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

Results: HTML CSV LaTeX

Showing element 2708 to 2757 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
1354	UBQLN1	ubiquilin 1 isoform 1. [refseq;acc:nm_013438]	Low confidence	206.622	202.158	1.02208
1355	NDST4	n-deacetylase/n-sulfotransferase 4. [refseq;acc:nm_022569]	High confidence	228.409	223.475
	RASA3	ras gtpase-activating protein 3 (gap1(ip4bp)) (ins p4-binding protein). [swissprot;acc:q14644]	Low confidence	202.643	198.269	1.02206
1356	no value	ca2+-promoted ras inactivator; gtpase activating protein-like; calcium-promoted ras inactivator. [refseq;acc:nm_006989]
	NDST1	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]	High confidence	228.409	223.475	1.02208
1357	CDC27	protein cdc27hs (cell division cycle protein 27 homolog) (h-nuc). [swissprot;acc:p30260]
	RASA2	ras gtpase-activating protein 2 (gap1m). [swissprot;acc:q15283]	Low confidence	202.643	198.269	1.02206
1358	RASAL1	rasgap-activating-like protein 1. [swissprot;acc:o95294]
	USF1	upstream stimulatory factor 1 (major late transcription factor 1). [swissprot;acc:p22415]	High confidence	214.987	210.359	1.022
1359	GSTT2B	glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712]		228.642	223.726	1.02197
	RASA4	rasgap-activating-like protein 2. [swissprot;acc:o43374]	Low confidence	202.643	198.269	1.02206
1360	PPIE	peptidyl-prolyl cis-trans isomerase e (ec 5.2.1.8) (ppiase e) (rotamase e) (cyclophilin e) (cyclophilin 33). [swissprot;acc:q9unp9]		201.201	196.865	1.02203
	TGFBR1	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]	High confidence	223.89	228.805	1.02195
1361	SFRS10	arginine/serine-rich splicing factor 10 (transformer-2-beta) (htra2- beta) (transformer 2 protein homolog) (silica-induced protein 41) (ra301). [swissprot;acc:q15815]	Low confidence	203.394	199.014	1.02201
	USF2	upstream stimulatory factor 2 (upstream transcription factor 2) (fos-interacting protein) (fip) (major late transcription factor 2). [swissprot;acc:q15853]	High confidence	214.971	210.354	1.02195
1362	PAOX	peroxisomal n1-acetyl-spermine/spermidine oxidase. [refseq;acc:nm_152911]		228.644	223.736	1.02194
	RCAN1	calcipressin 1 (down syndrome critical region protein 1) (myocyte- enriched calcineurin interacting protein 1) (mcip1) (adapt78). [swissprot;acc:p53805]	Low confidence	203.714	199.329	1.022
1363	CREB5	camp response element-binding protein cre-bpa. [refseq;acc:nm_004904]	High confidence	218.591	213.899	1.02194
	F11R	junctional adhesion molecule 1 precursor (jam) (platelet adhesion molecule 1) (pam-1) (platelet f11 receptor). [swissprot;acc:q9y624]	Low confidence	200.065	195.758	1.022
1364	ACVR1B	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]	High confidence	223.885	228.797	1.02194
	LMLN	leishmanolysin-like (metallopeptidase m8 family); leishmanolysin-2. [refseq;acc:nm_033029]	Low confidence	208.235	203.754	1.02199
1365	ATPIF1	atpase inhibitor, mitochondrial precursor. [swissprot;acc:q9uii2]	High confidence	228.644	223.736	1.02194
	COX11	cytochrome c oxidase assembly protein cox11, mitochondrial precursor. [swissprot;acc:q9y6n1]	Low confidence	198.57	194.297	1.02199
1366	no value	peptidyl-prolyl cis-trans isomerase a (ec 5.2.1.8) (ppiase) (rotamase) (cyclophilin a) (cyclosporin a-binding protein). [swissprot;acc:p05092]		201.227	196.897
	ACVR1C	activin a receptor, type ic; activin receptor-like kinase 7. [refseq;acc:nm_145259]	High confidence	223.884	228.795	1.02194
1367	FREQ	neuronal calcium sensor 1 (ncs-1) (frequenin homolog) (frequenin-like protein) (frequenin-like ubiquitous protein). [swissprot;acc:p36610]		223.887	228.799
	SRP19	signal recognition particle 19 kda protein (srp19). [swissprot;acc:p09132]	Low confidence	208.235	203.754	1.02199
1368	DTL	retinoic acid-regulated nuclear matrix-associated protein. [refseq;acc:nm_016448]
	SMOX	polyamine oxidase isoform 1; polyamine oxidase; flavin-containing spermine oxidase; putative cyclin g1 interacting protein; flavin containing amine oxidase. [refseq;acc:nm_019025]	High confidence	228.644	223.736	1.02194
1369	HCCS	cytochrome c-type heme lyase (ec 4.4.1.17) (cchl) (holocytochrome c- type synthase). [swissprot;acc:p53701]
	NOSIP	enos interacting protein; cgi-25 protein. [refseq;acc:nm_015953]	Low confidence	208.235	203.754	1.02199
1370	CSMD1	dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2]		203.724	199.342	1.02198
	NCK1	cytoplasmic protein nck1 (nck adaptor protein 1) (sh2/sh3 adaptor protein nck-alpha). [swissprot;acc:p16333]	High confidence	205.185	200.784	1.02192
1371	GSTT1	glutathione s-transferase theta 1 (ec 2.5.1.18) (gst class-theta) (glutathione transferase t1-1). [swissprot;acc:p30711]		228.646	223.744	1.02191
	ZIC4	zinc finger protein zic 4 (zinc finger protein of the cerebellum 4) (fragment). [swissprot;acc:q8n9l1]	Low confidence	203.724	199.342	1.02198
1372	no value	dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]
	SOCS1	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]	High confidence	216.542	211.908	1.02187
1373	GMFG	glia maturation factor gamma (gmf-gamma). [swissprot;acc:o60234]
	PNPT1	3'-5' rna exonuclease; polynucleotide phosphorylase-like. [refseq;acc:nm_033109]	Low confidence	206.13	201.696	1.02198
1374	ASCC2	asc-1 complex subunit p100. [refseq;acc:nm_032204]	High confidence	216.542	211.908	1.02187
	SOLH	small optic lobes homolog; small optic lobes, drosophila, homolog of. [refseq;acc:nm_005632]	Low confidence	206.13	201.696	1.02198
1375	FKBP1A	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]	High confidence	216.542	211.908	1.02187
	SARS	seryl-trna synthetase (ec 6.1.1.11) (serine--trna ligase) (serrs). [swissprot;acc:p49591]	Low confidence	200.54	196.226	1.02198
1376	EYA3	eyes absent homolog 3. [swissprot;acc:q99504]	High confidence	218.537	213.91	1.02163
	RCAN2	calcipressin 2 (thyroid hormone-responsive protein zaki-4) (down syndrome candidate region 1-like 1) (myocyte-enriched calcineurin interacting protein 2) (mcip2). [swissprot;acc:q14206]	Low confidence	203.73	199.35	1.02197
1377	EYA3	eyes absent homolog 3. [swissprot;acc:q99504]		203.298	198.927
	SALL2	sal-like protein 2 (zinc finger protein sall2) (hsal2). [swissprot;acc:q9y467]	High confidence	218.471	213.876	1.02148
1378	RCAN3	calcipressin 3 (down syndrome candidate region 1-like protein 2) (myocyte-enriched calcineurin interacting protein 3) (mcip3). [swissprot;acc:q9uka8]	Low confidence	203.731	199.351	1.02197
	SALL3	sal-like protein 3 (zinc finger protein sall3) (hsall3). [swissprot;acc:q9bxa9]	High confidence	218.47	213.876	1.02148
1379	PPM1G	protein phosphatase 2c gamma isoform (ec 3.1.3.16) (pp2c-gamma) (protein phosphatase magnesium-dependent 1 gamma) (protein phosphatase 1c). [swissprot;acc:o15355]	Low confidence	202.731	198.373	1.02197

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.