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

Results: HTML CSV LaTeX

Showing element 6908 to 6957 of 7460 in total

Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Network Comparison Type	green	red	network_comparison
2952	serine/threonine-protein kinase receptor r3 precursor (ec 2.7.1.37) (skr3) (activin receptor-like kinase 1) (alk-1) (tgf-b superfamily receptor type i) (tsr-i). [swissprot;acc:p37023]	Subtracted	0	0	0
2953	glioma pathogenesis-related protein (glipr) (rtvp-1 protein). [swissprot;acc:p48060]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2954	nadh-ubiquinone oxidoreductase 39 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-39kd) (ci-39kd). [swissprot;acc:q16795]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2955	fibrillin 2 precursor. [swissprot;acc:p35556]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2956	protein transport protein sec24b (sec24-related protein b). [swissprot;acc:o95487]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2957	glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [swissprot;acc:q07075]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2958	ccr4-not transcription complex, subunit 6-like. [refseq;acc:nm_144571]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2959	60s ribosomal protein l37a. [swissprot;acc:p12751]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2960	aldehyde oxidase (ec 1.2.3.1). [swissprot;acc:q06278]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2961	ras-related protein rab-1a (ypt1-related protein). [swissprot;acc:p11476]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2962	dynein 2 light intermediate chain. [refseq;acc:nm_016008]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2963	geranylgeranyl transferase type ii beta subunit (ec 2.5.1.-) (rab geranylgeranyltransferase beta subunit) (rab geranyl- geranyltransferase beta subunit) (rab gg transferase beta) (rab ggtase beta). [swissprot;acc:p53611]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2964	semaphorin 6d isoform 3 precursor. [refseq;acc:nm_153617]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2965	solute carrier family 21 member 15 (organic anion transporter polypeptide-related protein 4) (oatp-rp4) (oatprp4). [swissprot;acc:q9h2y9]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2966	protease inhibitor 15 preproprotein; 25 kda trypsin inhibitor. [refseq;acc:nm_015886]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2967	taube nuss. [refseq;acc:nm_138572]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2968	ba528a10.3.2 (novel protein similar to kiaa0161, isoform 2) (fragment). [sptrembl;acc:q9bx39]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2969	transcription factor ap-2 alpha (ap2-alpha) (activating enhancer- binding protein 2 alpha) (ap-2 transcription factor) (activator protein-2) (ap-2). [swissprot;acc:p05549]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2970	nov protein homolog precursor (novh) (nephroblastoma overexpressed gene protein homolog). [swissprot;acc:p48745]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2971	dna-repair protein complementing xp-a cells (xeroderma pigmentosum group a complementing protein). [swissprot;acc:p23025]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2972	steroidogenic factor 1 (stf-1) (sf-1) (steroid hormone receptor ad4bp) (fushi tarazu factor homolog 1). [swissprot;acc:q13285]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2973	fructose-bisphosphate aldolase b (ec 4.1.2.13) (liver-type aldolase). [swissprot;acc:p05062]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2974	cell division protein kinase 9 (ec 2.7.1.-) (serine/threonine-protein kinase pitalre) (c-2k). [swissprot;acc:p50750]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2975	potassium channel tetramerisation domain containing 3; ny-ren-45 antigen. [refseq;acc:nm_016121]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2976	mo25 protein (cgi-66). [swissprot;acc:q9y376]	Divided	0.00001	0.00001	1
		Subtracted	0	0	0
2977	cytochrome p450 27, mitochondrial precursor (ec 1.14.-.-) (cytochrome p-450c27/25) (sterol 26-hydroxylase) (sterol 27-hydroxylase) (vitamin d(3) 25-hydroxylase) (5-beta-cholestane-3-alpha,7-alpha,12-alpha-triol 27-hydroxylase). [swissprot;acc:q02318]	Divided	0.00001	0.00001	1

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.