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

Results: HTML CSV LaTeX

Showing element 3180 to 3229 of 25824 in total

red  : 0.00001
Network Comparison Type  : Divided
Interaction Map  : High confidence
network_comparison  : 1
Filtered  : 1
green  : 0.00001

Rank	Value Type	description
3077	Rooted	h2a histone family, member j isoform 1. [refseq;acc:nm_018267]
3078	Measured	camp responsive element binding protein-like 2. [refseq;acc:nm_001310]
	Ranked
	Squared
	Rooted
3079	Measured	25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]
	Ranked
	Squared
	Rooted
3080	Measured	nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [swissprot;acc:q99733]
	Ranked
	Squared
	Rooted
3081	Measured	nadh-ubiquinone oxidoreductase 30 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-30kd) (ci-30kd). [swissprot;acc:o75489]
	Ranked
	Squared
	Rooted
3082	Measured	alpha crystallin b chain (alpha(b)-crystallin) (rosenthal fiber component). [swissprot;acc:p02511]
	Ranked
	Squared
	Rooted
3083	Measured	glycine receptor beta chain precursor (glycine receptor 58 kda subunit). [swissprot;acc:p48167]
	Ranked
	Squared
	Rooted
3084	Measured	mitogen-activated protein kinase kinase 1 interacting protein 1 (mek binding partner 1) (mp1) (pro2783). [swissprot;acc:q9uha4]
	Ranked
	Squared
	Rooted
3085	Measured	udp-glucuronosyltransferase 2b10 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:p36537]
	Ranked
	Squared
	Rooted
3086	Measured	udp-glucuronosyltransferase 2b15 precursor, microsomal (ec 2.4.1.17) (udpgt) (udpgth-3) (hlug4). [swissprot;acc:p54855]
	Ranked
	Squared
	Rooted
3087	Measured	fructose-bisphosphate aldolase c (ec 4.1.2.13) (brain-type aldolase). [swissprot;acc:p09972]
	Ranked
	Squared
	Rooted
3088	Measured	14-3-3 protein epsilon (mitochondrial import stimulation factor l subunit) (protein kinase c inhibitor protein-1) (kcip-1) (14-3-3e). [swissprot;acc:p42655]
	Ranked
	Squared
	Rooted
3089	Measured	camp-dependent protein kinase type i-alpha regulatory chain (tissue- specific extinguisher-1) (tse1). [swissprot;acc:p10644]
	Ranked
	Squared
	Rooted
3090	Measured	enhancer of zeste homolog 1 (enx-2). [swissprot;acc:q92800]

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.