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

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Showing element 451 to 500 of 2121 in total

green  : 0
Filtered  : 1
red  : 0
network_comparison  : 0
Network Comparison Type  : Subtracted

description	Interaction Map	Value Type	Rank
double-stranded rna-binding zinc finger protein jaz. [refseq;acc:nm_012279]	Low confidence	Rooted	5048
doublesex and mab-3 related transcription factor 3; testis-specific protein; dmrt-like family a3. [refseq;acc:nm_021240]	High confidence	Measured	3187
		Ranked
		Squared
		Rooted
dual specificity protein phosphatase 11 (ec 3.1.3.48) (rna/rnp complex-intereracting phosphatase) (phosphatase that interacts with rna/rnp complex 1). [swissprot;acc:o75319]		Measured	2926
		Ranked
		Squared
		Rooted
dynein 2 light intermediate chain. [refseq;acc:nm_016008]		Measured	2962
		Ranked
		Squared
		Rooted
dynein intermediate chain 1, axonemal (axonemal dynein intermediate chain 1). [swissprot;acc:q9ui46]		Measured	3029
		Ranked
		Squared
		Rooted
ecotropic virus integration 1 site protein. [swissprot;acc:q03112]		Measured	3170
		Ranked
		Squared
		Rooted
ell-associated factor 2; uncharacterized bone marrow protein bm040; testosterone regulated apoptosis inducer and tumor suppressor. [refseq;acc:nm_018456]		Measured	2921
		Ranked
		Squared
		Rooted
elongation factor ts, mitochondrial precursor (ef-ts) (ef-tsmt). [swissprot;acc:p43897]		Measured	3027
		Ranked
		Squared
		Rooted
endosome-associated fyve-domain protein. [refseq;acc:nm_014733]		Measured	3200
		Ranked
		Squared
		Rooted
enhancer of zeste homolog 1 (enx-2). [swissprot;acc:q92800]		Measured	3090
		Ranked
		Squared
		Rooted
enhancer of zeste homolog 2 (enx-1). [swissprot;acc:q15910]		Measured	3098
		Ranked
		Squared
		Rooted
ergic-53 protein precursor (er-golgi intermediate compartment 53 kda protein) (lectin, mannose-binding 1) (gp58) (intracellular mannose specific lectin mr60). [swissprot;acc:p49257]		Measured	3177
		Ranked
		Squared
		Rooted
erythroid differentiation-related factor 1. [refseq;acc:nm_015608]		Measured	3095
		Ranked
		Squared
		Rooted
eukaryotic initiation factor 4a-i (eif-4a-i) (eif4a-i). [swissprot;acc:p04765]		Measured	2868

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.