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 2132 to 2181 of 12912 in total

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

Rank	description	Value Type	red	green	network_comparison
533	sodium/iodide cotransporter (na(+)/i(-) cotransporter) (sodium-iodide symporter) (na+/i-symporter). [swissprot;acc:q92911]	Squared	28937.1	34588.8	1.19531
534	40s ribosomal protein s16. [swissprot;acc:p17008]	Rooted	50.8036	46.8198	1.08509
	dehydrodolichyl diphosphate synthase. [refseq;acc:nm_024887]	Squared	27034.1	32301.8	1.19485
	guanine nucleotide-binding protein-like 1 (gtp-binding protein hsr1). [swissprot;acc:p36915]	Ranked	250.942	235.004	1.06782
	nuclear fragile x mental retardation protein interacting protein 1; nuclear fragile x mental retardation intercating protein 1; nuclear fragile x mental retardation protein-interacting protein 1. [refseq;acc:nm_012345]	Measured	4651.88	5296.78	1.13863
535	60s ribosomal protein l13a (23 kda highly basic protein). [swissprot;acc:p40429]	Rooted	50.8041	46.8218	1.08505
	dna-directed rna polymerases i, ii, and iii 17.1 kda polypeptide (ec 2.7.7.6) (rpb17) (rpb8) (rpabc3). [swissprot;acc:p52434]	Ranked	236.662	252.708	1.0678
	maguk p55 subfamily member 3 (mpp3 protein) (discs, large homolog 3). [swissprot;acc:q13368]	Squared	37147.5	44372.1	1.19448
	translocon-associated protein, delta subunit precursor (trap-delta) (signal sequence receptor delta subunit) (ssr-delta). [swissprot;acc:p51571]	Measured	10603.5	12069.5	1.13826
536	calsyntenin-1 precursor. [swissprot;acc:o94985]
	homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260]	Rooted	66.0815	71.6562	1.08436
	integral membrane protein 2b (transmembrane protein bri) [contains: abri/adan amyloid peptide]. [swissprot;acc:q9y287]	Squared	28657.6	34208.6	1.1937
	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455]	Ranked	242.531	227.136	1.06778
537	homeobox protein hox-b9 (hox-2e) (hox-2.5). [swissprot;acc:p17482]	Rooted	66.0817	71.6545	1.08433
	integral membrane protein 2c (transmembrane protein bri3) (npd018). [swissprot;acc:q9nqx7]	Squared	28657.6	34208.6	1.1937
	putative pre-mrna splicing factor rna helicase (deah box protein 15) (atp-dependent rna helicase #46). [swissprot;acc:o43143]	Ranked	229.803	215.301	1.06736
	succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521]	Measured	10603.5	12069.5	1.13826
538	dna-directed rna polymerase ii 7.6 kda polypeptide (ec 2.7.7.6) (rpb10) (rpb7.6) (rpabc5). [swissprot;acc:p52436]	Ranked	237.627	253.604	1.06724
	homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269]	Rooted	66.0817	71.6543	1.08433
	integral membrane protein 2a (e25 protein). [swissprot;acc:o43736]	Squared	28657.6	34208.6	1.1937
	protein-tyrosine phosphatase beta precursor (ec 3.1.3.48) (r-ptp- beta). [swissprot;acc:p23467]	Measured	10603.5	12069.4	1.13825
539	homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274]	Rooted	66.0818	71.6537	1.08432
	protein cgi-27 (c21orf19-like protein). [swissprot;acc:q9y316]	Ranked	236.964	252.86	1.06708
	thymus-specific serine protease precursor (ec 3.4.-.-). [swissprot;acc:q9nqe7]	Measured	10603.5	12069.4	1.13825
	werner helicase interacting protein isoform 1; putative helicase ruvbl; werner helicase interacting protein. [refseq;acc:nm_020135]	Squared	20613.1	24595.9	1.19322
540	argininosuccinate lyase (ec 4.3.2.1) (arginosuccinase) (asal). [swissprot;acc:p04424]		26048.6	31057.4	1.19229
	gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928]	Rooted	66.082	71.6526	1.0843
	gk001 protein. [refseq;acc:nm_020198]	Measured	10603.5	12069.4	1.13825
	selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611]	Ranked	222.156	208.201	1.06703
541	calsyntenin-2 precursor. [swissprot;acc:q9h4d0]	Measured	10600.3	12065.2	1.13819
	coatomer beta subunit (beta-coat protein) (beta-cop). [swissprot;acc:p53618]	Squared	53774.6	45105.5	1.1922
	flavoprotein oxidoreductase mical2. [refseq;acc:nm_014632]	Ranked	222.156	208.201	1.06703
	forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488]	Rooted	66.082	71.6526	1.0843
542	gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [swissprot;acc:q8n1c3]
	inositol polyphosphate-4-phosphatase, type ii, 105kd; inositol polyphosphate 4-phosphatase ii; 4-phosphatase ii. [refseq;acc:nm_003866]	Ranked	222.156	208.201	1.06703
	rac-alpha serine/threonine kinase (ec 2.7.1.-) (rac-pk-alpha) (protein kinase b) (pkb) (c-akt). [swissprot;acc:p31749]	Measured	3889.27	4426.74	1.13819
	s-adenosylmethionine synthetase alpha and beta forms (ec 2.5.1.6) (methionine adenosyltransferase) (adomet synthetase) (mat-i/iii). [swissprot;acc:q00266]	Squared	26084.2	31084.3	1.19169
543	calsyntenin-3 precursor. [swissprot;acc:q9bqt9]	Measured	10599.9	12064.7	1.13819
	gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p47869]	Rooted	66.082	71.6525	1.0843
	glutamate carboxypeptidase-like protein 2 precursor. [swissprot;acc:q96kn2]	Squared	26612.5	31709	1.19151
	selenide,water dikinase 1 (ec 2.7.9.3) (selenophosphate synthetase 1) (selenium donor protein 1). [swissprot;acc:p49903]	Ranked	222.156	208.201	1.06703
544	gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [swissprot;acc:q16445]	Rooted	66.082	71.6525	1.0843
	inositol polyphosphate-4-phosphatase, type 1 isoform b; inositol polyphosphate-4-phosphatase, type i, 107kd; 4-phosphatase i; inositol polyphosphate-4-phosphatase i. [refseq;acc:nm_001566]	Ranked	222.156	208.201	1.06703
	rac-gamma serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-gamma) (protein kinase akt-3) (protein kinase b, gamma) (pkb gamma) (stk-2). [swissprot;acc:q9y243]	Measured	3889.27	4426.74	1.13819
	ran binding protein 11. [refseq;acc:nm_016338]	Squared	26018.9	30994.1	1.19121
545	eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [swissprot;acc:p56537]	Ranked	248.866	233.287	1.06678
	gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507]	Rooted	66.082	71.6526	1.0843
	membrane protein expressed in epithelial-like lung adenocarcinoma. [refseq;acc:nm_024792]	Squared	26010	30981.7	1.19115
	rac-beta serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-beta) (protein kinase akt-2) (protein kinase b, beta) (pkb beta). [swissprot;acc:p31751]	Measured	3889.27	4426.74	1.13819
546	atp synthase delta chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p30049]	Squared	27162.5	32347.5	1.19089

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.