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

Results: HTML CSV LaTeX

Showing element 551 to 600 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Interaction Map	red	network_comparison	green
138	PPP2CA	serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323]	Divided	High confidence	194.372	1.20493	234.204
	TIPRL	cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902]	Subtracted		174.667	30.889	205.556
139	APBA1	amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410]	Divided		271.752	1.20415	225.68
	CHRAC1	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	Subtracted		287.41	30.575	256.835
	DNAJC8	dnaj homolog subfamily c member 8 (splicing protein spf31) (hspc315). [swissprot;acc:o75937]		Low confidence	219.838	12.421	207.417
	SPOCK1	testican-1 precursor (spock protein). [swissprot;acc:q08629]	Divided		220.254	1.06291	234.111
140	GGNBP2	c3hc4-type zinc finger protein; likely ortholog of mouse dioxin inducible factor 3. [refseq;acc:nm_024835]	Subtracted		219.838	12.421	207.417
	NCBP2	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]		High confidence	228.306	30.295	198.011
	RRAGA	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	Divided		59	1.20408	49
	SPOCK2	testican-2 precursor. [swissprot;acc:q92563]		Low confidence	220.222	1.06278	234.047
141	ARHGEF7	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]			219.344	1.0621	206.52
	COMP	cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]	Subtracted	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	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	Divided	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	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	Subtracted			12.324
	RRAGB	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	Divided	High confidence	59	1.20408	49
	THBS3	thrombospondin 3 precursor. [swissprot;acc:p49746]	Subtracted		239.99	29.244	269.234
143	ANLN	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]	Divided		59	1.20408	49
	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]	Subtracted	Low confidence	211.056	12.324	198.732
	PSEN2	presenilin 2 (ps-2) (stm-2) (e5-1) (ad3lp) (ad5). [swissprot;acc:p49810]	Divided			1.06201
	SF4	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]	Subtracted	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	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]	Divided	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	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

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.