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	Filtered	red	Interaction Map	green	network_comparison

Results: HTML CSV LaTeX

Showing element 9586 to 9635 of 12912 in total

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

Rank	description	Value Type	red	green	network_comparison
2397	importin beta-2 subunit (karyopherin beta-2 subunit) (transportin) (m9 region interaction protein) (mip). [swissprot;acc:q92973]	Squared	25703.8	27418.6	1.06671
	translation initiation factor if-2, mitochondrial precursor (if-2mt) (if-2(mt)). [swissprot;acc:p46199]	Ranked	210.157	210.945	1.00375
	yl-1 protein (transcription factor-like 1). [swissprot;acc:q15906]	Measured	6707.29	6970.07	1.03918
2398	hydroxyacylglutathione hydrolase (ec 3.1.2.6) (glyoxalase ii) (glx ii). [swissprot;acc:q16775]
	mannose-6-phosphate isomerase (ec 5.3.1.8) (phosphomannose isomerase) (pmi) (phosphohexomutase). [swissprot;acc:p34949]	Rooted	60.8344	61.7685	1.01535
	protein kinase c, eta type (ec 2.7.1.-) (npkc-eta) (pkc-l). [swissprot;acc:p24723]	Ranked	182.395	183.079	1.00375
	r3h domain protein 1. [swissprot;acc:q15032]	Squared	26296.9	28047.6	1.06657
2399	homeobox protein otx1. [swissprot;acc:p32242]	Measured	5691.1	5913.92	1.03915
	karyopherin beta 2b, transportin; importin 3. [refseq;acc:nm_013433]	Squared	25712.1	27419	1.06639
	protein kinase c, epsilon type (ec 2.7.1.-) (npkc-epsilon). [swissprot;acc:q02156]	Ranked	182.4	183.083	1.00374
	putative ankyrin-repeat containing protein. [refseq;acc:nm_025185]	Rooted	60.8344	61.7685	1.01535
2400	malate dehydrogenase, mitochondrial precursor (ec 1.1.1.37). [swissprot;acc:p40926]	Measured	4368.44	4539.34	1.03912
	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	Rooted	60.8344	61.7685	1.01535
	peptidyl-prolyl cis-trans isomerase b precursor (ec 5.2.1.8) (ppiase) (rotamase) (cyclophilin b) (s-cyclophilin) (scylp) (cyp-s1). [swissprot;acc:p23284]	Ranked	182.4	183.083	1.00374
	sh3 domain-binding glutamic acid-rich protein (sh3bgr protein) (21- glutamic acid-rich protein) (21-garp). [swissprot;acc:p55822]	Squared	26996.7	28788.6	1.06637
2401	cone-rod homeobox protein. [swissprot;acc:o43186]	Measured	5694.04	5916.78	1.03912
	oxidation resistance 1. [refseq;acc:nm_181354]	Squared	26996.7	28788.6	1.06637
	protocadherin fat 2 precursor (hfat2) (multiple epidermal growth factor-like domains 1). [swissprot;acc:q9nyq8]	Rooted	60.8344	61.7685	1.01535
	udp-n-acetylglucosamine--peptide n-acetylglucosaminyltransferase 110 kda subunit (ec 2.4.1.-) (o-glcnac transferase p110 subunit). [swissprot;acc:o15294]	Ranked	182.4	183.083	1.00374
2402	40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865]	Measured	5078.5	5275.76	1.03884
	cadherin-related tumor suppressor homolog precursor (fat protein homolog). [swissprot;acc:q14517]	Rooted	60.8344	61.7685	1.01535
	cytochrome c oxidase subunit iv isoform 1, mitochondrial precursor (ec 1.9.3.1) (cox iv-1) (cytochrome c oxidase polypeptide iv). [swissprot;acc:p13073]	Ranked	182.4	183.083	1.00374
	lats, large tumor suppressor, homolog 2; lats (large tumor suppressor, drosophila) homolog 2. [refseq;acc:nm_014572]	Squared	26996.7	28788.6	1.06637
2403	40s ribosomal protein s21. [swissprot;acc:p35265]	Measured	5078.5	5275.76	1.03884
	cytochrome c oxidase subunit iv isoform 2, mitochondrial precursor (ec 1.9.3.1) (cox iv-2). [swissprot;acc:q96kj9]	Ranked	182.4	183.083	1.00374
	dymeclin. [refseq;acc:nm_017653]	Squared	26996.7	28788.6	1.06637
	mln64 n-terminal domain homolog (stard3 n-terminal like protein). [swissprot;acc:o95772]	Rooted	60.8344	61.7685	1.01535
2404	acyl-coenzyme a oxidase 2, peroxisomal (ec 1.3.3.6) (branched-chain acyl-coa oxidase) (brcacox) (trihydroxycoprostanoyl-coa oxidase) (thccox) (thca-coa oxidase). [swissprot;acc:q99424]	Ranked	193.389	194.105	1.0037
	cytoplasmic antiproteinase 3 (cap3) (cap-3) (protease inhibitor 9) (serpin b9). [swissprot;acc:p50453]	Measured	5078.5	5275.76	1.03884
	sh3 domain-binding glutamic acid-rich-like protein. [swissprot;acc:o75368]	Squared	26996.7	28788.6	1.06637
	transcription factor-like protein mrg15 (morf-related gene 15 protein) (mortality factor 4-like 1) (msl3-1 protein) (hspc008/hspc061). [swissprot;acc:q9ubu8]	Rooted	57.6124	58.4763	1.015
2405	hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [swissprot;acc:p46597]		60.6732	61.5778	1.01491
	lats homolog 1. [refseq;acc:nm_004690]	Squared	26996.7	28788.6	1.06637
	maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]	Measured	5078.5	5275.76	1.03884
	thioredoxin interacting protein; upregulated by 1,25-dihydroxyvitamin d-3. [refseq;acc:nm_006472]	Ranked	221.677	222.489	1.00366
2406	bomapin (protease inhibitor 10) (serpin b10). [swissprot;acc:p48595]	Measured	5078.5	5275.76	1.03884
	lipopolysaccharide-binding protein precursor (lbp). [swissprot;acc:p18428]	Rooted	58.7808	57.9198	1.01487
	sh3 domain-binding glutamic acid-rich-like protein 2 (fovea-associated sh3 domain binding protein). [swissprot;acc:q9ujc5]	Squared	26996.7	28788.6	1.06637
	signal transducing adaptor molecule 2; stam-like protein containing sh3 and itam domains 2. [refseq;acc:nm_005843]	Ranked	182.563	183.232	1.00366
2407	microsomal signal peptidase 25 kda subunit (ec 3.4.-.-) (spase 25 kda subunit) (spc25). [swissprot;acc:q15005]	Rooted	58.7808	57.9198	1.01487
	nuclear receptor coactivator 7; estrogen receptor associated protein 140 kda. [refseq;acc:nm_181782]	Squared	26996.7	28788.6	1.06637
	plasminogen activator inhibitor-2 precursor (pai-2) (placental plasminogen activator inhibitor) (monocyte arg-serpin) (urokinase inhibitor). [swissprot;acc:p05120]	Measured	5078.5	5275.76	1.03884
	proteasome subunit beta type 3 (ec 3.4.25.1) (proteasome theta chain) (proteasome chain 13) (proteasome component c10-ii). [swissprot;acc:p49720]	Ranked	214.234	213.456	1.00364
2408	dj132f21.2 (contains a novel protein similar to the l82e from drosophila) (fragment). [sptrembl;acc:q9h125]	Squared	26996.7	28788.6	1.06637
	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0]	Ranked	194.407	193.706	1.00362
	serpin b11. [swissprot;acc:q96p15]	Measured	5078.5	5275.76	1.03884
	uridine 5'-monophosphate synthase (ump synthase) [includes: orotate phosphoribosyltransferase (ec 2.4.2.10) (oprtase); orotidine 5'- phosphate decarboxylase (ec 4.1.1.23) (ompdecase)]. [swissprot;acc:p11172]	Rooted	58.7808	57.9198	1.01487
2409	cleft lip and palate associated transmembrane protein 1. [refseq;acc:nm_001294]
	lactoylglutathione lyase (ec 4.4.1.5) (methylglyoxalase) (aldoketomutase) (glyoxalase i) (glx i) (ketone-aldehyde mutase) (s-d-lactoylglutathione methylglyoxal lyase). [swissprot;acc:q04760]	Ranked	194.407	193.706	1.00362
	placental thrombin inhibitor (cytoplasmic antiproteinase) (cap) (protease inhibitor 6) (pi-6). [swissprot;acc:p35237]	Measured	5078.5	5275.76	1.03884

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.