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 1962 to 2011 of 2060 in total

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

Rank	Hugo	Value Type	description
5037	LPIN3	Measured	lipin 3 (lipin 3-like) (fragments). [swissprot;acc:q9bqk8]
		Squared
		Rooted
	PXDN	Ranked	myeloblast kiaa0230 (fragment). [sptrembl;acc:q92626]
5038	LRRC6		testis specific leucine rich repeat protein. [refseq;acc:nm_012472]
	PXDN	Measured	myeloblast kiaa0230 (fragment). [sptrembl;acc:q92626]
		Squared
		Rooted
5039	CENPB	Ranked	major centromere autoantigen b (centromere protein b) (cenp-b). [swissprot;acc:p07199]
	LRRC6	Measured	testis specific leucine rich repeat protein. [refseq;acc:nm_012472]
		Squared
		Rooted
5040	CENPB	Measured	major centromere autoantigen b (centromere protein b) (cenp-b). [swissprot;acc:p07199]
		Squared
		Rooted
	LRRFIP1	Ranked	leucine rich repeat (in flii) interacting protein 1. [refseq;acc:nm_004735]
5041		Measured
		Squared
		Rooted
	NAGK	Ranked	n-acetylglucosamine kinase (ec 2.7.1.59) (glcnac kinase). [swissprot;acc:q9uj70]
5042		Measured
		Squared
		Rooted
	TTR	Ranked	transthyretin precursor (prealbumin) (tbpa) (ttr) (attr). [swissprot;acc:p02766]
5043	no value		late endosomal/lysosomal mp1 interacting protein (p14) (hspc003). [swissprot;acc:q9y2q5]
	TTR	Measured	transthyretin precursor (prealbumin) (tbpa) (ttr) (attr). [swissprot;acc:p02766]
		Squared
		Rooted
5044	no value	Measured	late endosomal/lysosomal mp1 interacting protein (p14) (hspc003). [swissprot;acc:q9y2q5]
		Squared
		Rooted
	CD207	Ranked	langerhans cell specific c-type lectin. [refseq;acc:nm_015717]
5045		Measured
		Squared
		Rooted
	CYB561D2	Ranked	putative tumor suppressor 101f6. [refseq;acc:nm_007022]
5046		Measured
		Squared
		Rooted
	HGD	Ranked	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
5047		Measured
		Squared
		Rooted
	ZNF346	Ranked	double-stranded rna-binding zinc finger protein jaz. [refseq;acc:nm_012279]
5048	MAP2K1IP1		mitogen-activated protein kinase kinase 1 interacting protein 1 (mek binding partner 1) (mp1) (pro2783). [swissprot;acc:q9uha4]
	ZNF346	Measured	double-stranded rna-binding zinc finger protein jaz. [refseq;acc:nm_012279]
		Squared
		Rooted
5049	MAP2K1IP1	Measured	mitogen-activated protein kinase kinase 1 interacting protein 1 (mek binding partner 1) (mp1) (pro2783). [swissprot;acc:q9uha4]
		Squared

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.