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 2651 to 2700 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
1326	CSMD1	dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2]	Divided	218.509	213.648	1.02275
	USF1	upstream stimulatory factor 1 (major late transcription factor 1). [swissprot;acc:p22415]	Subtracted	214.987	210.359	4.628
1327	EYA3	eyes absent homolog 3. [swissprot;acc:q99504]		218.537	213.91	4.627
	ZIC4	zinc finger protein zic 4 (zinc finger protein of the cerebellum 4) (fragment). [swissprot;acc:q8n9l1]	Divided	218.509	213.648	1.02275
1328	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]			213.649
	USF2	upstream stimulatory factor 2 (upstream transcription factor 2) (fos-interacting protein) (fip) (major late transcription factor 2). [swissprot;acc:q15853]	Subtracted	214.971	210.354	4.617
1329	no value	dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]	Divided	218.509	213.648	1.02275
	NCK2	cytoplasmic protein nck2 (nck adaptor protein 2) (sh2/sh3 adaptor protein nck-beta) (nck-2). [swissprot;acc:o43639]	Subtracted	205.225	200.625	4.6
1330	RCAN1	calcipressin 1 (down syndrome critical region protein 1) (myocyte- enriched calcineurin interacting protein 1) (mcip1) (adapt78). [swissprot;acc:p53805]	Divided	218.508	213.648	1.02275
	SALL2	sal-like protein 2 (zinc finger protein sall2) (hsal2). [swissprot;acc:q9y467]	Subtracted	218.471	213.876	4.595
1331	RCAN3	calcipressin 3 (down syndrome candidate region 1-like protein 2) (myocyte-enriched calcineurin interacting protein 3) (mcip3). [swissprot;acc:q9uka8]	Divided	218.509	213.649	1.02275
	RERE	arginine-glutamic acid dipeptide (re) repeats; atrophin 1-like; arginine glutamic acid dipeptide re repeats. [refseq;acc:nm_012102]	Subtracted	218.47	213.875	4.595
1332	ATN1	atrophin-1 (dentatorubral-pallidoluysian atrophy protein). [swissprot;acc:p54259]		218.471	213.876
	OXA1L	cytochrome oxidase biogenesis protein oxa1, mitochondrial precursor (oxa1-like protein) (oxa1hs). [swissprot;acc:q15070]	Divided	220.681	215.78	1.02271
1333	no value	dead (asp-glu-ala-asp) box polypeptide 47; hqp0256 protein. [refseq;acc:nm_016355]	Subtracted	218.47	213.875	4.595
	MRPL34	60s ribosomal protein l34, mitochondrial precursor (l34mt). [swissprot;acc:q9bq48]	Divided	220.681	215.78	1.02271
1334	PRAF2	jm4 protein. [refseq;acc:nm_007213]		199.643	204.163	1.02264
	SALL1	sal-like protein 1 (zinc finger protein sall1) (spalt-like transcription factor 1) (hsal1). [swissprot;acc:q9nsc2]	Subtracted	218.47	213.875	4.595
1335	ARL6IP5	cytoskeleton related vitamin a responsive protein; glutamate transporter eeac1-associated protein; dermal papilla derived protein 11; putative mapk activating protein pm27. [refseq;acc:nm_006407]	Divided	199.771	204.287	1.02261
	SALL4	sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4]	Subtracted	218.471	213.876	4.595
1336	BCKDHB	2-oxoisovalerate dehydrogenase beta subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component beta chain) (bckdh e1-beta). [swissprot;acc:p21953]		218.47	213.875
	GALK2	n-acetylgalactosamine kinase (ec 2.7.1.-) (galnac kinase) (galactokinase 2). [swissprot;acc:q01415]	Divided	215.162	210.412	1.02257
1337	no value	galactose-1-phosphate uridylyltransferase (ec 2.7.7.12) (gal-1-p uridylyltransferase) (udp-glucose--hexose-1-phosphate uridylyltransferase). [swissprot;acc:p07902]
	CNOT4	ccr4-not transcription complex, subunit 4; not4 (negative regulator of transcription 4, yeast) homolog; ccr4-not transcription complex, subunit. [refseq;acc:nm_013316]	Subtracted	218.47	213.875	4.595
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

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.