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	Value Type	green	Network Comparison Type	Filtered	Interaction Map	network_comparison	red

Results: HTML CSV LaTeX

Showing element 1051 to 1100 of 2060 in total

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

Rank	description	Value Type
3018	cysteine-rich secretory protein-1 precursor (crisp-1) (acidic epididymal glycoprotein homolog) (aeg-like protein) (arp). [swissprot;acc:p54107]	Squared
		Rooted
3019	testis intracellular mediator protein. [refseq;acc:nm_057161]	Measured
		Ranked
		Squared
		Rooted
3020	protein kinase c and casein kinase substrate in neurons protein 1. [swissprot;acc:q9by11]	Measured
		Ranked
		Squared
		Rooted
3021	testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562]	Measured
		Ranked
		Squared
		Rooted
3022	n-acetylglucosamine kinase (ec 2.7.1.59) (glcnac kinase). [swissprot;acc:q9uj70]	Measured
		Ranked
		Squared
		Rooted
3023	vesicle-associated membrane protein-associated protein b/c (vamp- associated protein b/c) (vamp-b/vamp-c) (vap-b/vap-c). [swissprot;acc:o95292]	Measured
		Ranked
		Squared
		Rooted
3024	phosphatidylinositol glycan class t precursor. [refseq;acc:nm_015937]	Measured
		Ranked
		Squared
		Rooted
3025	dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [sptrembl;acc:q9nqj4]	Measured
		Ranked
		Squared
		Rooted
3026	solute carrier family 36 member 1; proton / amino acid symporter; lysosomal amino acid transporter 1. [refseq;acc:nm_078483]	Measured
		Ranked
		Squared
		Rooted
3027	elongation factor ts, mitochondrial precursor (ef-ts) (ef-tsmt). [swissprot;acc:p43897]	Measured
		Ranked
		Squared
		Rooted
3028	clll6 protein. [refseq;acc:nm_020456]	Measured
		Ranked
		Squared
		Rooted
3029	dynein intermediate chain 1, axonemal (axonemal dynein intermediate chain 1). [swissprot;acc:q9ui46]	Measured
		Ranked
		Squared
		Rooted
3030	uncharacterized bone marrow protein bm033. [refseq;acc:nm_018452]	Measured
		Ranked
		Squared
		Rooted

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.