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

Results: HTML CSV LaTeX

Showing element 501 to 550 of 29840 in total

Interaction Map  : High confidence

Rank	Value Type	description	Network Comparison Type	Filtered	green	red	network_comparison
32	Ranked	guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899]	Subtracted	1	336.074	267.142	68.932
		importin 9. [refseq;acc:nm_018085]	Divided	0	8691.76	13292.2	1.52929
		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	243.673	187.462	1.29985
		syntaxin 10 (syn10). [swissprot;acc:o60499]	Subtracted	0	19014.6	13884.4	5130.2
	Squared	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	Divided	1	25146.6	9924.76	2.53372
		pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	Subtracted		192141	106226	85915
		phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086]	Divided	0	4.57302	76.8994	16.8159
		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]	Subtracted		27221.2	19892.6	7328.6
	Rooted	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]	Divided	1	43.1914	26.0288	1.65937
		gbp protein isoform a. [refseq;acc:nm_017870]	Subtracted		42.4773	23.9771	18.5002
		homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]		0	9.43398	0	9.43398
		ubiquitin protein ligase. [refseq;acc:nm_130466]	Divided		11.258	24.0391	2.13529
33	Measured	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152]		1	896.972	1835.3	2.04611
		lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893]		0	39.8063	12.6208	3.15402
		melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	Subtracted	1	18263	23693.7	5430.7
		protein cgi-147. [swissprot;acc:q9y3e5]		0	9192.38	8396.12	796.26
	Ranked	guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898]		1	336.073	267.144	68.929
		nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [swissprot;acc:q99733]	Divided	0	8691.76	13292.2	1.52929
		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	242.742	188.688	1.28647
		similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]	Subtracted	0	20387	15264	5123
	Squared	ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9]			36822.7	29812	7010.7
		beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]	Divided		4.57302	76.8994	16.8159
		pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	Subtracted	1	192141	106226	85915
		spermatogenesis associated 6. [refseq;acc:nm_019073]	Divided		25146.6	9924.76	2.53372
	Rooted	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]		0	25.7294	12.3693	2.0801
		nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]	Subtracted		70.9983	61.6393	9.359
		protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690]		1	43.561	25.6987	17.8623
		protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	Divided		43.1914	26.0288	1.65937
34	Measured	acrc protein; putative nuclear protein. [refseq;acc:nm_052957]	Subtracted	0	3340.03	4131.06	791.03
		glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]	Divided		47	143	3.04255
		guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992]		1	907.546	1836.71	2.02382
		melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	Subtracted		18263	23693.7	5430.7
	Ranked	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]		0	6812	11543	4731
		guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754]		1	336.073	267.144	68.929
		microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268]	Divided	0	17173.8	11284	1.52196
		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	242.453	189.07	1.28235
	Squared	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]			25146.6	9924.76	2.53372
		coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606]	Subtracted	0	72701	79383.4	6682.4
		lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893]	Divided		0.697197	0.0435834	15.9968
		pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	Subtracted	1	192141	106226	85915
	Rooted	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]			122.878	140.508	17.63
		guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992]	Divided		24.3678	40.2812	1.65305
		phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086]		0	11.7898	23.8747	2.02503
		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]	Subtracted		12.49	3.16228	9.32772
35	Measured	adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236]	Divided		1377	459.5	2.99674
		filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	Subtracted		898	1603	705
		guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148]	Divided	1	907.564	1836.71	2.02378
		melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]	Subtracted		18263	23693.7	5430.7
	Ranked	guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775]			335.359	267.636	67.723
		importin 9. [refseq;acc:nm_018085]		0	8691.76	13292.2	4600.44

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.