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

Results: HTML CSV LaTeX

Showing element 2658 to 2707 of 6456 in total

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

Rank	description	Hugo	Network Comparison Type	red	green	network_comparison
1329	dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]	no value	Divided	218.509	213.648	1.02275
1330	calcipressin 1 (down syndrome critical region protein 1) (myocyte- enriched calcineurin interacting protein 1) (mcip1) (adapt78). [swissprot;acc:p53805]	RCAN1		218.508
	sal-like protein 2 (zinc finger protein sall2) (hsal2). [swissprot;acc:q9y467]	SALL2	Subtracted	218.471	213.876	4.595
1331	arginine-glutamic acid dipeptide (re) repeats; atrophin 1-like; arginine glutamic acid dipeptide re repeats. [refseq;acc:nm_012102]	RERE		218.47	213.875
	calcipressin 3 (down syndrome candidate region 1-like protein 2) (myocyte-enriched calcineurin interacting protein 3) (mcip3). [swissprot;acc:q9uka8]	RCAN3	Divided	218.509	213.649	1.02275
1332	atrophin-1 (dentatorubral-pallidoluysian atrophy protein). [swissprot;acc:p54259]	ATN1	Subtracted	218.471	213.876	4.595
	cytochrome oxidase biogenesis protein oxa1, mitochondrial precursor (oxa1-like protein) (oxa1hs). [swissprot;acc:q15070]	OXA1L	Divided	220.681	215.78	1.02271
1333	60s ribosomal protein l34, mitochondrial precursor (l34mt). [swissprot;acc:q9bq48]	MRPL34
	dead (asp-glu-ala-asp) box polypeptide 47; hqp0256 protein. [refseq;acc:nm_016355]	no value	Subtracted	218.47	213.875	4.595
1334	jm4 protein. [refseq;acc:nm_007213]	PRAF2	Divided	199.643	204.163	1.02264
	sal-like protein 1 (zinc finger protein sall1) (spalt-like transcription factor 1) (hsal1). [swissprot;acc:q9nsc2]	SALL1	Subtracted	218.47	213.875	4.595
1335	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]	ARL6IP5	Divided	199.771	204.287	1.02261
	sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4]	SALL4	Subtracted	218.471	213.876	4.595
1336	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]	BCKDHB		218.47	213.875
	n-acetylgalactosamine kinase (ec 2.7.1.-) (galnac kinase) (galactokinase 2). [swissprot;acc:q01415]	GALK2	Divided	215.162	210.412	1.02257
1337	ccr4-not transcription complex, subunit 4; not4 (negative regulator of transcription 4, yeast) homolog; ccr4-not transcription complex, subunit. [refseq;acc:nm_013316]	CNOT4	Subtracted	218.47	213.875	4.595
	galactose-1-phosphate uridylyltransferase (ec 2.7.7.12) (gal-1-p uridylyltransferase) (udp-glucose--hexose-1-phosphate uridylyltransferase). [swissprot;acc:p07902]	no value	Divided	215.162	210.412	1.02257
1338	phosphatidylinositol-binding clathrin assembly protein (clathrin assembly lymphoid myeloid leukemia protein). [swissprot;acc:q13492]	PICALM	Subtracted	218.47	213.875	4.595
	udp-glucose 4-epimerase (ec 5.1.3.2) (galactowaldenase) (udp- galactose 4-epimerase). [swissprot;acc:q14376]	GALE	Divided	215.162	210.412	1.02257
1339	clathrin coat assembly protein ap180 (clathrin coat associated protein ap180) (91 kda synaptosomal-associated protein). [swissprot;acc:o60641]	SNAP91	Subtracted	218.471	213.876	4.595
	epididymal secretory protein e1 precursor (niemann-pick disease type c2 protein) (epi-1) (he1) (epididymal secretory protein 14.6) (esp14.6). [swissprot;acc:q15668]	NPC2	Divided	205.204	200.71	1.02239
1340	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]	SUV39H2		226.433	231.491	1.02234
	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

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.