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

Results: HTML CSV LaTeX

Showing element 1101 to 1150 of 8289 in total

Network Comparison Type  : Divided
Value Type  : Ranked
Filtered  : 1

description	Rank	Hugo	Interaction Map	red	green	network_comparison
bromodomain-containing protein 4 (hunk1 protein). [swissprot;acc:o60885]	3385	BRD4	Low confidence	197.761	194.772	1.01535
bruno-like 4, rna binding protein; rna-binding protein brunol-5; cug-bp and etr-3 like factor 4. [refseq;acc:nm_020180]	1420	BRUNOL4		202.785	198.472	1.02173
bruno-like 5, rna binding protein; rna-binding protein brunol-5; cug-bp and etr-3 like factor 5. [refseq;acc:nm_021938]	1418	BRUNOL5		202.784	198.471
bruno-like 6, rna binding protein; rna-binding protein brunol-6. [refseq;acc:nm_052840]	1419	BRUNOL6		202.785	198.472
bs4 protein (ny-ren-18 antigen). [swissprot;acc:q9y5a7]	2127	NUB1		203.701	199.864	1.0192
	3214		High confidence	0.00001	0.00001	1
bullous pemphigoid antigen 1 isoforms 1/2/3/4/5/8 (230 kda bullous pemphigoid antigen) (bpa) (hemidesmosomal plaque protein) (dystonia musculorum protein) (fragment). [swissprot;acc:q03001]	449	DST		228.463	246.33	1.07821
	3495		Low confidence	204.154	201.145	1.01496
bup protein. [refseq;acc:nm_012071]	2911	COMMD3	High confidence	0.00001	0.00001	1
	4678		Low confidence	208.399	207.173	1.00592
butyrate-induced transcript 1. [refseq;acc:nm_016395]	4133	PTPLAD1		198.355	196.271	1.01062
bystin. [swissprot;acc:q13895]	1149	BYSL	High confidence	239.505	233.185	1.0271
	2694		Low confidence	200.546	197.084	1.01757
c-1-tetrahydrofolate synthase, cytoplasmic (c1-thf synthase) [includes: methylenetetrahydrofolate dehydrogenase (ec 1.5.1.5); methenyltetrahydrofolate cyclohydrolase (ec 3.5.4.9); formyltetrahydrofolate synthetase (ec 6.3.4.3)]. [swissprot;acc:p11586]	1541	MTHFD1		203.321	199.093	1.02124
	1766		High confidence	228.932	231.732	1.01223
c-ets-1 protein (p54). [swissprot;acc:p14921]	2538	ETS1	Low confidence	197.562	194.049	1.0181
c-ets-2 protein. [swissprot;acc:p15036]	2537	ETS2
c-jun-amino-terminal kinase interacting protein 3 (jnk-interacting protein 3) (jip-3) (jnk map kinase scaffold protein 3) (mitogen- activated protein kinase 8-interacting protein 3). [swissprot;acc:q9upt6]	2040	MAPK8IP3		204.532	208.492	1.01936
	2473		High confidence	218.644	217.991	1.003
c-mpl binding protein. [refseq;acc:nm_052879]	1053	LARP4	Low confidence	204.184	199.387	1.02406
c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363]	1554	CTBP1	High confidence	196.215	193.018	1.01656
	2961		Low confidence	193.975	190.752	1.0169
c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545]	1558	CTBP2	High confidence	196.171	192.977	1.01655
	2980		Low confidence	194.015	190.812	1.01679
c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596]	844	CLEC3A	High confidence	178.033	170.82	1.04223
	2636		Low confidence	193.924	190.539	1.01777
c1 domain-containing phosphatase and tensin-like protein isoform 2; putative protein tyrosine phosphatase; c1 domain-containing phosphatase and tensin-like protein; tensin 2. [refseq;acc:nm_015319]	227	TENC1		216.404	206.277	1.04909
	2475		High confidence	218.219	217.571	1.00298
c18b11 homolog (44.9kd). [refseq;acc:nm_152260]	545	RPUSD2	Low confidence	202.949	196.678	1.03188
	1625		High confidence	217.446	214.2	1.01515
c316g12.2 (novel protein similar to predicted yeast, worm and archae- bacterial proteins) (similar to und313) (s. cervisiae) (hypothetical protein). [sptrembl;acc:q9ujk0]	1321	C16orf42	Low confidence	199.938	195.591	1.02222
	1506		High confidence	212.103	208.339	1.01807
c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	321	no value		241.892	265.959	1.09949
	4162		Low confidence	207.355	209.52	1.01044
c3hc4-type zinc finger protein; likely ortholog of mouse dioxin inducible factor 3. [refseq;acc:nm_024835]	159	GGNBP2		219.838	207.417	1.05988
c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]	260	HS3ST6	High confidence	219.421	196.978	1.11394
	465		Low confidence	207.812	200.994	1.03392
ca(2+)/calmodulin-dependent protein kinase phosphatase (ec 3.1.3.16) (cam-kinase phosphatase) (camkpase) (partner of pix 2) (hfem-2) (protein phosphatase 1f). [swissprot;acc:p49593]	4146	PPM1F		201.174	199.068	1.01058
ca2+-dependent endoplasmic reticulum nucleoside diphosphatase; apyrase; soluble calcium-activated nucleotidase scan-1. [refseq;acc:nm_138793]	2577	CANT1	High confidence	192.625	192.922	1.00154
	4009		Low confidence	199.575	197.281	1.01163
ca2+-promoted ras inactivator; gtpase activating protein-like; calcium-promoted ras inactivator. [refseq;acc:nm_006989]	1356	no value		202.643	198.269	1.02206
caax prenyl protease 1 homolog (ec 3.4.24.-) (prenyl protein-specific endoprotease 1) (farnesylated-proteins converting enzyme 1) (face-1) (zinc metalloproteinase ste24 homolog). [swissprot;acc:o75844]	617	ZMPSTE24		203.738	197.913	1.02943
	1448		High confidence	226.532	222.117	1.01988
cab2. [refseq;acc:nm_033419]	769	PERLD1		210.946	221.225	1.04873
	1087		Low confidence	200.375	195.715	1.02381
cad protein [includes: glutamine-dependent carbamoyl-phosphate synthase (ec 6.3.5.5); aspartate carbamoyltransferase (ec 2.1.3.2); dihydroorotase (ec 3.5.2.3)]. [swissprot;acc:p27708]	1736	CAD		200.267	196.26	1.02042
	1829		High confidence	212.884	215.323	1.01146
cadherin-related tumor suppressor homolog precursor (fat protein homolog). [swissprot;acc:q14517]	1526	FAT		219.306	223.179	1.01766
	2216		Low confidence	199.221	195.512	1.01897
calcineurin b subunit isoform 1 (protein phosphatase 2b regulatory subunit 1) (protein phosphatase 3 regulatory subunit b alpha isoform 1). [swissprot;acc:p06705]	266	WDR92		214.887	205.509	1.04563

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.