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

Results: HTML CSV LaTeX

Showing element 2701 to 2750 of 16578 in total

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

Rank	description	Hugo	Interaction Map	red	green	network_comparison
1351	nucleobindin 2 precursor (dna-binding protein nefa). [swissprot;acc:p80303]	NUCB2	Low confidence	211.431	216.104	1.0221
	prohibitin. [swissprot;acc:p35232]	PHB	High confidence	211.513	206.941	1.02209
1352	carboxypeptidase b precursor (ec 3.4.17.2) (pancreas-specific protein) (pasp). [swissprot;acc:p15086]	CPB1	Low confidence	187.651	183.595
	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]	no value	High confidence	211.513	206.941
1353	heparin sulfate n-deacetylase/n-sulfotransferase (ec 2.8.2.-) (n- hsst) (n-heparin sulfate sulfotransferase) (glucosaminyl n- deacetylase/n-sulfotransferase). [swissprot;acc:p52849]	NDST2		228.409	223.475	1.02208
	tyrosine-protein kinase frk (ec 2.7.1.112) (nuclear tyrosine protein kinase rak). [swissprot;acc:p42685]	FRK	Low confidence	201.009	196.664	1.02209
1354	n-deacetylase/n-sulfotransferase (heparan glucosaminyl) 3. [refseq;acc:nm_004784]	NDST3	High confidence	228.409	223.475	1.02208
	ubiquilin 1 isoform 1. [refseq;acc:nm_013438]	UBQLN1	Low confidence	206.622	202.158
1355	n-deacetylase/n-sulfotransferase 4. [refseq;acc:nm_022569]	NDST4	High confidence	228.409	223.475
	ras gtpase-activating protein 3 (gap1(ip4bp)) (ins p4-binding protein). [swissprot;acc:q14644]	RASA3	Low confidence	202.643	198.269	1.02206
1356	ca2+-promoted ras inactivator; gtpase activating protein-like; calcium-promoted ras inactivator. [refseq;acc:nm_006989]	no value
	heparan sulfate n-deacetylase/n-sulfotransferase (ec 2.8.2.8) (n-hsst) (hsnst) ([heparan sulfate]-glucosamine n-sulfotransferase) (n-heparan sulfate sulfotransferase) (glucosaminyl n-deacetylase/n- sulfotransferase). [swissprot;acc:p52848]	NDST1	High confidence	228.409	223.475	1.02208
1357	protein cdc27hs (cell division cycle protein 27 homolog) (h-nuc). [swissprot;acc:p30260]	CDC27
	ras gtpase-activating protein 2 (gap1m). [swissprot;acc:q15283]	RASA2	Low confidence	202.643	198.269	1.02206
1358	rasgap-activating-like protein 1. [swissprot;acc:o95294]	RASAL1
	upstream stimulatory factor 1 (major late transcription factor 1). [swissprot;acc:p22415]	USF1	High confidence	214.987	210.359	1.022
1359	glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712]	GSTT2B		228.642	223.726	1.02197
	rasgap-activating-like protein 2. [swissprot;acc:o43374]	RASA4	Low confidence	202.643	198.269	1.02206
1360	peptidyl-prolyl cis-trans isomerase e (ec 5.2.1.8) (ppiase e) (rotamase e) (cyclophilin e) (cyclophilin 33). [swissprot;acc:q9unp9]	PPIE		201.201	196.865	1.02203
	tgf-beta receptor type i precursor (ec 2.7.1.37) (tgfr-1) (tgf-beta type i receptor) (serine/threonine-protein kinase receptor r4) (skr4) (activin receptor-like kinase 5) (alk-5). [swissprot;acc:p36897]	TGFBR1	High confidence	223.89	228.805	1.02195
1361	arginine/serine-rich splicing factor 10 (transformer-2-beta) (htra2- beta) (transformer 2 protein homolog) (silica-induced protein 41) (ra301). [swissprot;acc:q15815]	SFRS10	Low confidence	203.394	199.014	1.02201
	upstream stimulatory factor 2 (upstream transcription factor 2) (fos-interacting protein) (fip) (major late transcription factor 2). [swissprot;acc:q15853]	USF2	High confidence	214.971	210.354	1.02195
1362	calcipressin 1 (down syndrome critical region protein 1) (myocyte- enriched calcineurin interacting protein 1) (mcip1) (adapt78). [swissprot;acc:p53805]	RCAN1	Low confidence	203.714	199.329	1.022
	peroxisomal n1-acetyl-spermine/spermidine oxidase. [refseq;acc:nm_152911]	PAOX	High confidence	228.644	223.736	1.02194
1363	camp response element-binding protein cre-bpa. [refseq;acc:nm_004904]	CREB5		218.591	213.899
	junctional adhesion molecule 1 precursor (jam) (platelet adhesion molecule 1) (pam-1) (platelet f11 receptor). [swissprot;acc:q9y624]	F11R	Low confidence	200.065	195.758	1.022
1364	leishmanolysin-like (metallopeptidase m8 family); leishmanolysin-2. [refseq;acc:nm_033029]	LMLN		208.235	203.754	1.02199
	serine/threonine-protein kinase receptor r2 precursor (ec 2.7.1.37) (skr2) (activin receptor-like kinase 4) (alk-4) (actr-ib). [swissprot;acc:p36896]	ACVR1B	High confidence	223.885	228.797	1.02194
1365	atpase inhibitor, mitochondrial precursor. [swissprot;acc:q9uii2]	ATPIF1		228.644	223.736
	cytochrome c oxidase assembly protein cox11, mitochondrial precursor. [swissprot;acc:q9y6n1]	COX11	Low confidence	198.57	194.297	1.02199
1366	activin a receptor, type ic; activin receptor-like kinase 7. [refseq;acc:nm_145259]	ACVR1C	High confidence	223.884	228.795	1.02194
	peptidyl-prolyl cis-trans isomerase a (ec 5.2.1.8) (ppiase) (rotamase) (cyclophilin a) (cyclosporin a-binding protein). [swissprot;acc:p05092]	no value	Low confidence	201.227	196.897	1.02199
1367	neuronal calcium sensor 1 (ncs-1) (frequenin homolog) (frequenin-like protein) (frequenin-like ubiquitous protein). [swissprot;acc:p36610]	FREQ	High confidence	223.887	228.799	1.02194
	signal recognition particle 19 kda protein (srp19). [swissprot;acc:p09132]	SRP19	Low confidence	208.235	203.754	1.02199
1368	polyamine oxidase isoform 1; polyamine oxidase; flavin-containing spermine oxidase; putative cyclin g1 interacting protein; flavin containing amine oxidase. [refseq;acc:nm_019025]	SMOX	High confidence	228.644	223.736	1.02194
	retinoic acid-regulated nuclear matrix-associated protein. [refseq;acc:nm_016448]	DTL	Low confidence	208.235	203.754	1.02199
1369	cytochrome c-type heme lyase (ec 4.4.1.17) (cchl) (holocytochrome c- type synthase). [swissprot;acc:p53701]	HCCS	High confidence	228.644	223.736	1.02194
	enos interacting protein; cgi-25 protein. [refseq;acc:nm_015953]	NOSIP	Low confidence	208.235	203.754	1.02199
1370	cytoplasmic protein nck1 (nck adaptor protein 1) (sh2/sh3 adaptor protein nck-alpha). [swissprot;acc:p16333]	NCK1	High confidence	205.185	200.784	1.02192
	dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2]	CSMD1	Low confidence	203.724	199.342	1.02198
1371	glutathione s-transferase theta 1 (ec 2.5.1.18) (gst class-theta) (glutathione transferase t1-1). [swissprot;acc:p30711]	GSTT1	High confidence	228.646	223.744	1.02191
	zinc finger protein zic 4 (zinc finger protein of the cerebellum 4) (fragment). [swissprot;acc:q8n9l1]	ZIC4	Low confidence	203.724	199.342	1.02198
1372	dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]	no value
	suppressor of cytokine signaling 1 (socs-1) (jak-binding protein) (jab) (stat induced stat inhibitor 1) (ssi-1) (tec-interacting protein 3) (tip-3). [swissprot;acc:o15524]	SOCS1	High confidence	216.542	211.908	1.02187
1373	3'-5' rna exonuclease; polynucleotide phosphorylase-like. [refseq;acc:nm_033109]	PNPT1	Low confidence	206.13	201.696	1.02198
	glia maturation factor gamma (gmf-gamma). [swissprot;acc:o60234]	GMFG	High confidence	216.542	211.908	1.02187
1374	asc-1 complex subunit p100. [refseq;acc:nm_032204]	ASCC2
	small optic lobes homolog; small optic lobes, drosophila, homolog of. [refseq;acc:nm_005632]	SOLH	Low confidence	206.13	201.696	1.02198
1375	fk506-binding protein 1a (ec 5.2.1.8) (peptidyl-prolyl cis-trans isomerase) (ppiase) (rotamase) (12 kda fkbp) (fkbp-12) (immunophilin fkbp12). [swissprot;acc:p20071]	FKBP1A	High confidence	216.542	211.908	1.02187
	seryl-trna synthetase (ec 6.1.1.11) (serine--trna ligase) (serrs). [swissprot;acc:p49591]	SARS	Low confidence	200.54	196.226	1.02198

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.