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

Results: HTML CSV LaTeX

Showing element 1012 to 1061 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	description	Hugo	Value Type	Network Comparison Type	red	network_comparison	green
127	high-mobility group 20a. [refseq;acc:nm_018200]	HMG20A	Rooted	Divided	60.9353	1.23236	75.094
	lens fiber major intrinsic protein (mip26) (mp26) (aquaporin 0). [swissprot;acc:p30301]	MIP	Squared	Subtracted	71386.9	24645.6	96032.5
	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	CHMP2A	Ranked	Divided	94	1.21277	114
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	RHOBTB2	Measured	Subtracted	450.5	1944	2394.5
	transcription factor jun-d. [swissprot;acc:p17535]	JUND		Divided	5638.2	1.33436	7523.39
128	aquaporin-chip (water channel protein for red blood cells and kidney proximal tubule) (aquaporin 1) (aqp-1) (urine water channel). [swissprot;acc:p29972]	AQP1	Squared	Subtracted	71346.6	24618.5	95965.1
	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	STAMBP	Ranked	Divided	94	1.21277	114
	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	LUC7L2	Measured		4355.61	1.3341	5810.82
	nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483]	TIA1	Rooted	Subtracted	54.6527	13.3216	67.9743
	pnas-18. [sptrembl;acc:q9bzu3]	no value	Squared	Divided	87787.3	1.50952	58155.8
	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	PSEN1	Ranked	Subtracted	285.684	33.45	252.234
	t-complex protein 1, alpha subunit (tcp-1-alpha) (cct-alpha). [swissprot;acc:p17987]	TCP1	Measured		11004.2	1940	12944.2
	tar dna-binding protein-43 (tdp-43). [swissprot;acc:q13148]	TARDBP	Rooted	Divided	48.0515	1.23069	39.0445
129	cullin homolog 1 (cul-1). [swissprot;acc:q13616]	CUL1	Ranked	Subtracted	285.684	33.45	252.234
	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	NCBP2L	Rooted	Divided	54.2343	1.23044	66.7323
	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	LUC7L	Measured		4358.13	1.33348	5811.49
	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	VPS24	Ranked		94	1.21277	114
	nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085]	TIAL1	Rooted	Subtracted	54.6625	13.2852	67.9477
	pre-mrna cleavage complex ii protein pcf11 (fragment). [swissprot;acc:o94913]	PCF11	Squared	Divided	178263	1.50257	118639
	protein phosphatase 1, regulatory (inhibitor) subunit 13b; apoptosis-stimulating protein of p53, 1. [refseq;acc:nm_015316]	PPP1R13B	Measured	Subtracted	15274.9	1928	13346.9
	translocon-associated protein, delta subunit precursor (trap-delta) (signal sequence receptor delta subunit) (ssr-delta). [swissprot;acc:p51571]	SSR4	Squared		71062.4	24426.5	95488.9
130	44050 protein. [refseq;acc:nm_178832]	C10orf83		Divided	148058	1.4861	99628.4
	calsyntenin-1 precursor. [swissprot;acc:o94985]	CLSTN1		Subtracted	71062.4	24426.5	95488.9
	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	FOXP4	Measured	Divided	2234.68	1.33287	2978.53
	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	no value	Rooted		55.1026	1.22626	67.5701
	p66 alpha. [refseq;acc:nm_017660]	GATAD2A	Measured	Subtracted	12839	1927.9	10911.1
	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]	EGFL8	Ranked		242.735	33.324	276.059
	protein hspc134 (protein cda04). [swissprot;acc:q9by43]	CHMP4A		Divided	94	1.21277	114
	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	RRAGA	Rooted	Subtracted	144.606	13.218	157.824
131	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]	EGFL7	Ranked		242.718	33.3	276.018
	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	FOXP1	Measured	Divided	2234.73	1.33285	2978.57
	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	no value	Rooted		55.1113	1.22577	67.5537
	nuclear inhibitor of protein phosphatase-1 (nipp-1) (protein phosphatase 1, regulatory inhibitor subunit 8) [includes: activator of rna decay (ec 3.1.4.-) (ard-1)]. [swissprot;acc:q12972]	PPP1R8	Squared		148058	1.4861	99628.4
	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	RRAGC	Rooted	Subtracted	144.606	13.218	157.824
	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583]	SON	Ranked	Divided	294.053	1.21228	242.562
	succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521]	no value	Squared	Subtracted	71062.4	24426.5	95488.9
	transcription repressor p66 beta component of the mecp1 complex. [refseq;acc:nm_020699]	GATAD2B	Measured		12839	1927.9	10911.1
132	autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0]	ATG5	Squared	Divided	36359.2	1.48606	24466.8
	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	NCBP2L	Ranked	Subtracted	229.406	32.711	196.695
	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	FOXP3	Measured	Divided	2236.61	1.33253	2980.35
	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	HAT1	Rooted		44.963	1.22451	55.0576
	protein-tyrosine phosphatase beta precursor (ec 3.1.3.48) (r-ptp- beta). [swissprot;acc:p23467]	PTPRB	Squared	Subtracted	71062.2	24426.4	95488.6
	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	RRAGB	Rooted		144.606	13.218	157.824
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	TOB2	Ranked	Divided	350	1.2069	290
	tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735]	no value	Measured	Subtracted	12839	1927.9	10911.1
133	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]	ANLN	Rooted		144.606	13.218	157.824
	cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526]	CDK3	Measured		12798.9	1911.7	10887.2
	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	no value	Ranked		226.887	32.167	194.72
	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	GABARAP	Measured	Divided	23421.5	1.33225	17580.4
	gbp protein isoform a. [refseq;acc:nm_017870]	TMEM132A	Squared		1182.25	1.46039	1726.55

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.