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

Results: HTML CSV LaTeX

Showing element 3786 to 3835 of 12912 in total

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

Rank	description	Value Type	red	green	network_comparison
947	atpase, h+ transporting, lysosomal v0 subunit a isoform 4; vacuolar proton pump 116 kda accessory subunit; vacuolar proton pump, subunit 2; h(+)-transporting two-sector atpase, noncatalytic accessory protein 1b; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 1b; renal tubular acidosis; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 2 (38kd). [refseq;acc:nm_020632]	Rooted	62.4093	66.0819	1.05885
	signal transducing adaptor molecule 1; signal transducing adaptor molecule. [refseq;acc:nm_003473]	Measured	11797.1	10750.2	1.09738
	thymidylate kinase (ec 2.7.4.9) (dtmp kinase). [swissprot;acc:p23919]	Squared	24999.1	28856.8	1.15431
948	caspase-7 precursor (ec 3.4.22.-) (ice-like apoptotic protease 3) (ice-lap3) (apoptotic protease mch-3) (cmh-1). [swissprot;acc:p55210]	Measured	4633.48	5084.24	1.09728
	target of myb protein 1. [swissprot;acc:o60784]	Ranked	217.254	209.824	1.03541
	vacuolar proton translocating atpase 116 kda subunit a isoform 1 (clathrin-coated vesicle/synaptic vesicle proton pump 116 kda subunit) (vacuolar proton pump subunit 1) (vacuolar adenosine triphosphatase subunit ac116). [swissprot;acc:q93050]	Rooted	62.4102	66.0829	1.05885
	xylulokinase homolog; xylulokinase (h. influenzae) homolog. [refseq;acc:nm_005108]	Squared	25295.5	29197.3	1.15425
949	apopain precursor (ec 3.4.22.-) (cysteine protease cpp32) (yama protein) (cpp-32) (caspase-3) (casp-3) (srebp cleavage activity 1) (sca-1). [swissprot;acc:p42574]	Measured	4633.48	5084.24	1.09728
	heterogeneous nuclear ribonucleoprotein l (hnrnp l). [swissprot;acc:p14866]	Rooted	82.2821	87.1197	1.05879
	huntingtin-associated protein-interacting protein (duo protein). [swissprot;acc:o60229]	Ranked	217.253	209.826	1.0354
	mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362]	Squared	27084.5	31257.9	1.15409
950	bystin. [swissprot;acc:q13895]	Measured	4280.99	4697.02	1.09718
	dna-repair protein complementing xp-g cells (xeroderma pigmentosum group g complementing protein) (dna excision repair protein ercc-5). [swissprot;acc:p28715]	Ranked	252.873	261.821	1.03539
	estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [swissprot;acc:o75454]	Rooted	82.2706	87.1037	1.05875
	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455]	Squared	16129.2	18614.3	1.15407
951	dimethylaniline monooxygenase [n-oxide forming] 5 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 5) (fmo 5) (dimethylaniline oxidase 5). [swissprot;acc:p49326]	Measured	5364.3	5885.48	1.09716
	gtp cyclohydrolase i (ec 3.5.4.16) (gtp-ch-i). [swissprot;acc:p30793]	Squared	19634.1	22653.4	1.15378
	sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538]	Rooted	56.264	59.5672	1.05871
	triple functional domain protein (ptprf interacting protein). [swissprot;acc:o75962]	Ranked	217.253	209.827	1.03539
952	casein kinase ii beta chain (ck ii) (phosvitin) (g5a). [swissprot;acc:p13862]	Rooted	56.264	59.5672	1.05871
	my016 protein. [sptrembl;acc:q9h3k6]	Squared	18239.4	21037.9	1.15343
	putative dimethylaniline monooxygenase [n-oxide forming] 6 (ec 1.14.13.8) (flavin-containing monooxygenase 6) (fmo 6) (dimethylaniline oxidase 6). [swissprot;acc:o60774]	Measured	5364.3	5885.48	1.09716
	target of myb1-like 2; target of myb1 (chicken) homolog-like 2. [refseq;acc:nm_144678]	Ranked	217.252	209.83	1.03537
953	casein kinase i alpha s-like. [refseq;acc:nm_145203]	Measured	4906.33	5382.5	1.09705
	cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526]	Rooted	93.6481	88.4638	1.0586
	eukaryotic translation initiation factor 3 subunit 4 (eif-3 delta) (eif3 p44) (eif-3 rna-binding subunit) (eif3 p42) (eif3g). [swissprot;acc:o75821]	Squared	16131.6	18602.2	1.15315
	polymyositis/scleroderma autoantigen 2 (autoantigen pm/scl 2) (polymyositis/scleroderma autoantigen 100 kda) (pm/scl-100) (p100 polymyositis-scleroderma overlap syndrome associated autoantigen). [swissprot;acc:q01780]	Ranked	198.494	205.466	1.03512
954	casein kinase i, alpha isoform (ec 2.7.1.-) (cki-alpha) (ck1). [swissprot;acc:p48729]	Measured	4906.33	5382.5	1.09705
	eukaryotic translation initiation factor 3 subunit 10 (eif-3 theta) (eif3 p167) (eif3 p180) (eif3 p185) (eif3a). [swissprot;acc:q14152]	Squared	16131.6	18602.2	1.15315
	g2/mitotic-specific cyclin b2. [swissprot;acc:o95067]	Rooted	93.6382	88.4565	1.05858
	maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708]	Ranked	267.447	276.773	1.03487
955	cell division protein kinase 2 (ec 2.7.1.-) (p33 protein kinase). [swissprot;acc:p24941]	Rooted	93.5947	88.4244	1.05847
	dj718p11.1.2 (novel class ii aminotransferase similar to serine palmotyltransferase (isoform 2)) (fragment). [sptrembl;acc:q9ugb5]	Squared	24856.2	28661.3	1.15308
	mitochondrial 60s ribosomal protein l27 (l27mt) (hspc250). [swissprot;acc:q9p0m9]	Ranked	231.163	239.205	1.03479
	uridine kinase-like 1. [swissprot;acc:q9nwz5]	Measured	5548.78	6086.89	1.09698
956	dimethylaniline monooxygenase [n-oxide forming] 3 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 3) (fmo 3) (dimethylaniline oxidase 3) (fmo form 2) (fmo ii). [swissprot;acc:p31513]		5364.77	5884.89	1.09695
	g2/mitotic-specific cyclin b1. [swissprot;acc:p14635]	Rooted	93.5901	88.4209	1.05846
	serine palmitoyltransferase 2 (ec 2.3.1.50) (long chain base biosynthesis protein 2) (lcb 2) (serine-palmitoyl-coa transferase 2) (spt 2). [swissprot;acc:o15270]	Squared	24804.6	28595.4	1.15283
	vinexin (sh3-containing adaptor molecule-1) (scam-1). [swissprot;acc:o60504]	Ranked	211.812	204.732	1.03458
957	a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [swissprot;acc:p10398]		129.913	134.399	1.03453
	asparaginyl-trna synthetase, cytoplasmic (ec 6.1.1.22) (asparagine-- trna ligase) (asnrs). [swissprot;acc:o43776]	Squared	26822.8	30911.4	1.15243
	cell division control protein 2 homolog (ec 2.7.1.-) (p34 protein kinase) (cyclin-dependent kinase 1) (cdk1). [swissprot;acc:p06493]	Rooted	93.5619	88.4001	1.05839
	structure-specific recognition protein 1 (ssrp1) (recombination signal sequence recognition protein) (t160) (chromatin-specific transcription elongation factor 80 kda subunit) (fact 80 kda subunit). [swissprot;acc:q08945]	Measured	4483.26	4917.77	1.09692
958	chromatin-specific transcription elongation factor large subunit. [refseq;acc:nm_007192]
	raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [swissprot;acc:p04049]	Ranked	129.921	134.406	1.03452
	selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611]	Squared	29830.2	34375.9	1.15239
	steroid hormone receptor err1 (estrogen-related receptor, alpha) (err-alpha) (estrogen receptor-like 1). [swissprot;acc:p11474]	Rooted	82.1645	86.9566	1.05832
959	flavoprotein oxidoreductase mical2. [refseq;acc:nm_014632]	Squared	29830.2	34375.9	1.15239
	guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388]	Ranked	237.558	229.677	1.03431
	sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633]	Measured	4379.28	4803.59	1.09689

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.