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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 7460 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence

Rank	description	green	Filtered	network_comparison	red
26	dystrobrevin binding protein 1; dysbindin. [refseq;acc:nm_032122]	7533.33	0	1.60995	12128.3
	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	44	1	1.31818	58
27	mitochondrial solute carrier protein. [refseq;acc:nm_145305]
	ptd016 protein. [refseq;acc:nm_016125]	11234	0	1.60673	18050
28	cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847]	153.671	1	1.31416	201.949
	p28 ing5. [refseq;acc:nm_032329]	7562.05	0	1.60337	12124.8
29	phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086]	11625		1.57201	7395
	uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48]	243.678	1	1.29991	187.458
30	beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]	11625	0	1.57201	7395
	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007]	243.678	1	1.29991	187.457
31	leucine rich repeat (in flii) interacting protein 1. [refseq;acc:nm_004735]	5266.67	0	1.53462	8082.33
	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [swissprot;acc:q00005]	243.677	1	1.2999	187.458
32	importin 9. [refseq;acc:nm_018085]	8691.76	0	1.52929	13292.2
	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, gamma isoform (pp2a, subunit b, b-gamma isoform) (pp2a, subunit b, b55-gamma isoform) (pp2a, subunit b, pr55-gamma isoform) (pp2a, subunit b, r2-gamma isoform) (imypno1). [swissprot;acc:q9y2t4]	243.673	1	1.29985	187.462
33	nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [swissprot;acc:q99733]	8691.76	0	1.52929	13292.2
	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [swissprot;acc:p30154]	242.742	1	1.28647	188.688
34	microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268]	17173.8	0	1.52196	11284
	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, alpha isoform (pp2a, subunit a, pr65-alpha isoform) (pp2a, subunit a, r1-alpha isoform) (medium tumor antigen-associated 61 kda protein). [swissprot;acc:p30153]	242.453	1	1.28235	189.07
35	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	4871.6	0	1.5182	3208.8
	nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952]	204.309	1	1.27519	260.532
36	ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]
	guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4]	14964	0	1.4984	22422
37	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0]	2582		1.49458	3859
	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	253	1	1.27273	322
38	cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336]	10771	0	1.48976	7230
	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	253	1	1.27273	322
39	ero1-like. [refseq;acc:nm_014584]	20536	0	1.48242	13853
	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	253	1	1.27273	322
40	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]
	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	5699	0	1.48218	3845
41	60s ribosomal protein l21. [swissprot;acc:p46778]	6758.83		1.47871	9994.33
	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	253	1	1.27273	322
42	adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236]	5530.5	0	1.47509	8158
	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]	160.957	1	1.2714	204.641
43	glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712]	8356.02	0	1.4533	12143.8
	jun dimerization protein. [refseq;acc:nm_130469]	160.957	1	1.2714	204.641
44	fos-related antigen 2. [swissprot;acc:p15408]	161.046		1.2707
	serpin b12. [swissprot;acc:q96p63]	21138.6	0	1.44743	14604.2
45	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]	21113.7		1.44694	14592
	protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]	161.051	1	1.27066	204.641
46	60s ribosomal protein l37a. [swissprot;acc:p12751]	18499.2	0	1.42943	12941.7
	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	161.068	1	1.27053	204.642
47	25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]	18499.2	0	1.42943	12941.7
	gbp protein isoform a. [refseq;acc:nm_017870]	256.492	1	1.26938	325.586
48	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	83.0461		1.26868	65.4586
	nadh-ubiquinone oxidoreductase 13 kda-b subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-b) (ci-13kd-b) (complex i subunit b13). [swissprot;acc:q16718]	6909	0	1.42278	9830
49	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	105	1	1.26667	133
	brain protein 16. [refseq;acc:nm_016458]	4854.99	0	1.41927	6890.54
50	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	105	1	1.26667	133
	cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747]	13091.4	0	1.41533	9249.73

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.