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 5986 to 6035 of 12912 in total

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

Rank	description	Value Type	red	green	network_comparison
1497	exportin 1; exportin-1 (required for chromosome region maintenance); exportin 1 (crm1, yeast, homolog); crm1, yeast, homolog. [refseq;acc:nm_003400]	Ranked	224.476	220.363	1.01866
	f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755]	Measured	6339.08	6812.45	1.07467
	fibulin-2 precursor. [swissprot;acc:p98095]	Rooted	76.496	79.3591	1.03743
1498	40s ribosomal protein s13. [swissprot;acc:q02546]	Measured	5414.98	5818.7	1.07456
	dual specificity mitogen-activated protein kinase kinase 6 (ec 2.7.1.-) (map kinase kinase 6) (mapkk 6) (mapk/erk kinase 6) (sapkk3). [swissprot;acc:p52564]	Rooted	64.2624	66.6652	1.03739
	histone-lysine n-methyltransferase, h3 lysine-9 specific 2 (ec 2.1.1.43) (histone h3-k9 methyltransferase 2) (h3-k9-hmtase 2) (suppressor of variegation 3-9 homolog 2) (su(var)3-9 homolog 2). [swissprot;acc:q9h5i1]	Squared	21291.9	23721	1.11409
	neurotrimin precursor (hnt). [swissprot;acc:q9p121]	Ranked	224.022	219.924	1.01863
1499	dual specificity mitogen-activated protein kinase kinase 3 (ec 2.7.1.-) (map kinase kinase 3) (mapkk 3) (mapk/erk kinase 3). [swissprot;acc:p46734]	Rooted	64.2544	66.6549	1.03736
	eukaryotic translation initiation factor 2 subunit 1 (eukaryotic translation initiation factor 2 alpha subunit) (eif-2-alpha) (eif- 2alpha) (eif-2a). [swissprot;acc:p05198]	Squared	21291.9	23721	1.11409
	hepatocyte nuclear factor 3-beta (hnf-3b) (forkhead box protein a2). [swissprot;acc:q9y261]	Measured	5798.31	6230.55	1.07455
	transcription factor smif; decapping enzyme hdcp1a. [refseq;acc:nm_018403]	Ranked	224.509	220.411	1.01859
1500	coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606]	Measured	10075.5	9377.75	1.0744
	cop9 complex subunit 4; likely ortholog of mouse cop9 (constitutive photomorphogenic), subunit 4 (arabidopsis); cop9 (constitutive photomorphogenic, arabidopsis, homolog) subunit 4. [refseq;acc:nm_016129]	Ranked	213.398	209.52	1.01851
	fidgetin-like 1. [refseq;acc:nm_022116]	Rooted	63.2895	65.6523	1.03733
	histone-lysine n-methyltransferase, h3 lysine-9 specific 1 (ec 2.1.1.43) (histone h3-k9 methyltransferase 1) (h3-k9-hmtase 1) (suppressor of variegation 3-9 homolog 1) (su(var)3-9 homolog 1). [swissprot;acc:o43463]	Squared	21291.9	23721	1.11409
1501	60s ribosomal protein l37 (g1.16). [swissprot;acc:p02403]		18555.4	20672	1.11407
	coatomer gamma subunit (gamma-coat protein) (gamma-cop). [swissprot;acc:q9y678]	Measured	10075.5	9377.75	1.0744
	kinesin family member c3. [refseq;acc:nm_005550]	Ranked	214.727	210.838	1.01845
	sterile alpha and tir motif containing 1; sterile alpha and heat/armadillo motif protein, ortholog of drosophila. [refseq;acc:nm_015077]	Rooted	60.5617	62.8214	1.03731
1502	coatomer zeta-1 subunit (zeta-1 coat protein) (zeta-1 cop) (cgi-120) (hspc181). [swissprot;acc:q9y3c3]	Measured	10075.5	9377.75	1.0744
	splicing factor, arginine/serine-rich 1 (pre-mrna splicing factor sf2, p33 subunit) (alternative splicing factor asf-1). [swissprot;acc:q07955]	Squared	18555.4	20672	1.11407
	uridine kinase-like 1. [swissprot;acc:q9nwz5]	Ranked	218.084	214.149	1.01838
	wiskott-aldrich syndrome protein family member 2 (wasp-family protein member 2) (verprolin homology domain-containing protein 2). [swissprot;acc:q9y6w5]	Rooted	64.181	66.575	1.0373
1503	amidophosphoribosyltransferase precursor (ec 2.4.2.14) (glutamine phosphoribosylpyrophosphate amidotransferase) (atase) (gpat). [swissprot;acc:q06203]	Squared	18555.4	20672	1.11407
	coatomer delta subunit (delta-coat protein) (delta-cop) (archain). [swissprot;acc:p48444]	Measured	10075.5	9377.75	1.0744
	hiv-1 rev binding protein 2; rev interacting protein. [refseq;acc:nm_007043]	Ranked	242.181	237.834	1.01828
	wiskott-aldrich syndrome protein family member 3 (wasp-family protein member 3) (verprolin homology domain-containing protein 3). [swissprot;acc:q9upy6]	Rooted	64.181	66.575	1.0373
1504	m-phase inducer phosphatase 3 (ec 3.1.3.48) (dual specificity phosphatase cdc25c). [swissprot;acc:p30307]	Ranked	259.439	254.797	1.01822
	peptidyl-prolyl cis-trans isomerase e (ec 5.2.1.8) (ppiase e) (rotamase e) (cyclophilin e) (cyclophilin 33). [swissprot;acc:q9unp9]	Measured	10075.5	9377.75	1.0744
	sorting nexin 17. [swissprot;acc:q15036]	Squared	18555.4	20672	1.11407
	wiskott-aldrich syndrome protein family member 1 (wasp-family protein member 1) (verprolin homology domain-containing protein 1). [swissprot;acc:q92558]	Rooted	64.181	66.575	1.0373
1505	coatomer zeta-2 subunit (zeta-2 coat protein) (zeta-2 cop). [swissprot;acc:q9p299]	Measured	10075.5	9377.75	1.0744
	phosphoribosylformylglycinamidine synthase (ec 6.3.5.3) (fgam synthase) (fgams) (formylglycinamide ribotide amidotransferase) (fgarat) (formylglycinamide ribotide synthetase). [swissprot;acc:o15067]	Squared	20660.9	23016.9	1.11403
	protein ad-016 (protein cgi-116) (x0009). [swissprot;acc:q9y3c0]	Ranked	216.158	212.316	1.0181
	rest corepressor. [refseq;acc:nm_015156]	Rooted	64.181	66.575	1.0373
1506	60s ribosomal protein l28. [swissprot;acc:p46779]		63.0816	65.4287	1.03721
	bifunctional purine biosynthesis protein purh [includes: phosphoribosylaminoimidazolecarboxamide formyltransferase (ec 2.1.2.3) (aicar transformylase); imp cyclohydrolase (ec 3.5.4.10) (inosinicase) (imp synthetase) (atic)]. [swissprot;acc:p31939]	Squared	20660.9	23016.9	1.11403
	c316g12.2 (novel protein similar to predicted yeast, worm and archae- bacterial proteins) (similar to und313) (s. cervisiae) (hypothetical protein). [sptrembl;acc:q9ujk0]	Ranked	212.103	208.339	1.01807
	hexaprenyldihydroxybenzoate methyltransferase, mitochondrial precursor (ec 2.1.1.114) (dihydroxyhexaprenylbenzoate methyltransferase) (3,4- dihydroxy-5-hexaprenylbenzoate methyltransferase) (dhhb methyltransferase) (dhhb-mt) (dhhb-mtase). [swissprot;acc:q9nzj6]	Measured	6152.78	6610.46	1.07439
1507	atp synthase coupling factor b, mitochondrial precursor. [swissprot;acc:q99766]
	multifunctional protein ade2 [includes: phosphoribosylaminoimidazole- succinocarboxamide synthase (ec 6.3.2.6) (saicar synthetase); phosphoribosylaminoimidazole carboxylase (ec 4.1.1.21) (air carboxylase) (airc)]. [swissprot;acc:p22234]	Squared	20660.9	23016.9	1.11403
	presenilins associated rhomboid-like protein. [refseq;acc:nm_018622]	Rooted	64.4036	66.795	1.03713
	[pyruvate dehydrogenase [lipoamide]] kinase isozyme 1, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 1). [swissprot;acc:q15118]	Ranked	213.274	209.5	1.01801
1508	gamma-butyrobetaine,2-oxoglutarate dioxygenase (ec 1.14.11.1) (gamma-butyrobetaine hydroxylase) (gamma-bbh). [swissprot;acc:o75936]	Rooted	64.4036	66.795	1.03713
	guanine deaminase (ec 3.5.4.3) (guanase) (guanine aminase) (guanine aminohydrolase) (gah) (p51-nedasin). [swissprot;acc:q9y2t3]	Measured	6152.78	6610.46	1.07439
	trifunctional purine biosynthetic protein adenosine-3 [includes: phosphoribosylamine--glycine ligase (ec 6.3.4.13) (gars) (glycinamide ribonucleotide synthetase) (phosphoribosylglycinamide synthetase); phosphoribosylformylglycinamidine cyclo-ligase (ec 6.3.3.1) (airs) (phosphoribosyl-aminoimidazole synthetase) (air synthase); phosphoribosylglycinamide formyltransferase (ec 2.1.2.2) (gart) (gar transformylase) (5'-phosphoribosylglycinamide transformylase)]. [swissprot;acc:p22102]	Squared	22766.5	25361.9	1.114
	[pyruvate dehydrogenase [lipoamide]] kinase isozyme 2, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 2). [swissprot;acc:q15119]	Ranked	213.274	209.5	1.01801
1509	acetyl-coa carboxylase 2 (ec 6.4.1.2) (acc-beta) [includes: biotin carboxylase (ec 6.3.4.14)]. [swissprot;acc:o00763]	Measured	7237.39	7775.21	1.07431
	adenylosuccinate lyase (ec 4.3.2.2) (adenylosuccinase) (asl) (asase). [swissprot;acc:p30566]	Squared	33294.4	37086.4	1.11389
	alpha-centractin (centractin) (centrosome-associated actin homolog) (actin-rpv) (arp1). [swissprot;acc:p42024]	Ranked	225.148	221.177	1.01795

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.