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 758 to 807 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
2945	TPM1	Ranked	tropomyosin 1 alpha chain (alpha-tropomyosin). [swissprot;acc:p09493]
		Squared
		Rooted
2946	GTF2A2	Measured	transcription initiation factor iia gamma chain (tfiia p12 subunit) (tfiia-12) (tfiias) (tfiia-gamma). [swissprot;acc:p52657]
		Ranked
		Squared
		Rooted
2947	SERF2	Measured	small edrk-rich factor 2. [refseq;acc:nm_005770]
		Ranked
		Squared
		Rooted
2948	TCF12	Measured	transcription factor 12 (transcription factor htf-4) (e-box-binding protein) (dna-binding protein htf4). [swissprot;acc:q99081]
		Ranked
		Squared
		Rooted
2949	MFAP1	Measured	microfibrillar-associated protein 1. [swissprot;acc:p55081]
		Ranked
		Squared
		Rooted
2950	TEGT	Measured	bax inhibitor-1 (bi-1) (testis enhanced gene transcript). [swissprot;acc:p55061]
		Ranked
		Squared
		Rooted
2951	ITGB7	Measured	integrin beta-7 precursor. [swissprot;acc:p26010]
		Ranked
		Squared
		Rooted
2952	ACVRL1	Measured	serine/threonine-protein kinase receptor r3 precursor (ec 2.7.1.37) (skr3) (activin receptor-like kinase 1) (alk-1) (tgf-b superfamily receptor type i) (tsr-i). [swissprot;acc:p37023]
		Ranked
		Squared
		Rooted
2953	GLIPR1	Measured	glioma pathogenesis-related protein (glipr) (rtvp-1 protein). [swissprot;acc:p48060]
		Ranked
		Squared
		Rooted
2954	NDUFA9	Measured	nadh-ubiquinone oxidoreductase 39 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-39kd) (ci-39kd). [swissprot;acc:q16795]
		Ranked
		Squared
		Rooted
2955	FBN2	Measured	fibrillin 2 precursor. [swissprot;acc:p35556]
		Ranked
		Squared
		Rooted
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

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.