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

Results: HTML CSV LaTeX

Showing element 558 to 607 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Network Comparison Type	Hugo	description	Interaction Map	red	green	network_comparison
140	Divided	SPOCK2	testican-2 precursor. [swissprot;acc:q92563]	Low confidence	220.222	234.047	1.06278
	Subtracted	GGNBP2	c3hc4-type zinc finger protein; likely ortholog of mouse dioxin inducible factor 3. [refseq;acc:nm_024835]		219.838	207.417	12.421
		NCBP2	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	High confidence	228.306	198.011	30.295
141	Divided	ARHGEF7	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]	Low confidence	219.344	206.52	1.0621
		RRAGC	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	High confidence	59	49	1.20408
	Subtracted	COMP	cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]		239.991	269.238	29.247
		MAN1B1	endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase (ec 3.2.1.113) (er alpha-1,2-mannosidase) (mannosidase alpha class 1b member 1) (man9glcnac2-specific processing alpha-mannosidase). [swissprot;acc:q9ukm7]	Low confidence	211.056	198.732	12.324
142	Divided						1.06201
		RRAGB	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	High confidence	59	49	1.20408
	Subtracted	PSEN2	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	Low confidence	211.056	198.732	12.324
		THBS3	thrombospondin 3 precursor. [swissprot;acc:p49746]	High confidence	239.99	269.234	29.244
143	Divided	ANLN	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]		59	49	1.20408
		PSEN2	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	Low confidence	211.056	198.732	1.06201
	Subtracted	FBXW7	f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315]				12.324
		SF4	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]	High confidence	240.133	211.382	28.751
144	Divided	FBXW7	f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315]	Low confidence	211.056	198.732	1.06201
		KCNIP1	kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592]	High confidence	265.686	319.651	1.20312
	Subtracted	CSRP1	cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291]		239.35	267.915	28.565
		PSEN1	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	Low confidence	211.056	198.732	12.324
145	Divided	KCNIP4	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183]	High confidence	265.639	319.546	1.20293
		PSEN1	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	Low confidence	211.056	198.732	1.06201
	Subtracted	SENP8	sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8]		210.579	198.33	12.249
		SHCBP1	likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745]	High confidence	239.336	267.881	28.545
146	Divided	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]		265.632	319.531	1.20291
		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	213.661	1.06193
	Subtracted	CSRP2	smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527]	High confidence	239.336	267.879	28.543
		NEDD8	ubiquitin-like protein nedd8. [swissprot;acc:q15843]	Low confidence	210.579	198.33	12.249
147	Divided	no value	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	High confidence	50.7983	42.3003	1.2009
		ARHGEF6	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]	Low confidence	219.273	206.507	1.06182
	Subtracted	CAPN1	calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384]		222.508	210.345	12.163
		CSRP3	lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461]	High confidence	239.32	267.842	28.522
148	Divided	SENP8	sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8]	Low confidence	210.579	198.33	1.06176
		UNC84A	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	High confidence	296.677	247.559	1.19841
	Subtracted	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	210.342	12.16
		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	198.444	28.138
149	Divided	no value	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]		142	170	1.19718
		NEDD8	ubiquitin-like protein nedd8. [swissprot;acc:q15843]	Low confidence	210.579	198.33	1.06176
	Subtracted	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]		202.996	190.854	12.142
		REV1	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]	High confidence	226.582	198.444	28.138
150	Divided	MYO5B	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]		55	46	1.19565
		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	194.554	1.06148
	Subtracted	CTSL2	cathepsin l2 precursor (ec 3.4.22.43) (cathepsin v) (cathepsin u). [swissprot;acc:o60911]		211.818	199.734	12.084
		PRMT1	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	High confidence	226.582	198.444	28.138
151	Divided	CTSZ	cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [swissprot;acc:q9ubr2]	Low confidence	206.516	194.554	1.06148
		MYO5C	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	High confidence	55	46	1.19565
	Subtracted	LASS2	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	Low confidence	191.688	179.639	12.049
		PRMT8	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]	High confidence	226.582	198.444	28.138
152	Divided	no value	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]		55	46	1.19565
		HMG20A	high-mobility group 20a. [refseq;acc:nm_018200]	Low confidence	202.934	191.187	1.06144
	Subtracted	CTSL1	cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [swissprot;acc:p07711]		211.808	199.761	12.047

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.