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	green	Gene	Interaction Map	Rank	network_comparison	description	Network Comparison Type	red

Results: HTML CSV LaTeX

Showing element 1 to 50 of 2158 in total

Filtered  : 0
Network Comparison Type  : Subtracted
red  : 0

Value Type	green	Interaction Map	Rank	network_comparison	description
Measured	0	High confidence	494	0	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]
	17.5166		755	17.5166	jumonji protein. [swissprot;acc:q92833]
	18	High confidence	428	18	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]
	43		376	43	sedlin. [swissprot;acc:o14582]
			377		synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]
	59		342	59	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]
		Low confidence	554
	89	High confidence	289	89	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]
			290		homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
			291		homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]
		Low confidence	461		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]
			462		homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
			463		homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]
	109	High confidence	265	109	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]
	174		185	174	cab2. [refseq;acc:nm_033419]
Ranked	0		501	0	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
			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]
			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]
Squared		High confidence	494		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]

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.