241	1.17068	246.125
	PANK2	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	Squared	Subtracted	High confidence	106226	85915	192141
	PPP2R1B	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [swissprot;acc:p30154]	Ranked	Divided		188.688	1.28647	242.742
	PRKRAP1	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690]	Rooted	Subtracted		25.6987	17.8623	43.561
	SEPT6	septin 6. [swissprot;acc:q14141]	Measured		Low confidence	13005.8	1767.9	14773.7
	SPATA6	spermatogenesis associated 6. [refseq;acc:nm_019073]	Squared	Divided	High confidence	9924.76	2.53372	25146.6
	TOB1	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Rooted	Subtracted	Low confidence	38.5678	10.6955	49.2633
	UBR4	retinoblastoma-associated factor 600. [refseq;acc:nm_020765]		Divided		76.5734	1.15738	88.6244
34	no value	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]		Subtracted	High confidence	140.508	17.63	122.878

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.