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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 77072 in total

Filtered  : 0
Value Type  : Measured
Network Comparison Type  : Divided

green	red	Interaction Map	Rank	network_comparison	description
0.00001	0.00001	High confidence	494	1	histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261]
			495		histone h2a.a (h2a/a) (h2a.2). [swissprot;acc:p28001]
			496		mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932]
			497		histone h2a; h2a histone family, member r. [refseq;acc:nm_170745]
			498		translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]
			499		homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
			500		rwd domain containing 1; ptd013 protein; cgi-24 protein. [refseq;acc:nm_015952]
			501		h2a histone family, member j isoform 1. [refseq;acc:nm_018267]
			502		brca1 associated protein. [refseq;acc:nm_006768]
		Low confidence	837		gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [swissprot;acc:p36268]
			838		gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [refseq;acc:nm_080920]
			839		cobw-like protein. [refseq;acc:nm_018491]
			840		translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]
			841		gamma-glutamyltransferase. [sptrembl;acc:q14390]
			842		gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [swissprot;acc:p19440]
			843		gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [swissprot;acc:p36269]
	2.31962		7	231962	tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063]
	13		6	1300000	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
	18	High confidence	65	1800000	rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372]
	35		31	3500000	dok-like protein. [refseq;acc:nm_024872]
	37	Low confidence	22	3700000	carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [refseq;acc:nm_021615]
			23		carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [refseq;acc:nm_004267]
	60	High confidence	22	6000000	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]
	82		20	8200000	ero1-like. [refseq;acc:nm_014584]
	154		95	15400000	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]
			96		transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]
	286	Low confidence	44	28600000	neurogenic locus notch homolog protein 1 precursor (notch 1) (hn1) (translocation-associated notch protein tan-1). [swissprot;acc:p46531]
			45		neurogenic locus notch homolog protein 2 precursor (notch 2) (hn2). [swissprot;acc:q04721]
	364	High confidence	1	36400000	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]
		Low confidence
5.56738	199.549	High confidence	11	35.8425	serpin b12. [swissprot;acc:q96p63]
		Low confidence	10
5.71669	199.249	High confidence	12	34.8539	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]
		Low confidence	11
6.50325	130.512	High confidence	14	20.0687	cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]
10.6048	383.762	Low confidence	9	36.1876	ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607]
11.5	14	High confidence	190	1.21739	protocadherin 16 precursor (cadherin 19) (cadherin fibroblast 1). [swissprot;acc:q96jq0]
		Low confidence	176
14.3333	19.6667	High confidence	121	1.3721	4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404]
15	1		16	15	protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992]
17.5166	0.00001	Low confidence	5	1751660	jumonji protein. [swissprot;acc:q92833]
17.6611	118.878	High confidence	21	6.73106	syntaxin 10 (syn10). [swissprot;acc:o60499]
18	0.00001		64	1800000	phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [swissprot;acc:o00750]
19	23		195	1.21053	adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559]
		Low confidence	184
	99		18	5.21053	camp-regulated phosphoprotein 19 (arpp-19) [contains: camp-regulated phosphoprotein 16 (arpp-16)]. [swissprot;acc:p56211]
21	44	High confidence	50	2.09524	transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [swissprot;acc:p15884]
23.6984	48.2534	Low confidence	64	2.03615	dna helicase homolog (fragment). [sptrembl;acc:q9y645]
26.1599	305.45	High confidence	18	11.6763	60s ribosomal protein l37a. [swissprot;acc:p12751]
			19		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]

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.