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

Results: HTML CSV LaTeX

Showing element 801 to 850 of 2060 in total

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

Rank	Hugo	Value Type	description
2956	SEC24B	Measured	protein transport protein sec24b (sec24-related protein b). [swissprot;acc:o95487]
		Ranked
		Squared
		Rooted
2957	ENPEP	Measured	glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [swissprot;acc:q07075]
		Ranked
		Squared
		Rooted
2958	CNOT6L	Measured	ccr4-not transcription complex, subunit 6-like. [refseq;acc:nm_144571]
		Ranked
		Squared
		Rooted
2959	no value	Measured	60s ribosomal protein l37a. [swissprot;acc:p12751]
		Ranked
		Squared
		Rooted
2960	AOX1	Measured	aldehyde oxidase (ec 1.2.3.1). [swissprot;acc:q06278]
		Ranked
		Squared
		Rooted
2961	RAB1A	Measured	ras-related protein rab-1a (ypt1-related protein). [swissprot;acc:p11476]
		Ranked
		Squared
		Rooted
2962	DYNC2LI1	Measured	dynein 2 light intermediate chain. [refseq;acc:nm_016008]
		Ranked
		Squared
		Rooted
2963	RABGGTB	Measured	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]
		Ranked
		Squared
		Rooted
2964	SEMA6D	Measured	semaphorin 6d isoform 3 precursor. [refseq;acc:nm_153617]
		Ranked
		Squared
		Rooted
2965	SLCO5A1	Measured	solute carrier family 21 member 15 (organic anion transporter polypeptide-related protein 4) (oatp-rp4) (oatprp4). [swissprot;acc:q9h2y9]
		Ranked
		Squared
		Rooted
2966	PI15	Measured	protease inhibitor 15 preproprotein; 25 kda trypsin inhibitor. [refseq;acc:nm_015886]
		Ranked
		Squared
		Rooted
2967	TAF8	Measured	taube nuss. [refseq;acc:nm_138572]
		Ranked
		Squared
		Rooted
2968	RNF144B	Measured	ba528a10.3.2 (novel protein similar to kiaa0161, isoform 2) (fragment). [sptrembl;acc:q9bx39]
		Ranked

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
- Hugo is the HGNC identifier if it exists
- 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.