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

Results: HTML CSV LaTeX

Showing element 1001 to 1050 of 1892 in total

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

Rank	description	Value Type
3006	dgcr8 protein (digeorge syndrome critical region 8). [swissprot;acc:q8wyq5]	Measured
		Ranked
		Squared
		Rooted
3007	glioma-amplified sequence-41; numa binding protein 1. [refseq;acc:nm_006530]	Measured
		Ranked
		Squared
		Rooted
3008	nuclear pore complex protein nup214 (nucleoporin nup214) (214 kda nucleoporin) (can protein). [swissprot;acc:p35658]	Measured
		Ranked
		Squared
		Rooted
3009	cytochrome c oxidase polypeptide vib (ec 1.9.3.1) (aed). [swissprot;acc:p14854]	Measured
		Ranked
		Squared
		Rooted
3010	uroporphyrinogen decarboxylase (ec 4.1.1.37) (uro-d) (upd). [swissprot;acc:p06132]	Measured
		Ranked
		Squared
		Rooted
3011	dna replication licensing factor mcm8 (minichromosome maintenance 8). [swissprot;acc:q9uja3]	Measured
		Ranked
		Squared
		Rooted
3012	small nuclear ribonucleoprotein associated proteins b and b' (snrnp-b) (sm protein b/b') (sm-b/sm-b') (smb/smb'). [swissprot;acc:p14678]	Measured
		Ranked
		Squared
		Rooted
3013	major centromere autoantigen b (centromere protein b) (cenp-b). [swissprot;acc:p07199]	Measured
		Ranked
		Squared
		Rooted
3014	mitochondrial deoxynucleotide carrier (mitochondrial uncoupling protein 1). [swissprot;acc:q9hc21]	Measured
		Ranked
		Squared
		Rooted
3015	pericentrin 1; frount; nucleoporin nup75. [refseq;acc:nm_024844]	Measured
		Ranked
		Squared
		Rooted
3016	mitochondrial ribosomal protein s7; 30s ribosomal protein s7 homolog. [refseq;acc:nm_015971]	Measured
		Ranked
		Squared
		Rooted
3017	leucine rich repeat (in flii) interacting protein 1. [refseq;acc:nm_004735]	Measured
		Ranked
		Squared
		Rooted
3018	cysteine-rich secretory protein-1 precursor (crisp-1) (acidic epididymal glycoprotein homolog) (aeg-like protein) (arp). [swissprot;acc:p54107]	Measured
		Ranked

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.