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	Interaction Map	Filtered	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 586 to 635 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	Interaction Map	red	network_comparison	green
147	lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461]	CSRP3	Subtracted	High confidence	239.32	28.522	267.842
	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	no value	Divided		50.7983	1.2009	42.3003
	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]	ARHGEF6		Low confidence	219.273	1.06182	206.507
148	calpain 2, large [catalytic] subunit precursor (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (m-type) (m-calpain) (millimolar-calpain) (calpain large polypeptide l2). [swissprot;acc:p17655]	CAPN2	Subtracted		222.502	12.16	210.342
	filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [refseq;acc:nm_001457]	FLNB		High confidence	226.582	28.138	198.444
	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	UNC84A	Divided		296.677	1.19841	247.559
	sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8]	SENP8		Low confidence	210.579	1.06176	198.33
149	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]	no value		High confidence	142	1.19718	170
	high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [refseq;acc:nm_006339]	HMG20B	Subtracted	Low confidence	202.996	12.142	190.854
	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]	REV1		High confidence	226.582	28.138	198.444
	ubiquitin-like protein nedd8. [swissprot;acc:q15843]	NEDD8	Divided	Low confidence	210.579	1.06176	198.33
150	cathepsin l2 precursor (ec 3.4.22.43) (cathepsin v) (cathepsin u). [swissprot;acc:o60911]	CTSL2	Subtracted		211.818	12.084	199.734
	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	MYO5B	Divided	High confidence	55	1.19565	46
	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	PRMT1	Subtracted		226.582	28.138	198.444
	serine/threonine-protein kinase plk (ec 2.7.1.-) (plk-1) (serine- threonine protein kinase 13) (stpk13). [swissprot;acc:p53350]	PLK1	Divided	Low confidence	206.516	1.06148	194.554
151	cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [swissprot;acc:q9ubr2]	CTSZ
	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	LASS2	Subtracted		191.688	12.049	179.639
	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	MYO5C	Divided	High confidence	55	1.19565	46
	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]	PRMT8	Subtracted		226.582	28.138	198.444
152	cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [swissprot;acc:p07711]	CTSL1		Low confidence	211.808	12.047	199.761
	high-mobility group 20a. [refseq;acc:nm_018200]	HMG20A	Divided		202.934	1.06144	191.187
	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	no value		High confidence	55	1.19565	46
	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621]	SNRP70	Subtracted		226.582	28.138	198.444
153	chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286]	RBM15B	Divided		249.663	1.19466	298.263
	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	no value	Subtracted		226.582	28.138	198.444
	rab11-family interacting protein 4. [refseq;acc:nm_032932]	RAB11FIP4	Divided	Low confidence	183.27	1.06119	172.702
	serine/threonine-protein kinase plk (ec 2.7.1.-) (plk-1) (serine- threonine protein kinase 13) (stpk13). [swissprot;acc:p53350]	PLK1	Subtracted		206.516	11.962	194.554
154	cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [swissprot;acc:q9ubr2]	CTSZ
	eferin. [swissprot;acc:o75154]	RAB11FIP3	Divided		183.27	1.06119	172.702
	musashi 2 isoform a. [refseq;acc:nm_138962]	MSI2	Subtracted	High confidence	227.491	28.033	199.458
	regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795]	RGS19	Divided		249.663	1.19466	298.263
155	cathepsin l2 precursor (ec 3.4.22.43) (cathepsin v) (cathepsin u). [swissprot;acc:o60911]	CTSL2		Low confidence	211.818	1.0605	199.734
	musashi 1. [refseq;acc:nm_002442]	MSI1	Subtracted	High confidence	227.491	28.033	199.458
	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37]	RBM15	Divided		249.663	1.19466	298.263
	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	UNC84A	Subtracted	Low confidence	221.678	11.883	209.795
156	cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [swissprot;acc:p07711]	CTSL1	Divided		211.808	1.06031	199.761
	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	FOXP3	Subtracted		219.889	11.825	208.064
	nuclear protein ukp68. [refseq;acc:nm_024824]	ZC3H14		High confidence	227.491	28.033	199.458
	regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081]	RGS20	Divided		249.663	1.19466	298.263
157	dj310o13.4 (novel protein similar to predicted c. elegans and c. intestinalis proteins) (fragment). [sptrembl;acc:q9nug5]	XKR7		Low confidence	178.507	1.0602	168.371
	high-mobility group 20a. [refseq;acc:nm_018200]	HMG20A	Subtracted		202.934	11.747	191.187
	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	NEUROD2		High confidence	312	28	284
	transcription factor lbx1. [swissprot;acc:p52954]	LBX1	Divided		249.663	1.19466	298.263
158	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]	CHD3	Subtracted		312	28	284
	dnaj homolog subfamily c member 8 (splicing protein spf31) (hspc315). [swissprot;acc:o75937]	DNAJC8	Divided	Low confidence	219.838	1.05988	207.417
	mosaic protein lgn. [swissprot;acc:p81274]	GPSM2		High confidence	249.663	1.19466	298.263
	proto-oncogene tyrosine-protein kinase fer (ec 2.7.1.112) (p94-fer) (c-fer). [swissprot;acc:p16591]	FER	Subtracted	Low confidence	216.796	11.723	205.073
159	60s ribosomal protein l29 (cell surface heparin binding protein hip). [swissprot;acc:p47914]	RPL29			216.79	11.72	205.07
	c3hc4-type zinc finger protein; likely ortholog of mouse dioxin inducible factor 3. [refseq;acc:nm_024835]	GGNBP2	Divided		219.838	1.05988	207.417
	doc-1 related protein (doc-1r). [swissprot;acc:o75956]	CDK2AP2	Subtracted	High confidence	312	28	284

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.