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.

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 808 to 857 of 2060 in total

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

Rank	description	Hugo	Value Type
2957	glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [swissprot;acc:q07075]	ENPEP	Rooted
2958	ccr4-not transcription complex, subunit 6-like. [refseq;acc:nm_144571]	CNOT6L	Measured
			Ranked
			Squared
			Rooted
2959	60s ribosomal protein l37a. [swissprot;acc:p12751]	no value	Measured
			Ranked
			Squared
			Rooted
2960	aldehyde oxidase (ec 1.2.3.1). [swissprot;acc:q06278]	AOX1	Measured
			Ranked
			Squared
			Rooted
2961	ras-related protein rab-1a (ypt1-related protein). [swissprot;acc:p11476]	RAB1A	Measured
			Ranked
			Squared
			Rooted
2962	dynein 2 light intermediate chain. [refseq;acc:nm_016008]	DYNC2LI1	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]	RABGGTB	Measured
			Ranked
			Squared
			Rooted
2964	semaphorin 6d isoform 3 precursor. [refseq;acc:nm_153617]	SEMA6D	Measured
			Ranked
			Squared
			Rooted
2965	solute carrier family 21 member 15 (organic anion transporter polypeptide-related protein 4) (oatp-rp4) (oatprp4). [swissprot;acc:q9h2y9]	SLCO5A1	Measured
			Ranked
			Squared
			Rooted
2966	protease inhibitor 15 preproprotein; 25 kda trypsin inhibitor. [refseq;acc:nm_015886]	PI15	Measured
			Ranked
			Squared
			Rooted
2967	taube nuss. [refseq;acc:nm_138572]	TAF8	Measured
			Ranked
			Squared
			Rooted
2968	ba528a10.3.2 (novel protein similar to kiaa0161, isoform 2) (fragment). [sptrembl;acc:q9bx39]	RNF144B	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]	TFAP2A	Measured
			Ranked
			Squared
			Rooted
2970	nov protein homolog precursor (novh) (nephroblastoma overexpressed gene protein homolog). [swissprot;acc:p48745]	NOV	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
- 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.