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

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 575 to 624 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Interaction Map	red	network_comparison	green
144	KCNIP1	kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592]	Divided	High confidence	265.686	1.20312	319.651
	PSEN1	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	Subtracted	Low confidence	211.056	12.324	198.732
145	KCNIP4	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183]	Divided	High confidence	265.639	1.20293	319.546
	PSEN1	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]		Low confidence	211.056	1.06201	198.732
	SENP8	sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8]	Subtracted		210.579	12.249	198.33
	SHCBP1	likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745]		High confidence	239.336	28.545	267.881
146	CSRP2	smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527]				28.543	267.879
	KCNIP2	kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193]	Divided		265.632	1.20291	319.531
	NDUFS4	nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181]		Low confidence	226.892	1.06193	213.661
	NEDD8	ubiquitin-like protein nedd8. [swissprot;acc:q15843]	Subtracted		210.579	12.249	198.33
147	no value	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Divided	High confidence	50.7983	1.2009	42.3003
	ARHGEF6	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]		Low confidence	219.273	1.06182	206.507
	CAPN1	calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384]	Subtracted		222.508	12.163	210.345
	CSRP3	lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461]		High confidence	239.32	28.522	267.842
148	CAPN2	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]		Low confidence	222.502	12.16	210.342
	FLNB	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]		High confidence	226.582	28.138	198.444
	SENP8	sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8]	Divided	Low confidence	210.579	1.06176	198.33
	UNC84A	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]		High confidence	296.677	1.19841	247.559
149	no value	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]			142	1.19718	170
	HMG20B	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]	Subtracted	Low confidence	202.996	12.142	190.854
	NEDD8	ubiquitin-like protein nedd8. [swissprot;acc:q15843]	Divided		210.579	1.06176	198.33
	REV1	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]	Subtracted	High confidence	226.582	28.138	198.444
150	CTSL2	cathepsin l2 precursor (ec 3.4.22.43) (cathepsin v) (cathepsin u). [swissprot;acc:o60911]		Low confidence	211.818	12.084	199.734
	MYO5B	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	Divided	High confidence	55	1.19565	46
	PLK1	serine/threonine-protein kinase plk (ec 2.7.1.-) (plk-1) (serine- threonine protein kinase 13) (stpk13). [swissprot;acc:p53350]		Low confidence	206.516	1.06148	194.554
	PRMT1	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	Subtracted	High confidence	226.582	28.138	198.444
151	CTSZ	cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [swissprot;acc:q9ubr2]	Divided	Low confidence	206.516	1.06148	194.554
	LASS2	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	Subtracted		191.688	12.049	179.639
	MYO5C	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	Divided	High confidence	55	1.19565	46
	PRMT8	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]	Subtracted		226.582	28.138	198.444
152	no value	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	Divided		55	1.19565	46
	CTSL1	cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [swissprot;acc:p07711]	Subtracted	Low confidence	211.808	12.047	199.761
	HMG20A	high-mobility group 20a. [refseq;acc:nm_018200]	Divided		202.934	1.06144	191.187
	SNRP70	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621]	Subtracted	High confidence	226.582	28.138	198.444
153	no value	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]
	PLK1	serine/threonine-protein kinase plk (ec 2.7.1.-) (plk-1) (serine- threonine protein kinase 13) (stpk13). [swissprot;acc:p53350]		Low confidence	206.516	11.962	194.554
	RAB11FIP4	rab11-family interacting protein 4. [refseq;acc:nm_032932]	Divided		183.27	1.06119	172.702
	RBM15B	chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286]		High confidence	249.663	1.19466	298.263
154	CTSZ	cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [swissprot;acc:q9ubr2]	Subtracted	Low confidence	206.516	11.962	194.554
	MSI2	musashi 2 isoform a. [refseq;acc:nm_138962]		High confidence	227.491	28.033	199.458
	RAB11FIP3	eferin. [swissprot;acc:o75154]	Divided	Low confidence	183.27	1.06119	172.702
	RGS19	regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795]		High confidence	249.663	1.19466	298.263
155	CTSL2	cathepsin l2 precursor (ec 3.4.22.43) (cathepsin v) (cathepsin u). [swissprot;acc:o60911]		Low confidence	211.818	1.0605	199.734
	MSI1	musashi 1. [refseq;acc:nm_002442]	Subtracted	High confidence	227.491	28.033	199.458
	RBM15	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37]	Divided		249.663	1.19466	298.263
	UNC84A	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	Subtracted	Low confidence	221.678	11.883	209.795
156	CTSL1	cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [swissprot;acc:p07711]	Divided		211.808	1.06031	199.761
	FOXP3	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	Subtracted		219.889	11.825	208.064
	RGS20	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]	Divided	High confidence	249.663	1.19466	298.263
	ZC3H14	nuclear protein ukp68. [refseq;acc:nm_024824]	Subtracted		227.491	28.033	199.458

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.