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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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

Results: HTML CSV LaTeX

Showing element 501 to 550 of 29840 in total

Interaction Map  : High confidence

Rank	Value Type	Network Comparison Type	green	description	network_comparison	red	Filtered
32	Ranked	Divided	243.673	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]	1.29985	187.462	1
			8691.76	importin 9. [refseq;acc:nm_018085]	1.52929	13292.2	0
		Subtracted	336.074	guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899]	68.932	267.142	1
			19014.6	syntaxin 10 (syn10). [swissprot;acc:o60499]	5130.2	13884.4	0
	Squared	Divided	4.57302	phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086]	16.8159	76.8994
			25146.6	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	2.53372	9924.76	1
		Subtracted	27221.2	sh3-containing grb2-like protein 1 (sh3 domain protein 2b) (extra eleven-nineteen leukemia fusion gene) (een) (een fusion partner of mll). [swissprot;acc:q99961]	7328.6	19892.6	0
			192141	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	85915	106226	1
	Rooted	Divided	11.258	ubiquitin protein ligase. [refseq;acc:nm_130466]	2.13529	24.0391	0
			43.1914	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]	1.65937	26.0288	1
		Subtracted	9.43398	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	9.43398	0	0
			42.4773	gbp protein isoform a. [refseq;acc:nm_017870]	18.5002	23.9771	1
33	Measured	Divided	39.8063	lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893]	3.15402	12.6208	0
			896.972	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152]	2.04611	1835.3	1
		Subtracted	9192.38	protein cgi-147. [swissprot;acc:q9y3e5]	796.26	8396.12	0
			18263	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	5430.7	23693.7	1
	Ranked	Divided	242.742	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]	1.28647	188.688
			8691.76	nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [swissprot;acc:q99733]	1.52929	13292.2	0
		Subtracted	336.073	guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898]	68.929	267.144	1
			20387	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]	5123	15264	0
	Squared	Divided	4.57302	beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]	16.8159	76.8994
			25146.6	spermatogenesis associated 6. [refseq;acc:nm_019073]	2.53372	9924.76	1
		Subtracted	36822.7	ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9]	7010.7	29812	0
			192141	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	85915	106226	1
	Rooted	Divided	25.7294	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]	2.0801	12.3693	0
			43.1914	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	1.65937	26.0288	1
		Subtracted	43.561	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690]	17.8623	25.6987
			70.9983	nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]	9.359	61.6393	0
34	Measured	Divided	47	glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]	3.04255	143
			907.546	guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992]	2.02382	1836.71	1
		Subtracted	3340.03	acrc protein; putative nuclear protein. [refseq;acc:nm_052957]	791.03	4131.06	0
			18263	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	5430.7	23693.7	1
	Ranked	Divided	242.453	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]	1.28235	189.07
			17173.8	microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268]	1.52196	11284	0
		Subtracted	336.073	guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754]	68.929	267.144	1
			6812	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]	4731	11543	0
	Squared	Divided	0.697197	lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893]	15.9968	0.0435834
			25146.6	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]	2.53372	9924.76	1
		Subtracted	72701	coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606]	6682.4	79383.4	0
			192141	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	85915	106226	1
	Rooted	Divided	11.7898	phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086]	2.02503	23.8747	0
			24.3678	guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992]	1.65305	40.2812	1
		Subtracted	12.49	succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521]	9.32772	3.16228	0
			122.878	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	17.63	140.508	1
35	Measured	Divided	907.564	guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148]	2.02378	1836.71
			1377	adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236]	2.99674	459.5	0
		Subtracted	898	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	705	1603
			18263	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]	5430.7	23693.7	1
	Ranked	Divided	204.309	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]	1.27519	260.532
			4871.6	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	1.5182	3208.8	0

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.