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	Value Type	Network Comparison Type	Interaction Map	red	Filtered	green	network_comparison

Results: HTML CSV LaTeX

Showing element 258 to 307 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
129	VPS24	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	Divided	94	114	1.21277
130	CHMP4A	protein hspc134 (protein cda04). [swissprot;acc:q9by43]
	EGFL8	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]	Subtracted	242.735	276.059	33.324
131	EGFL7	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]		242.718	276.018	33.3
	SON	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583]	Divided	294.053	242.562	1.21228
132	NCBP2L	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	Subtracted	229.406	196.695	32.711
	TOB2	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Divided	350	290	1.2069
133	no value	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	Subtracted	226.887	194.72	32.167
	TOB1	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Divided	350	290	1.2069
134	no value	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	Subtracted	226.884	194.79	32.094
	DAB2IP	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	Divided	350	290	1.2069
135	CPEB4	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]
	FOXP4	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	Subtracted	263.215	231.407	31.808
136	CPEB3	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Divided	350	290	1.2069
	FOXP1	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	Subtracted	263.215	231.407	31.808
137	FOXP3	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]		263.191	231.394	31.797
	RASAL2	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	Divided	350	290	1.2069
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]		194.372	234.204	1.20493
	TIPRL	cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902]	Subtracted	174.667	205.556	30.889
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	225.68	1.20415
	CHRAC1	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	Subtracted	287.41	256.835	30.575
140	NCBP2	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]		228.306	198.011	30.295
	RRAGA	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	Divided	59	49	1.20408
141	COMP	cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]	Subtracted	239.991	269.238	29.247
	RRAGC	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	Divided	59	49	1.20408
142	RRAGB	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]
	THBS3	thrombospondin 3 precursor. [swissprot;acc:p49746]	Subtracted	239.99	269.234	29.244
143	ANLN	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]	Divided	59	49	1.20408
	SF4	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]	Subtracted	240.133	211.382	28.751
144	CSRP1	cysteine-rich protein 1 (crp1) (crp). [swissprot;acc:p21291]		239.35	267.915	28.565
	KCNIP1	kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592]	Divided	265.686	319.651	1.20312
145	KCNIP4	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183]		265.639	319.546	1.20293
	SHCBP1	likely ortholog of mouse shc sh2-domain binding protein 1. [refseq;acc:nm_024745]	Subtracted	239.336	267.881	28.545
146	CSRP2	smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527]			267.879	28.543
	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	319.531	1.20291
147	no value	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]		50.7983	42.3003	1.2009
	CSRP3	lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461]	Subtracted	239.32	267.842	28.522
148	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]		226.582	198.444	28.138
	UNC84A	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	Divided	296.677	247.559	1.19841
149	no value	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]		142	170	1.19718
	REV1	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]	Subtracted	226.582	198.444	28.138
150	MYO5B	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	Divided	55	46	1.19565
	PRMT1	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	Subtracted	226.582	198.444	28.138
151	MYO5C	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	Divided	55	46	1.19565
	PRMT8	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]	Subtracted	226.582	198.444	28.138
152	no value	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	Divided	55	46	1.19565
	SNRP70	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621]	Subtracted	226.582	198.444	28.138
153	no value	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]
	RBM15B	chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286]	Divided	249.663	298.263	1.19466
154	MSI2	musashi 2 isoform a. [refseq;acc:nm_138962]	Subtracted	227.491	199.458	28.033

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.