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	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 808 to 857 of 1892 in total

Network Comparison Type  : Subtracted
Interaction Map  : High confidence
Filtered  : 1
red  : 0
green  : 0
network_comparison  : 0

Rank	description	Value Type
2957	glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [swissprot;acc:q07075]	Rooted
2958	ccr4-not transcription complex, subunit 6-like. [refseq;acc:nm_144571]	Measured
		Ranked
		Squared
		Rooted
2959	60s ribosomal protein l37a. [swissprot;acc:p12751]	Measured
		Ranked
		Squared
		Rooted
2960	aldehyde oxidase (ec 1.2.3.1). [swissprot;acc:q06278]	Measured
		Ranked
		Squared
		Rooted
2961	ras-related protein rab-1a (ypt1-related protein). [swissprot;acc:p11476]	Measured
		Ranked
		Squared
		Rooted
2962	dynein 2 light intermediate chain. [refseq;acc:nm_016008]	Measured
		Ranked
		Squared
		Rooted
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]	Measured
		Ranked
		Squared
		Rooted
2964	semaphorin 6d isoform 3 precursor. [refseq;acc:nm_153617]	Measured
		Ranked
		Squared
		Rooted
2965	solute carrier family 21 member 15 (organic anion transporter polypeptide-related protein 4) (oatp-rp4) (oatprp4). [swissprot;acc:q9h2y9]	Measured
		Ranked
		Squared
		Rooted
2966	protease inhibitor 15 preproprotein; 25 kda trypsin inhibitor. [refseq;acc:nm_015886]	Measured
		Ranked
		Squared
		Rooted
2967	taube nuss. [refseq;acc:nm_138572]	Measured
		Ranked
		Squared
		Rooted
2968	ba528a10.3.2 (novel protein similar to kiaa0161, isoform 2) (fragment). [sptrembl;acc:q9bx39]	Measured
		Ranked
		Squared
		Rooted
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]	Measured
		Ranked
		Squared
		Rooted
2970	nov protein homolog precursor (novh) (nephroblastoma overexpressed gene protein homolog). [swissprot;acc:p48745]	Measured

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.