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.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 2630 to 2679 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	description	Interaction Map	red	green	network_comparison
1315	signal transducer and activator of transcription 1-alpha/beta (transcription factor isgf-3 components p91/p84). [swissprot;acc:p42224]	High confidence	222.574	227.752	1.02326
1316	schwannomin interacting protein 1. [refseq;acc:nm_014575]	Low confidence	201.232	196.85	1.02226
	signal transducer and activator of transcription 6 (il-4 stat). [swissprot;acc:p42226]	High confidence	222.569	227.739	1.02323
1317	cbf1 interacting corepressor. [refseq;acc:nm_004882]	Low confidence	203.649	199.217	1.02225
	centromere protein j; centrosomal p4.1-associated protein; lyst-interacting protein lip1; lag-3-associated protein. [refseq;acc:nm_018451]	High confidence	206.773	202.105	1.0231
1318	evolutionarily conserved g-patch domain containing. [refseq;acc:nm_018025]	Low confidence	203.649	199.217	1.02225
	signal transducer and activator of transcription 5a. [swissprot;acc:p42229]	High confidence	222.546	227.673	1.02304
1319	fatty aldehyde dehydrogenase (ec 1.2.1.3) (aldehyde dehydrogenase, microsomal) (aldh class 3). [swissprot;acc:p51648]	Low confidence	208.606	213.247	1.02225
	glycogen [starch] synthase, muscle (ec 2.4.1.11). [swissprot;acc:p13807]	High confidence	159.75	156.153	1.02304
1320	mitogen-activated protein kinase 14 (ec 2.7.1.37) (mitogen-activated protein kinase p38alpha) (map kinase p38alpha) (cytokine suppressive anti-inflammatory drug binding protein) (csaid binding protein) (csbp) (max-interacting protein 2) (map kinase mxi2) (sapk2a). [swissprot;acc:q16539]	Low confidence	200.171	195.819	1.02222
	signal transducer and activator of transcription 5b. [swissprot;acc:p51692]	High confidence	222.544	227.667	1.02302
1321	c316g12.2 (novel protein similar to predicted yeast, worm and archae- bacterial proteins) (similar to und313) (s. cervisiae) (hypothetical protein). [sptrembl;acc:q9ujk0]	Low confidence	199.938	195.591	1.02222
	probable dimethyladenosine transferase (ec 2.1.1.-) (s- adenosylmethionine-6-n',n'-adenosyl(rrna) dimethyltransferase) (18s rrna dimethylase). [swissprot;acc:q9unq2]	High confidence	226.347	221.259	1.023
1322	1-acyl-sn-glycerol-3-phosphate acyltransferase beta (ec 2.3.1.51) (1- agp acyltransferase 2) (1-agpat 2) (lysophosphatidic acid acyltransferase-beta) (lpaat-beta) (1-acylglycerol-3-phosphate o- acyltransferase 2). [swissprot;acc:o15120]	Low confidence	198.322	194.014	1.0222
	endo-beta-n-acetylglucosaminidase. [refseq;acc:nm_022759]	High confidence	159.86	156.275	1.02294
1323	cytoplasmic protein nck2 (nck adaptor protein 2) (sh2/sh3 adaptor protein nck-beta) (nck-2). [swissprot;acc:o43639]		205.225	200.625	1.02293
	neuronal guanine nucleotide exchange factor. [refseq;acc:nm_019850]	Low confidence	203.926	199.498	1.0222
1324	beta-galactosidase precursor (ec 3.2.1.23) (lactase) (acid beta- galactosidase). [swissprot;acc:p16278]		203.758	199.335	1.02219
	glycogen [starch] synthase, liver (ec 2.4.1.11). [swissprot;acc:p54840]	High confidence	159.993	156.421	1.02284
1325	dnaj homolog subfamily b member 4 (heat shock 40 kda protein 1 homolog) (heat shock protein 40 homolog) (hsp40 homolog). [swissprot;acc:q9udy4]	Low confidence	201.909	197.526	1.02219
	werner helicase interacting protein isoform 1; putative helicase ruvbl; werner helicase interacting protein. [refseq;acc:nm_020135]	High confidence	217.133	212.289	1.02282
1326	dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2]		218.509	213.648	1.02275
	pre-mrna splicing factor atp-dependent rna helicase prp16 (atp- dependent rna helicase ddx38) (deah-box protein 38). [swissprot;acc:q92620]	Low confidence	202.039	197.654	1.02219
1327	dnaj homolog subfamily b member 5 (heat shock protein hsp40-3) (heat shock protein cognate 40) (hsc40) (hsp40-2). [swissprot;acc:o75953]		201.908	197.525
	zinc finger protein zic 4 (zinc finger protein of the cerebellum 4) (fragment). [swissprot;acc:q8n9l1]	High confidence	218.509	213.648	1.02275
1328	1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (ec 2.3.1.51) (1- agp acyltransferase 1) (1-agpat 1) (lysophosphatidic acid acyltransferase-alpha) (lpaat-alpha) (1-acylglycerol-3-phosphate o- acyltransferase 1) (g15 protein). [swissprot;acc:q99943]	Low confidence	198.342	194.038	1.02218
	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]	High confidence	218.509	213.649	1.02275
1329	carboxypeptidase a1 precursor (ec 3.4.17.1). [swissprot;acc:p15085]	Low confidence	187.586	183.516	1.02218
	dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]	High confidence	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]		218.508
	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	Low confidence	152.998	156.39	1.02217
1331	calcipressin 3 (down syndrome candidate region 1-like protein 2) (myocyte-enriched calcineurin interacting protein 3) (mcip3). [swissprot;acc:q9uka8]	High confidence	218.509	213.649	1.02275
	ras-related protein rab-11a (rab-11) (24kg) (yl8). [swissprot;acc:p24410]	Low confidence	203.955	199.531	1.02217
1332	alpha-2-macroglobulin receptor-associated protein precursor (alpha-2-mrap) (low density lipoprotein receptor-related protein- associated protein 1) (rap). [swissprot;acc:p30533]		203.765	199.349	1.02215
	cytochrome oxidase biogenesis protein oxa1, mitochondrial precursor (oxa1-like protein) (oxa1hs). [swissprot;acc:q15070]	High confidence	220.681	215.78	1.02271
1333	60s ribosomal protein l34, mitochondrial precursor (l34mt). [swissprot;acc:q9bq48]
	dna replication licensing factor mcm6 (p105mcm). [swissprot;acc:q14566]	Low confidence	202.379	197.993	1.02215
1334	jm4 protein. [refseq;acc:nm_007213]	High confidence	199.643	204.163	1.02264
	minichromosome maintenance protein 10 isoform 2; homolog of yeast mcm10. [refseq;acc:nm_018518]	Low confidence	202.379	197.993	1.02215
1335	cytochrome b5 reductase 1 (b5r.1). [refseq;acc:nm_016243]		200.614	196.269	1.02214
	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]	High confidence	199.771	204.287	1.02261
1336	dna-repair protein complementing xp-g cells (xeroderma pigmentosum group g complementing protein) (dna excision repair protein ercc-5). [swissprot;acc:p28715]	Low confidence	207.328	202.837	1.02214
	n-acetylgalactosamine kinase (ec 2.7.1.-) (galnac kinase) (galactokinase 2). [swissprot;acc:q01415]	High confidence	215.162	210.412	1.02257
1337	galactose-1-phosphate uridylyltransferase (ec 2.7.7.12) (gal-1-p uridylyltransferase) (udp-glucose--hexose-1-phosphate uridylyltransferase). [swissprot;acc:p07902]
	nadh-cytochrome b5 reductase (ec 1.6.2.2) (b5r). [swissprot;acc:p00387]	Low confidence	200.614	196.269	1.02214
1338	dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex, mitochondrial precursor (ec 2.3.1.12) (e2) (pdc-e2) (70 kda mitochondrial autoantigen of primary biliary cirrhosis) (pbc) (m2 antigen complex 70 kda subunit). [swissprot;acc:p10515]		204.159	199.739	1.02213
	udp-glucose 4-epimerase (ec 5.1.3.2) (galactowaldenase) (udp- galactose 4-epimerase). [swissprot;acc:q14376]	High confidence	215.162	210.412	1.02257
1339	choline/ethanolaminephosphotransferase. [refseq;acc:nm_006090]	Low confidence	187.632	183.57	1.02213
	epididymal secretory protein e1 precursor (niemann-pick disease type c2 protein) (epi-1) (he1) (epididymal secretory protein 14.6) (esp14.6). [swissprot;acc:q15668]	High confidence	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]		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
- 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.