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.

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

Results: HTML CSV LaTeX

Showing element 1325 to 1374 of 3228 in total

Network Comparison Type  : Divided
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1

Rank	network_comparison	description	red	green
1325	1.08047	serine/threonine protein phosphatase 2b catalytic subunit, alpha isoform (ec 3.1.3.16) (calmodulin-dependent calcineurin a subunit, alpha isoform) (cam-prp catalytic subunit). [swissprot;acc:q08209]	5656.79	6112.02
1326		mitochondrial gtp binding protein isoform v. [refseq;acc:nm_032620]	6222.8	6723.54
1327	1.08045	p protein (melanocyte-specific transporter protein). [swissprot;acc:q04671]	5656.8	6111.9
1328	1.08044	serine/threonine protein phosphatase 2b catalytic subunit, beta isoform (ec 3.1.3.16) (calmodulin-dependent calcineurin a subunit, beta isoform) (cam-prp catalytic subunit). [swissprot;acc:p16299]	5656.81	6111.84
1329	1.08043	serine/threonine protein phosphatase 2b catalytic subunit, gamma isoform (ec 3.1.3.16) (calmodulin-dependent calcineurin a subunit, gamma isoform) (calcineurin, testis-specific catalytic subunit) (cam-prp catalytic subunit). [swissprot;acc:p48454]	5656.82	6111.8
1330	1.08041	isoleucyl-trna synthetase, cytoplasmic (ec 6.1.1.5) (isoleucine--trna ligase) (ilers) (irs). [swissprot;acc:p41252]	5779.83	6244.56
1331	1.08034	transaldolase (ec 2.2.1.2). [swissprot;acc:p37837]	5799.29	6265.2
1332	1.08033	my016 protein. [sptrembl;acc:q9h3k6]	4775.25	5158.86
1333	1.0802	abl-interactor 2; abl-interacting protein 1 (sh3-containing protein); abl binding protein 3; arg protein tyrosine kinase-binding protein; abl-interactor protein 2b; similar to spectrin sh3 domain binding protein 1. [refseq;acc:nm_005759]	5803.95	6269.44
1334	1.08018	spectrin sh3 domain binding protein 1; eps8 binding protein; interactor protein ablbp4; abl-interactor protein 1 long; nap1 binding protein. [refseq;acc:nm_005470]	5804.75	6270.15
1335	1.08014	coatomer beta subunit (beta-coat protein) (beta-cop). [swissprot;acc:p53618]	10430.3	9656.4
1336		g1 to s phase transition protein 1 homolog (gtp-binding protein gst1-hs). [swissprot;acc:p15170]	6140.18	6632.24
1337	1.0799	gtp cyclohydrolase i (ec 3.5.4.16) (gtp-ch-i). [swissprot;acc:p30793]	4935.58	5329.93
1338	1.07978	megf6 (fragment). [sptrembl;acc:o75095]	5980.41	6457.51
1339	1.07964	6-phosphogluconate dehydrogenase, decarboxylating (ec 1.1.1.44). [swissprot;acc:p52209]	5988.06	6464.94
1340	1.07935	proteasome subunit beta type 4 precursor (ec 3.4.25.1) (proteasome beta chain) (macropain beta chain) (multicatalytic endopeptidase complex beta chain) (proteasome chain 3) (hsn3) (hsbpros26). [swissprot;acc:p28070]	5979.07	6453.53
1341	1.07928	alpha-actinin 2 (alpha actinin skeletal muscle isoform 2) (f-actin cross linking protein). [swissprot;acc:p35609]	5887.82	6354.58
1342	1.07926	dual-specificity tyrosine-phosphorylation regulated kinase 1b (ec 2.7.1.-) (mirk protein kinase). [swissprot;acc:q9y463]	5887.86	6354.51
1343	1.07925	dual-specificity tyrosine-phosphorylation regulated kinase 1a (ec 2.7.1.-) (protein kinase minibrain homolog) (mnbh) (hp86) (dual specificity yak1-related kinase). [swissprot;acc:q13627]		6354.5
1344		elongation protein 4 homolog; pax6 neighbor gene; chromosome 11 open reading frame 19. [refseq;acc:nm_019040]
1345		alpha-actinin 1 (alpha-actinin cytoskeletal isoform) (non-muscle alpha-actinin 1) (f-actin cross linking protein). [swissprot;acc:p12814]	5887.88	6354.47
1346	1.07924	alpha-actinin 4 (non-muscle alpha-actinin 4) (f-actin cross linking protein). [swissprot;acc:o43707]	5887.89	6354.45
1347	1.07921	presenilins associated rhomboid-like protein. [refseq;acc:nm_018622]	6153.36	6640.77
1348		gamma-butyrobetaine,2-oxoglutarate dioxygenase (ec 1.14.11.1) (gamma-butyrobetaine hydroxylase) (gamma-bbh). [swissprot;acc:o75936]
1349		potential phospholipid-transporting atpase ih (ec 3.6.3.1) (atpase class i type 11a) (atpase is). [swissprot;acc:p98196]
1350	1.0791	tetratricopeptide repeat protein 4 (my044 protein). [swissprot;acc:o95801]	6783.78	7320.39
1351	1.07906	dual specificity mitogen-activated protein kinase kinase 6 (ec 2.7.1.-) (map kinase kinase 6) (mapkk 6) (mapk/erk kinase 6) (sapkk3). [swissprot;acc:p52564]	6105.23	6587.88
1352	1.07902	dual specificity mitogen-activated protein kinase kinase 3 (ec 2.7.1.-) (map kinase kinase 3) (mapkk 3) (mapk/erk kinase 3). [swissprot;acc:p46734]	6104.11	6586.48
1353	1.07896	cyclin c. [swissprot;acc:p24863]	6200.93	6690.57
1354	1.07893	actin, cytoplasmic 2 (gamma-actin). [swissprot;acc:p02571]	6036.22	6512.64
1355	1.07889	ornithine carbamoyltransferase, mitochondrial precursor (ec 2.1.3.3) (otcase) (ornithine transcarbamylase). [swissprot;acc:p00480]	5783.9	6240.19
1356	1.07881	calcipressin 1 (down syndrome critical region protein 1) (myocyte- enriched calcineurin interacting protein 1) (mcip1) (adapt78). [swissprot;acc:p53805]	5657.71	6103.57
1357	1.0788	dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2]		6103.54
1358		zinc finger protein zic 4 (zinc finger protein of the cerebellum 4) (fragment). [swissprot;acc:q8n9l1]
1359		dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]
1360	1.07879	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]	5657.72	6103.52
1361		calcipressin 3 (down syndrome candidate region 1-like protein 2) (myocyte-enriched calcineurin interacting protein 3) (mcip3). [swissprot;acc:q9uka8]
1362	1.07872	sequestosome 1; ubiquitin-binding protein p62; phosphotyrosine independent ligand for the lck sh2 domain p62. [refseq;acc:nm_003900]	6322.75	6820.5
1363		nonspecific lipid-transfer protein, mitochondrial precursor (nsl-tp) (sterol carrier protein 2) (scp-2) (sterol carrier protein x) (scp-x) (scpx). [swissprot;acc:p22307]
1364	1.07868	protein c20orf4 (protein cgi-23) (pro0225). [swissprot;acc:q9y312]	5815.14	6272.66
1365	1.07862	gamma adducin (adducin-like protein 70). [swissprot;acc:q9uey8]	5799.14	6255.04
1366	1.07858	megf11 protein. [refseq;acc:nm_032445]	5793.55	6248.79
1367		megf10 protein. [refseq;acc:nm_032446]	5793.47	6248.71
1368		beta adducin (erythrocyte adducin beta subunit). [swissprot;acc:p35612]	5793.29	6248.51
1369	1.07853	alpha adducin (erythrocyte adducin alpha subunit). [swissprot;acc:p35611]	5786.71	6241.16
1370	1.07847	t-complex associated-testis-expressed 1-like (protein 91/23). [swissprot;acc:p51808]	10231.8	9487.34
1371		double-strand break repair protein mre11a (mre11 homolog 1). [swissprot;acc:p49959]
1372	1.07835	lin-7 homolog a; vertebrate lin7 homolog 1; tax interaction protein 33; mammalian lin-7 1. [refseq;acc:nm_004664]	5743.45	6193.45
1373	1.07833	mitogen-activated protein kinase 3 (ec 2.7.1.37) (extracellular signal-regulated kinase 1) (erk-1) (insulin-stimulated map2 kinase) (map kinase 1) (mapk 1) (p44-erk1) (ert2) (p44-mapk) (microtubule- associated protein-2 kinase). [swissprot;acc:p27361]	6079.85	6556.07
1374	1.07829	ribosomal protein s6 kinase alpha 3 (ec 2.7.1.37) (s6k-alpha 3) (90 kda ribosomal protein s6 kinase 3) (p90-rsk 3) (ribosomal s6 kinase 2) (rsk-2) (pp90rsk2) (insulin-stimulated protein kinase 1) (ispk-1). [swissprot;acc:p51812]	6079.45	6555.4

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.