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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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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 77072 in total

green  : 0
Filtered  : 0
Network Comparison Type  : Subtracted

description	network_comparison	Value Type	Interaction Map	red	Rank
brca1 associated protein. [refseq;acc:nm_006768]	0	Measured	High confidence	0	502
		Ranked
		Squared
		Rooted
carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [refseq;acc:nm_021615]	0.324024	Squared	Low confidence	0.324024	826
	6.08276	Rooted		6.08276	42
	37	Measured		37	648
carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [refseq;acc:nm_004267]	0.324024	Squared		0.324024	827
	6.08276	Rooted		6.08276	43
	37	Measured		37	649
cobw-like protein. [refseq;acc:nm_018491]	0			0	839
		Ranked
		Squared
		Rooted
dok-like protein. [refseq;acc:nm_024872]	0.289941	Squared	High confidence	0.289941	467
	5.91608	Rooted		5.91608	74
	35	Measured		35	386
ero1-like. [refseq;acc:nm_014584]	1.59148	Squared		1.59148	440
	9.05539	Rooted		9.05539	38
	82	Measured		82	316
gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [refseq;acc:nm_080920]	0		Low confidence	0	838
		Ranked
		Squared
		Rooted
gamma-glutamyltransferase. [sptrembl;acc:q14390]		Measured			841
		Ranked
		Squared
		Rooted
gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [swissprot;acc:p19440]		Measured			842
		Ranked
		Squared
		Rooted
gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [swissprot;acc:p36268]		Measured			837
		Ranked
		Squared
		Rooted
gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [swissprot;acc:p36269]		Measured			843
		Ranked
		Squared
		Rooted
h2a histone family, member j isoform 1. [refseq;acc:nm_018267]		Measured	High confidence		501
		Squared
		Rooted
histone h2a.a (h2a/a) (h2a.2). [swissprot;acc:p28001]		Measured			495
		Squared
		Rooted
histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261]		Measured			494
		Squared
		Rooted
histone h2a; h2a histone family, member r. [refseq;acc:nm_170745]		Measured			497

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.