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

Results: HTML CSV LaTeX

Showing element 2358 to 2407 of 8289 in total

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

Rank	description	Hugo	Interaction Map	red	green	network_comparison
1179	methionyl-trna formyltransferase, mitochondrial precursor (ec 2.1.2.9) (mtfmt). [swissprot;acc:q96dp5]	MTFMT	Low confidence	201.447	196.884	1.02318
1180	sodium/calcium exchanger 3 precursor (na(+)/ca(2+)-exchange protein 3) (fragment). [swissprot;acc:p57103]	SLC8A3		203.938	199.317
	vacuolar atp synthase 21 kda proteolipid subunit (ec 3.6.3.14) (hatpl). [swissprot;acc:q99437]	ATP6V0B	High confidence	218.186	212.672	1.02593
1181	gamma-sarcoglycan (gamma-sg) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q13326]	SGCG
	rhesus blood group-associated glycoprotein (erythrocyte plasma membrane 50 kda glycoprotein) (rh50a). [swissprot;acc:q02094]	RHAG	Low confidence	201.302	196.744	1.02317
1182	neurocalcin delta. [swissprot;acc:p29554]	NCALD	High confidence	225.104	230.931	1.02589
	potassium channel modulatory factor 1; potassium channel modulatory factor; differentially expressed in branching tubulogenesis 91; zinc finger, zz domain containing 1. [refseq;acc:nm_020122]	KCMF1	Low confidence	206.598	201.924	1.02315
1183	neuron specific calcium-binding protein hippocalcin (p23k) (calcium- binding protein bdr-2). [swissprot;acc:p32076]	HPCA	High confidence	225.103	230.928	1.02588
	tyrosine-protein kinase ryk precursor (ec 2.7.1.112). [swissprot;acc:p34925]	RYK	Low confidence	203.427	198.825	1.02315
1184	arf gtpase-activating protein git1 (g protein-coupled receptor kinase- interactor 1). [swissprot;acc:q9y2x7]	GIT1	High confidence	216.729	222.334	1.02586
	iroquois-class homeodomain protein irx-3 (iroquois homeobox protein 3) (fragment). [swissprot;acc:p78415]	IRX3	Low confidence	195.226	190.812	1.02313
1185	iroquois-class homeodomain protein irx-5 (iroquois homeobox protein 5) (irx-2a). [swissprot;acc:p78411]	IRX5
	visinin-like protein 3 (vilip-3) (calcium-binding protein bdr-1) (hlp2) (hippocalcin-like protein 1). [swissprot;acc:p37235]	HPCAL1	High confidence	225.094	230.913	1.02585
1186	adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559]	no value		218.402	212.904	1.02582
	iroquois-class homeodomain protein irx-2 (iroquois homeobox protein 2) (fragment). [swissprot;acc:q9bzi1]	IRX2	Low confidence	195.226	190.812	1.02313
1187	iroquois-class homeodomain protein irx-1 (iroquois homeobox protein 1) (fragment). [swissprot;acc:p78414]	IRX1
	vacuolar atp synthase subunit d (ec 3.6.3.14) (v-atpase d subunit) (vacuolar proton pump d subunit) (v-atpase ac39 subunit) (v-atpase 40 kda accessory protein) (p39) (32 kda accessory protein). [swissprot;acc:p12953]	ATP6V0D1	High confidence	218.402	212.904	1.02582
1188	adp-ribosylation factor-like protein 4. [swissprot;acc:p40617]	ARL4A
	transducin beta-like 3; wd-repeat protein sazd. [refseq;acc:nm_006453]	TBL3	Low confidence	202.963	198.378	1.02311
1189	alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652]	no value	High confidence	209.649	204.406	1.02565
	iroquois-class homeodomain protein irx-4 (iroquois homeobox protein 4). [swissprot;acc:p78413]	IRX4	Low confidence	195.344	190.932	1.02311
1190	bleomycin hydrolase (ec 3.4.22.40) (blm hydrolase) (bmh) (bh). [swissprot;acc:q13867]	BLMH		202.963	198.378
	ubiquitin. [swissprot;acc:p02248]	UBB	High confidence	209.6	204.372	1.02558
1191	upstream binding protein 1 (lbp-1a). [refseq;acc:nm_014517]	UBP1		220.742	215.237
	zinc finger protein gli3. [swissprot;acc:p10071]	GLI3	Low confidence	203.052	198.466	1.02311
1192	adenylosuccinate synthase-like 1. [refseq;acc:nm_152328]	ADSSL1		199.02	194.529	1.02309
	transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653]	TFCP2	High confidence	220.742	215.237	1.02558
1193	lbp-9. [refseq;acc:nm_014553]	TFCP2L1
	tata box binding protein-associated factor, rna polymerase ii, q; taf7-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 50 kd; tbp-associated factor, rna polymerase ii, q. [refseq;acc:nm_024885]	TAF7L	Low confidence	201.092	196.553	1.02309
1194	dna replication licensing factor mcm2 (nuclear protein bm28). [swissprot;acc:p49736]	MCM2		202.182	197.621	1.02308
	splicing factor, arginine/serine-rich 3 (pre-mrna splicing factor srp20) (x16 protein). [swissprot;acc:p23152]	SFRS3	High confidence	220.742	215.237	1.02558
1195	85 kda calcium-independent phospholipase a2 (ec 3.1.1.4) (ipla2) (cai- pla2) (group vi phospholipase a2) (gvi pla2). [swissprot;acc:o60733]	PLA2G6	Low confidence	202.297	197.738	1.02306
	skeletal muscle lim-protein 3 (slim 3) (lim-domain protein dral) (four and a half lim domains protein 2) (fhl-2). [swissprot;acc:q14192]	FHL2	High confidence	269.608	276.493	1.02554
1196	kinesin protein. [refseq;acc:nm_032559]	KIF2B		224.858	219.264	1.02551
	multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904]	SCYE1	Low confidence	202.297	197.738	1.02306
1197	mstp028 protein. [refseq;acc:nm_031954]	KCTD10	High confidence	219.042	213.6	1.02548
	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, delta isoform (pp2a, b subunit, b' delta isoform) (pp2a, b subunit, b56 delta isoform) (pp2a, b subunit, pr61 delta isoform) (pp2a, b subunit, r5 delta isoform). [swissprot;acc:q14738]	PPP2R5D	Low confidence	202.297	197.738	1.02306
1198	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, gamma isoform (pp2a, b subunit, b' gamma isoform) (pp2a, b subunit, b56 gamma isoform) (pp2a, b subunit, pr61 gamma isoform) (pp2a, b subunit, r5 gamma isoform). [swissprot;acc:q13362]	PPP2R5C
	skeletal muscle lim-protein 2 (slim 2) (four and a half lim domains protein 3) (fhl-3). [swissprot;acc:q13643]	FHL3	High confidence	269.59	276.454	1.02546
1199	u3 small nucleolar ribonucleoprotein protein mpp10 (m phase phosphoprotein 10). [swissprot;acc:o00566]	MPHOSPH10		241.496	235.508	1.02543
	wd-repeat protein 4. [swissprot;acc:p57081]	WDR4	Low confidence	204.517	199.909	1.02305
1200	adenylosuccinate synthetase (ec 6.3.4.4) (imp--aspartate ligase) (adss) (ampsase). [swissprot;acc:p30520]	ADSS		198.973	194.493	1.02303
	swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily b member 1 (integrase interactor 1 protein) (hsnf5) (baf47). [swissprot;acc:q12824]	SMARCB1	High confidence	219.03	213.604	1.0254
1201	dna repair protein rad52 homolog. [swissprot;acc:p43351]	RAD52	Low confidence	203.852	199.266	1.02301
	succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial precursor (ec 1.3.5.1) (fp) (flavoprotein subunit of complex ii). [swissprot;acc:p31040]	SDHA	High confidence	210.986	216.344	1.0254
1202	diphthamide biosynthesis-like protein 2. [refseq;acc:nm_001384]	DPH2		227.274	233.041	1.02537
	phosphatidylinositol glycan class t precursor. [refseq;acc:nm_015937]	PIGT	Low confidence	204.636	200.036	1.023
1203	protease inhibitor 15 preproprotein; 25 kda trypsin inhibitor. [refseq;acc:nm_015886]	PI15		203.323	198.756	1.02298
	tumor necrosis factor, alpha-induced protein 1, endothelial (b12 protein). [swissprot;acc:q13829]	TNFAIP1	High confidence	219.023	213.606	1.02536
1204	polymerase delta-interacting protein 1; tnfaip1-like. [refseq;acc:nm_178863]	KCTD13		219.022	213.607	1.02535

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.