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

Results: HTML CSV LaTeX

Showing element 562 to 611 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Hugo	Network Comparison Type	description	Interaction Map	red	network_comparison	green
141	COMP	Subtracted	cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]	High confidence	239.991	29.247	269.238
	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	12.324	198.732
	RRAGC	Divided	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	High confidence	59	1.20408	49
142	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	1.06201	198.732
	PSEN2	Subtracted	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]			12.324
	RRAGB	Divided	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	High confidence	59	1.20408	49
	THBS3	Subtracted	thrombospondin 3 precursor. [swissprot;acc:p49746]		239.99	29.244	269.234
143	ANLN	Divided	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]		59	1.20408	49
	FBXW7	Subtracted	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	12.324	198.732
	PSEN2	Divided	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]			1.06201
	SF4	Subtracted	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]	High confidence	240.133	28.751	211.382
144	CSRP1		cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291]		239.35	28.565	267.915
	FBXW7	Divided	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	1.06201	198.732
	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	1.20312	319.651
	PSEN1	Subtracted	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	Low confidence	211.056	12.324	198.732
145	KCNIP4	Divided	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183]	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	Subtracted	sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8]		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	Divided	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	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	Subtracted	ubiquitin-like protein nedd8. [swissprot;acc:q15843]		210.579	12.249	198.33
147	no value	Divided	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	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	Subtracted	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	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	Divided	sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8]	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	Subtracted	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]	Low confidence	202.996	12.142	190.854
	NEDD8	Divided	ubiquitin-like protein nedd8. [swissprot;acc:q15843]		210.579	1.06176	198.33
	REV1	Subtracted	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]	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	Divided	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	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	Subtracted	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	High confidence	226.582	28.138	198.444
151	CTSZ	Divided	cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [swissprot;acc:q9ubr2]	Low confidence	206.516	1.06148	194.554
	LASS2	Subtracted	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]		191.688	12.049	179.639
	MYO5C	Divided	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	High confidence	55	1.19565	46
	PRMT8	Subtracted	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]		226.582	28.138	198.444
152	no value	Divided	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]		55	1.19565	46
	CTSL1	Subtracted	cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [swissprot;acc:p07711]	Low confidence	211.808	12.047	199.761
	HMG20A	Divided	high-mobility group 20a. [refseq;acc:nm_018200]		202.934	1.06144	191.187
	SNRP70	Subtracted	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621]	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	Divided	rab11-family interacting protein 4. [refseq;acc:nm_032932]		183.27	1.06119	172.702

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.