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.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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

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Showing element 551 to 600 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	Value Type	description	red	network_comparison	green
138	Squared	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	468498	1.45156	322755
	Rooted	musashi 1. [refseq;acc:nm_002442]	54.9787	1.20486	66.2416
139	Measured	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183]	2759.61	1.31442	2099.49
	Ranked	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]	271.752	1.20415	225.68
	Squared	g2/mitotic-specific cyclin b2. [swissprot;acc:o95067]	81592.1	1.45153	56211.1
	Rooted	nuclear protein ukp68. [refseq;acc:nm_024824]	54.9787	1.20486	66.2416
140	Measured	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]	2760.28	1.31425	2100.27
	Ranked	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	59	1.20408	49
	Squared	cell division protein kinase 2 (ec 2.7.1.-) (p33 protein kinase). [swissprot;acc:p24941]	81527.6	1.45091	56190.6
	Rooted	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]	55.6161	1.19989	66.7332
141	Measured	small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330]	4405.4	1.3125	5782.08
	Ranked	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	59	1.20408	49
	Squared	g2/mitotic-specific cyclin b1. [swissprot;acc:p14635]	81520.8	1.45084	56188.5
	Rooted	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]	55.6161	1.19989	66.7332
142	Measured	metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889]	9276.47	1.30832	7090.37
	Ranked	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	59	1.20408	49
	Squared	cell division control protein 2 homolog (ec 2.7.1.-) (p34 protein kinase) (cyclin-dependent kinase 1) (cdk1). [swissprot;acc:p06493]	81478.9	1.45044	56175.2
	Rooted	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	55.6161	1.19989	66.7332
143	Measured	beta-1,4 mannosyltransferase. [refseq;acc:nm_019109]	9275.1	1.30826	7089.65
	Ranked	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]	59	1.20408	49
	Squared	protein phosphatase 1, regulatory (inhibitor) subunit 13b; apoptosis-stimulating protein of p53, 1. [refseq;acc:nm_015316]	124319	1.43145	86848.2
	Rooted	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]	55.6161	1.19989	66.7332
144	Measured	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	3349.9	1.30231	4362.61
	Ranked	kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592]	265.686	1.20312	319.651
	Squared	tumor suppressor p53-binding protein 2 (p53-binding protein 2) (53bp2) (bcl2-binding protein) (bbp). [swissprot;acc:q13625]	123324	1.42938	86277.9
	Rooted	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621]	55.6161	1.19989	66.7332
145	Measured	ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]	16771.5	1.30122	12889.1
	Ranked	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183]	265.639	1.20293	319.546
	Squared	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	310840	1.42515	442993
	Rooted	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	55.6161	1.19989	66.7332
146	Measured	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	11068	1.30082	8508.5
	Ranked	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
	Squared	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	103496	1.41888	146848
	Rooted	huntingtin interacting protein c. [refseq;acc:nm_012272]	55.0737	1.19894	66.0298
147	Measured	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	11068	1.30082	8508.5
	Ranked	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	50.7983	1.2009	42.3003
	Squared	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	103496	1.41888	146848
	Rooted	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	42.0574	1.19893	50.4237
148	Measured	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	11068	1.30082	8508.5
	Ranked	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	296.677	1.19841	247.559
	Squared	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	103496	1.41888	146848
	Rooted	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	42.0577	1.19892	50.424
149	Measured	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	11068	1.30082	8508.5
	Ranked	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]	142	1.19718	170
	Squared	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]	103496	1.41888	146848
	Rooted	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	42.0684	1.19882	50.4323
150	Measured	protein hspc134 (protein cda04). [swissprot;acc:q9by43]	11068	1.30082	8508.5
	Ranked	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	55	1.19565	46
	Squared	pre-mrna cleavage complex ii protein clp1. [swissprot;acc:q92989]	121200	1.41799	85473.4
	Rooted	serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323]	63.5827	1.19774	53.0856

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
- 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.