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

Results: HTML CSV LaTeX

Showing element 2630 to 2679 of 6456 in total

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

Rank	Network Comparison Type	Hugo	description	red	green	network_comparison
1315	Subtracted	ZIC1	zinc finger protein zic 1 (zinc finger protein of the cerebellum 1). [swissprot;acc:q15915]	218.569	213.832	4.737
1316	Divided	STAT6	signal transducer and activator of transcription 6 (il-4 stat). [swissprot;acc:p42226]	222.569	227.739	1.02323
	Subtracted	ZIC3	zinc finger protein zic 3 (zinc finger protein of the cerebellum 3). [swissprot;acc:o60481]	218.572	213.841	4.731
1317	Divided	CENPJ	centromere protein j; centrosomal p4.1-associated protein; lyst-interacting protein lip1; lag-3-associated protein. [refseq;acc:nm_018451]	206.773	202.105	1.0231
	Subtracted	ZIC2	zinc finger protein zic 2 (zinc finger protein of the cerebellum 2). [swissprot;acc:o95409]	218.574	213.847	4.727
1318	Divided	STAT5A	signal transducer and activator of transcription 5a. [swissprot;acc:p42229]	222.546	227.673	1.02304
	Subtracted	CREB5	camp response element-binding protein cre-bpa. [refseq;acc:nm_004904]	218.591	213.899	4.692
1319	Divided	GYS1	glycogen [starch] synthase, muscle (ec 2.4.1.11). [swissprot;acc:p13807]	159.75	156.153	1.02304
	Subtracted	CENPJ	centromere protein j; centrosomal p4.1-associated protein; lyst-interacting protein lip1; lag-3-associated protein. [refseq;acc:nm_018451]	206.773	202.105	4.668
1320	Divided	STAT5B	signal transducer and activator of transcription 5b. [swissprot;acc:p51692]	222.544	227.667	1.02302
	Subtracted	RAD50	rad50 homolog isoform 1. [refseq;acc:nm_005732]	199.739	204.407	4.668
1321	Divided	DIMT1L	probable dimethyladenosine transferase (ec 2.1.1.-) (s- adenosylmethionine-6-n',n'-adenosyl(rrna) dimethyltransferase) (18s rrna dimethylase). [swissprot;acc:q9unq2]	226.347	221.259	1.023
	Subtracted	CDC25C	m-phase inducer phosphatase 3 (ec 3.1.3.48) (dual specificity phosphatase cdc25c). [swissprot;acc:p30307]	259.439	254.797	4.642
1322	Divided	no value	endo-beta-n-acetylglucosaminidase. [refseq;acc:nm_022759]	159.86	156.275	1.02294
	Subtracted	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]	216.542	211.908	4.634
1323	Divided	NCK2	cytoplasmic protein nck2 (nck adaptor protein 2) (sh2/sh3 adaptor protein nck-beta) (nck-2). [swissprot;acc:o43639]	205.225	200.625	1.02293
	Subtracted	GMFG	glia maturation factor gamma (gmf-gamma). [swissprot;acc:o60234]	216.542	211.908	4.634
1324	Divided	GYS2	glycogen [starch] synthase, liver (ec 2.4.1.11). [swissprot;acc:p54840]	159.993	156.421	1.02284
	Subtracted	ASCC2	asc-1 complex subunit p100. [refseq;acc:nm_032204]	216.542	211.908	4.634
1325	Divided	WRNIP1	werner helicase interacting protein isoform 1; putative helicase ruvbl; werner helicase interacting protein. [refseq;acc:nm_020135]	217.133	212.289	1.02282
	Subtracted	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]	216.542	211.908	4.634
1326	Divided	CSMD1	dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2]	218.509	213.648	1.02275
	Subtracted	USF1	upstream stimulatory factor 1 (major late transcription factor 1). [swissprot;acc:p22415]	214.987	210.359	4.628
1327	Divided	ZIC4	zinc finger protein zic 4 (zinc finger protein of the cerebellum 4) (fragment). [swissprot;acc:q8n9l1]	218.509	213.648	1.02275
	Subtracted	EYA3	eyes absent homolog 3. [swissprot;acc:q99504]	218.537	213.91	4.627
1328	Divided	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]	218.509	213.649	1.02275
	Subtracted	USF2	upstream stimulatory factor 2 (upstream transcription factor 2) (fos-interacting protein) (fip) (major late transcription factor 2). [swissprot;acc:q15853]	214.971	210.354	4.617
1329	Divided	no value	dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]	218.509	213.648	1.02275
	Subtracted	NCK2	cytoplasmic protein nck2 (nck adaptor protein 2) (sh2/sh3 adaptor protein nck-beta) (nck-2). [swissprot;acc:o43639]	205.225	200.625	4.6
1330	Divided	RCAN1	calcipressin 1 (down syndrome critical region protein 1) (myocyte- enriched calcineurin interacting protein 1) (mcip1) (adapt78). [swissprot;acc:p53805]	218.508	213.648	1.02275
	Subtracted	SALL2	sal-like protein 2 (zinc finger protein sall2) (hsal2). [swissprot;acc:q9y467]	218.471	213.876	4.595
1331	Divided	RCAN3	calcipressin 3 (down syndrome candidate region 1-like protein 2) (myocyte-enriched calcineurin interacting protein 3) (mcip3). [swissprot;acc:q9uka8]	218.509	213.649	1.02275
	Subtracted	RERE	arginine-glutamic acid dipeptide (re) repeats; atrophin 1-like; arginine glutamic acid dipeptide re repeats. [refseq;acc:nm_012102]	218.47	213.875	4.595
1332	Divided	OXA1L	cytochrome oxidase biogenesis protein oxa1, mitochondrial precursor (oxa1-like protein) (oxa1hs). [swissprot;acc:q15070]	220.681	215.78	1.02271
	Subtracted	ATN1	atrophin-1 (dentatorubral-pallidoluysian atrophy protein). [swissprot;acc:p54259]	218.471	213.876	4.595
1333	Divided	MRPL34	60s ribosomal protein l34, mitochondrial precursor (l34mt). [swissprot;acc:q9bq48]	220.681	215.78	1.02271
	Subtracted	no value	dead (asp-glu-ala-asp) box polypeptide 47; hqp0256 protein. [refseq;acc:nm_016355]	218.47	213.875	4.595
1334	Divided	PRAF2	jm4 protein. [refseq;acc:nm_007213]	199.643	204.163	1.02264
	Subtracted	SALL1	sal-like protein 1 (zinc finger protein sall1) (spalt-like transcription factor 1) (hsal1). [swissprot;acc:q9nsc2]	218.47	213.875	4.595
1335	Divided	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]	199.771	204.287	1.02261
	Subtracted	SALL4	sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4]	218.471	213.876	4.595
1336	Divided	GALK2	n-acetylgalactosamine kinase (ec 2.7.1.-) (galnac kinase) (galactokinase 2). [swissprot;acc:q01415]	215.162	210.412	1.02257
	Subtracted	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	4.595
1337	Divided	no value	galactose-1-phosphate uridylyltransferase (ec 2.7.7.12) (gal-1-p uridylyltransferase) (udp-glucose--hexose-1-phosphate uridylyltransferase). [swissprot;acc:p07902]	215.162	210.412	1.02257
	Subtracted	CNOT4	ccr4-not transcription complex, subunit 4; not4 (negative regulator of transcription 4, yeast) homolog; ccr4-not transcription complex, subunit. [refseq;acc:nm_013316]	218.47	213.875	4.595
1338	Divided	GALE	udp-glucose 4-epimerase (ec 5.1.3.2) (galactowaldenase) (udp- galactose 4-epimerase). [swissprot;acc:q14376]	215.162	210.412	1.02257
	Subtracted	PICALM	phosphatidylinositol-binding clathrin assembly protein (clathrin assembly lymphoid myeloid leukemia protein). [swissprot;acc:q13492]	218.47	213.875	4.595
1339	Divided	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]	205.204	200.71	1.02239
	Subtracted	SNAP91	clathrin coat assembly protein ap180 (clathrin coat associated protein ap180) (91 kda synaptosomal-associated protein). [swissprot;acc:o60641]	218.471	213.876	4.595
1340	Divided	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]	226.433	231.491	1.02234

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.