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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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

Results: HTML CSV LaTeX

Showing element 501 to 550 of 25824 in total

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

Rank	Value Type	green	description	red	network_comparison
126	Measured	18164.9	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	24250	1.33499
	Ranked	114	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	94	1.21277
	Squared	124480	serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [swissprot;acc:p08129]	189976	1.52616
	Rooted	75.1387	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]	60.9342	1.23311
127	Measured	7523.39	transcription factor jun-d. [swissprot;acc:p17535]	5638.2	1.33436
	Ranked	114	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	94	1.21277
	Squared	58423.3	cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551]	88432.6	1.51365
	Rooted	75.094	high-mobility group 20a. [refseq;acc:nm_018200]	60.9353	1.23236
128	Measured	5810.82	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	4355.61	1.3341
	Ranked	114	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	94	1.21277
	Squared	58155.8	pnas-18. [sptrembl;acc:q9bzu3]	87787.3	1.50952
	Rooted	39.0445	tar dna-binding protein-43 (tdp-43). [swissprot;acc:q13148]	48.0515	1.23069
129	Measured	5811.49	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	4358.13	1.33348
	Ranked	114	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	94	1.21277
	Squared	118639	pre-mrna cleavage complex ii protein pcf11 (fragment). [swissprot;acc:o94913]	178263	1.50257
	Rooted	66.7323	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	54.2343	1.23044
130	Measured	2978.53	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	2234.68	1.33287
	Ranked	114	protein hspc134 (protein cda04). [swissprot;acc:q9by43]	94	1.21277
	Squared	99628.4	44050 protein. [refseq;acc:nm_178832]	148058	1.4861
	Rooted	67.5701	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	55.1026	1.22626
131	Measured	2978.57	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	2234.73	1.33285
	Ranked	242.562	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]	294.053	1.21228
	Squared	99628.4	nuclear inhibitor of protein phosphatase-1 (nipp-1) (protein phosphatase 1, regulatory inhibitor subunit 8) [includes: activator of rna decay (ec 3.1.4.-) (ard-1)]. [swissprot;acc:q12972]	148058	1.4861
	Rooted	67.5537	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	55.1113	1.22577
132	Measured	2980.35	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	2236.61	1.33253
	Ranked	290	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	350	1.2069
	Squared	24466.8	autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0]	36359.2	1.48606
	Rooted	55.0576	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	44.963	1.22451
133	Measured	17580.4	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	23421.5	1.33225
	Ranked	290	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	350	1.2069
	Squared	1726.55	gbp protein isoform a. [refseq;acc:nm_017870]	1182.25	1.46039
	Rooted	55.5995	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	45.4558	1.22316
134	Measured	16426.1	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	21785.2	1.32626
	Ranked	290	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	350	1.2069
	Squared	56306.5	p66 alpha. [refseq;acc:nm_017660]	81888.8	1.45434
	Rooted	54.7964	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]	44.849	1.2218
135	Measured	16426.1	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	21785.2	1.32626
	Ranked	290	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	350	1.2069
	Squared	56306.5	transcription repressor p66 beta component of the mecp1 complex. [refseq;acc:nm_020699]	81888.8	1.45434
	Rooted	66.6101	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	54.935	1.21253
136	Measured	4763.34	nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952]	3620.77	1.31556
	Ranked	290	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	350	1.2069
	Squared	56306.5	tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735]	81888.8	1.45434
	Rooted	50.6469	adiponectin receptor 2. [refseq;acc:nm_024551]	41.8357	1.21061
137	Measured	4763.34	ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]	3620.77	1.31556
	Ranked	290	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	350	1.2069
	Squared	56215.8	cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526]	81606.8	1.45167
	Rooted	66.2416	musashi 2 isoform a. [refseq;acc:nm_138962]	54.9787	1.20486
138	Measured	2094.3	kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592]	2755.15	1.31555
	Ranked	234.204	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	1.20493

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.