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

Results: HTML CSV LaTeX

Showing element 2680 to 2729 of 6456 in total

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

Rank	description	Hugo	Network Comparison Type	red	green	network_comparison
1340	membrane-associated nucleic acid binding protein. [refseq;acc:nm_018835]	RC3H2	Subtracted	218.47	213.875	4.595
1341	eukaryotic translation initiation factor 2 subunit 1 (eukaryotic translation initiation factor 2 alpha subunit) (eif-2-alpha) (eif- 2alpha) (eif-2a). [swissprot;acc:p05198]	EIF2S1	Divided	226.433	231.491	1.02234
	polypyrimidine tract-binding protein 1 (ptb) (heterogeneous nuclear ribonucleoprotein i) (hnrnp i) (57 kda rna-binding protein pptb-1). [swissprot;acc:p26599]	PTBP1	Subtracted	218.47	213.875	4.595
1342	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]	SUV39H1	Divided	226.433	231.491	1.02234
	sal-like protein 3 (zinc finger protein sall3) (hsall3). [swissprot;acc:q9bxa9]	SALL3	Subtracted	218.47	213.876	4.594
1343	m-phase inducer phosphatase 1 (ec 3.1.3.48) (dual specificity phosphatase cdc25a). [swissprot;acc:p30304]	CDC25A	Divided	258.558	252.916	1.02231
	ubiquitin carboxyl-terminal hydrolase 8 (ec 3.1.2.15) (ubiquitin thiolesterase 8) (ubiquitin-specific processing protease 8) (deubiquitinating enzyme 8). [swissprot;acc:p40818]	USP8	Subtracted	218.47	213.876	4.594
1344	exonuclease 1 isoform b; rad2 nuclease family member, homolog of s. cerevisiae exonuclease 1. [refseq;acc:nm_006027]	EXO1	Divided	216.772	221.594	1.02224
	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]	ROD1	Subtracted	218.47	213.876	4.594
1345	phd finger protein 9. [refseq;acc:nm_018062]	FANCL	Divided	216.772	221.594	1.02224
	polypyrimidine tract binding protein 2; neural polypyrimidine tract binding protein; ptb-like protein. [refseq;acc:nm_021190]	PTBP2	Subtracted	218.47	213.876	4.594
1346	adaptor-associated kinase 1. [refseq;acc:nm_014911]	AAK1
	small optic lobes homolog; small optic lobes, drosophila, homolog of. [refseq;acc:nm_005632]	SOLH	Divided	216.772	221.594	1.02224
1347	lipoic acid synthetase, mitochondrial (lip-syn) (lipoate synthase) (hussy-01) (fragment). [swissprot;acc:o43766]	LIAS		204.961	209.517	1.02223
	rho-gtpase activating protein 10. [refseq;acc:nm_020824]	ARHGAP21	Subtracted	218.47	213.876	4.594
1348	growth-arrest-specific protein 7 (gas-7). [swissprot;acc:o60861]	GAS7
	zinc finger protein zic 1 (zinc finger protein of the cerebellum 1). [swissprot;acc:q15915]	ZIC1	Divided	218.569	213.832	1.02215
1349	40s ribosomal protein s8. [swissprot;acc:p09058]	RPS8	Subtracted	218.64	214.049	4.591
	zinc finger protein zic 3 (zinc finger protein of the cerebellum 3). [swissprot;acc:o60481]	ZIC3	Divided	218.572	213.841	1.02212
1350	eyes absent homolog 1. [swissprot;acc:q99502]	EYA1	Subtracted	218.463	213.872	4.591
	zinc finger protein zic 2 (zinc finger protein of the cerebellum 2). [swissprot;acc:o95409]	ZIC2	Divided	218.574	213.847	1.0221
1351	eyes absent homolog 4. [swissprot;acc:o95677]	EYA4	Subtracted	218.449	213.864	4.585
	prohibitin. [swissprot;acc:p35232]	PHB	Divided	211.513	206.941	1.02209
1352			Subtracted			4.572
	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]	no value	Divided			1.02209
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
	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]	no value	Subtracted	211.513	206.941	4.572
1354	eyes absent homolog 2. [swissprot;acc:o00167]	EYA2		218.417	213.848	4.569
	n-deacetylase/n-sulfotransferase (heparan glucosaminyl) 3. [refseq;acc:nm_004784]	NDST3	Divided	228.409	223.475	1.02208
1355	lipoic acid synthetase, mitochondrial (lip-syn) (lipoate synthase) (hussy-01) (fragment). [swissprot;acc:o43766]	LIAS	Subtracted	204.961	209.517	4.556
	n-deacetylase/n-sulfotransferase 4. [refseq;acc:nm_022569]	NDST4	Divided	228.409	223.475	1.02208
1356	cyclic-amp-dependent transcription factor atf-7 (activating transcription factor 7) (transcription factor atf-a). [swissprot;acc:p17544]	ATF7	Subtracted	218.667	214.118	4.549
	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	Divided	228.409	223.475	1.02208
1357	cyclic-amp-dependent transcription factor atf-2 (activating transcription factor 2) (camp response element binding protein cre- bp1) (hb16). [swissprot;acc:p15336]	ATF2	Subtracted	218.657	214.11	4.547
	protein cdc27hs (cell division cycle protein 27 homolog) (h-nuc). [swissprot;acc:p30260]	CDC27	Divided	228.409	223.475	1.02208
1358	geranylgeranyl transferase type i beta subunit (ec 2.5.1.-) (type i protein geranyl-geranyltransferase beta subunit) (ggtase-i-beta). [swissprot;acc:p53609]	PGGT1B	Subtracted	225.039	229.573	4.534
	upstream stimulatory factor 1 (major late transcription factor 1). [swissprot;acc:p22415]	USF1	Divided	214.987	210.359	1.022
1359	fatty acid desaturase 3; linoleoyl-coa desaturase (delta-6-desaturase)-like 3; delta-6 fatty acid desaturase. [refseq;acc:nm_021727]	FADS3	Subtracted	225.039	229.573	4.534
	glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712]	GSTT2B	Divided	228.642	223.726	1.02197
1360	mothers against decapentaplegic homolog 4 (smad 4) (mothers against dpp homolog 4) (deletion target in pancreatic carcinoma 4) (hsmad4). [swissprot;acc:q13485]	SMAD4	Subtracted	225.039	229.573	4.534
	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	Divided	223.89	228.805	1.02195
1361	fatty acid desaturase 2; linoleoyl-coa desaturase (delta-6-desaturase)-like 2; delta-6 fatty acid desaturase. [refseq;acc:nm_004265]	FADS2	Subtracted	225.039	229.573	4.534
	upstream stimulatory factor 2 (upstream transcription factor 2) (fos-interacting protein) (fip) (major late transcription factor 2). [swissprot;acc:q15853]	USF2	Divided	214.971	210.354	1.02195
1362	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]	no value	Subtracted	225.039	229.573	4.534
	peroxisomal n1-acetyl-spermine/spermidine oxidase. [refseq;acc:nm_152911]	PAOX	Divided	228.644	223.736	1.02194
1363	camp response element-binding protein cre-bpa. [refseq;acc:nm_004904]	CREB5		218.591	213.899
	nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [swissprot;acc:q9h1b4]	NXF5	Subtracted	168.989	164.46	4.529
1364	nuclear rna export factor 3 (tap-like protein 3) (tapl-3). [swissprot;acc:q9h4d5]	NXF3		168.995	164.467	4.528
	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	Divided	223.885	228.797	1.02194
1365	atpase inhibitor, mitochondrial precursor. [swissprot;acc:q9uii2]	ATPIF1		228.644	223.736

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.