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 2675 to 2724 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
1338	GALE	udp-glucose 4-epimerase (ec 5.1.3.2) (galactowaldenase) (udp- galactose 4-epimerase). [swissprot;acc:q14376]	Divided	215.162	210.412	1.02257
	PICALM	phosphatidylinositol-binding clathrin assembly protein (clathrin assembly lymphoid myeloid leukemia protein). [swissprot;acc:q13492]	Subtracted	218.47	213.875	4.595
1339	NPC2	epididymal secretory protein e1 precursor (niemann-pick disease type c2 protein) (epi-1) (he1) (epididymal secretory protein 14.6) (esp14.6). [swissprot;acc:q15668]	Divided	205.204	200.71	1.02239
	SNAP91	clathrin coat assembly protein ap180 (clathrin coat associated protein ap180) (91 kda synaptosomal-associated protein). [swissprot;acc:o60641]	Subtracted	218.471	213.876	4.595
1340	RC3H2	membrane-associated nucleic acid binding protein. [refseq;acc:nm_018835]		218.47	213.875
	SUV39H2	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]	Divided	226.433	231.491	1.02234
1341	EIF2S1	eukaryotic translation initiation factor 2 subunit 1 (eukaryotic translation initiation factor 2 alpha subunit) (eif-2-alpha) (eif- 2alpha) (eif-2a). [swissprot;acc:p05198]
	PTBP1	polypyrimidine tract-binding protein 1 (ptb) (heterogeneous nuclear ribonucleoprotein i) (hnrnp i) (57 kda rna-binding protein pptb-1). [swissprot;acc:p26599]	Subtracted	218.47	213.875	4.595
1342	SALL3	sal-like protein 3 (zinc finger protein sall3) (hsall3). [swissprot;acc:q9bxa9]			213.876	4.594
	SUV39H1	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]	Divided	226.433	231.491	1.02234
1343	CDC25A	m-phase inducer phosphatase 1 (ec 3.1.3.48) (dual specificity phosphatase cdc25a). [swissprot;acc:p30304]		258.558	252.916	1.02231
	USP8	ubiquitin carboxyl-terminal hydrolase 8 (ec 3.1.2.15) (ubiquitin thiolesterase 8) (ubiquitin-specific processing protease 8) (deubiquitinating enzyme 8). [swissprot;acc:p40818]	Subtracted	218.47	213.876	4.594
1344	EXO1	exonuclease 1 isoform b; rad2 nuclease family member, homolog of s. cerevisiae exonuclease 1. [refseq;acc:nm_006027]	Divided	216.772	221.594	1.02224
	ROD1	rod1 regulator of differentiation 1; fission yeast differentiation regulator; regulator of differentiation (in s. pombi) 1; regulator of differentiation (in s. pombe) 1. [refseq;acc:nm_005156]	Subtracted	218.47	213.876	4.594
1345	FANCL	phd finger protein 9. [refseq;acc:nm_018062]	Divided	216.772	221.594	1.02224
	PTBP2	polypyrimidine tract binding protein 2; neural polypyrimidine tract binding protein; ptb-like protein. [refseq;acc:nm_021190]	Subtracted	218.47	213.876	4.594
1346	AAK1	adaptor-associated kinase 1. [refseq;acc:nm_014911]
	SOLH	small optic lobes homolog; small optic lobes, drosophila, homolog of. [refseq;acc:nm_005632]	Divided	216.772	221.594	1.02224
1347	ARHGAP21	rho-gtpase activating protein 10. [refseq;acc:nm_020824]	Subtracted	218.47	213.876	4.594
	LIAS	lipoic acid synthetase, mitochondrial (lip-syn) (lipoate synthase) (hussy-01) (fragment). [swissprot;acc:o43766]	Divided	204.961	209.517	1.02223
1348	GAS7	growth-arrest-specific protein 7 (gas-7). [swissprot;acc:o60861]	Subtracted	218.47	213.876	4.594
	ZIC1	zinc finger protein zic 1 (zinc finger protein of the cerebellum 1). [swissprot;acc:q15915]	Divided	218.569	213.832	1.02215
1349	RPS8	40s ribosomal protein s8. [swissprot;acc:p09058]	Subtracted	218.64	214.049	4.591
	ZIC3	zinc finger protein zic 3 (zinc finger protein of the cerebellum 3). [swissprot;acc:o60481]	Divided	218.572	213.841	1.02212
1350	EYA1	eyes absent homolog 1. [swissprot;acc:q99502]	Subtracted	218.463	213.872	4.591
	ZIC2	zinc finger protein zic 2 (zinc finger protein of the cerebellum 2). [swissprot;acc:o95409]	Divided	218.574	213.847	1.0221
1351	EYA4	eyes absent homolog 4. [swissprot;acc:o95677]	Subtracted	218.449	213.864	4.585
	PHB	prohibitin. [swissprot;acc:p35232]	Divided	211.513	206.941	1.02209
1352	no value	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]
	PHB	prohibitin. [swissprot;acc:p35232]	Subtracted			4.572
1353	no value	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]
	NDST2	heparin sulfate n-deacetylase/n-sulfotransferase (ec 2.8.2.-) (n- hsst) (n-heparin sulfate sulfotransferase) (glucosaminyl n- deacetylase/n-sulfotransferase). [swissprot;acc:p52849]	Divided	228.409	223.475	1.02208
1354	EYA2	eyes absent homolog 2. [swissprot;acc:o00167]	Subtracted	218.417	213.848	4.569
	NDST3	n-deacetylase/n-sulfotransferase (heparan glucosaminyl) 3. [refseq;acc:nm_004784]	Divided	228.409	223.475	1.02208
1355	LIAS	lipoic acid synthetase, mitochondrial (lip-syn) (lipoate synthase) (hussy-01) (fragment). [swissprot;acc:o43766]	Subtracted	204.961	209.517	4.556
	NDST4	n-deacetylase/n-sulfotransferase 4. [refseq;acc:nm_022569]	Divided	228.409	223.475	1.02208
1356	ATF7	cyclic-amp-dependent transcription factor atf-7 (activating transcription factor 7) (transcription factor atf-a). [swissprot;acc:p17544]	Subtracted	218.667	214.118	4.549
	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]	Divided	228.409	223.475	1.02208
1357	ATF2	cyclic-amp-dependent transcription factor atf-2 (activating transcription factor 2) (camp response element binding protein cre- bp1) (hb16). [swissprot;acc:p15336]	Subtracted	218.657	214.11	4.547
	CDC27	protein cdc27hs (cell division cycle protein 27 homolog) (h-nuc). [swissprot;acc:p30260]	Divided	228.409	223.475	1.02208
1358	PGGT1B	geranylgeranyl transferase type i beta subunit (ec 2.5.1.-) (type i protein geranyl-geranyltransferase beta subunit) (ggtase-i-beta). [swissprot;acc:p53609]	Subtracted	225.039	229.573	4.534
	USF1	upstream stimulatory factor 1 (major late transcription factor 1). [swissprot;acc:p22415]	Divided	214.987	210.359	1.022
1359	FADS3	fatty acid desaturase 3; linoleoyl-coa desaturase (delta-6-desaturase)-like 3; delta-6 fatty acid desaturase. [refseq;acc:nm_021727]	Subtracted	225.039	229.573	4.534
	GSTT2B	glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712]	Divided	228.642	223.726	1.02197
1360	SMAD4	mothers against decapentaplegic homolog 4 (smad 4) (mothers against dpp homolog 4) (deletion target in pancreatic carcinoma 4) (hsmad4). [swissprot;acc:q13485]	Subtracted	225.039	229.573	4.534
	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]	Divided	223.89	228.805	1.02195
1361	FADS2	fatty acid desaturase 2; linoleoyl-coa desaturase (delta-6-desaturase)-like 2; delta-6 fatty acid desaturase. [refseq;acc:nm_004265]	Subtracted	225.039	229.573	4.534
	USF2	upstream stimulatory factor 2 (upstream transcription factor 2) (fos-interacting protein) (fip) (major late transcription factor 2). [swissprot;acc:q15853]	Divided	214.971	210.354	1.02195
1362	no value	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]	Subtracted	225.039	229.573	4.534
	PAOX	peroxisomal n1-acetyl-spermine/spermidine oxidase. [refseq;acc:nm_152911]	Divided	228.644	223.736	1.02194

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.