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	description	Value Type	Interaction Map	Filtered	network_comparison	red	green

Results: HTML CSV LaTeX

Showing element 862 to 911 of 1892 in total

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

Rank	Hugo	description	Value Type
2971	XPA	dna-repair protein complementing xp-a cells (xeroderma pigmentosum group a complementing protein). [swissprot;acc:p23025]	Ranked
			Squared
			Rooted
2972	NR5A1	steroidogenic factor 1 (stf-1) (sf-1) (steroid hormone receptor ad4bp) (fushi tarazu factor homolog 1). [swissprot;acc:q13285]	Measured
			Ranked
			Squared
			Rooted
2973	ALDOB	fructose-bisphosphate aldolase b (ec 4.1.2.13) (liver-type aldolase). [swissprot;acc:p05062]	Measured
			Ranked
			Squared
			Rooted
2974	CDK9	cell division protein kinase 9 (ec 2.7.1.-) (serine/threonine-protein kinase pitalre) (c-2k). [swissprot;acc:p50750]	Measured
			Ranked
			Squared
			Rooted
2975	KCTD3	potassium channel tetramerisation domain containing 3; ny-ren-45 antigen. [refseq;acc:nm_016121]	Measured
			Ranked
			Squared
			Rooted
2976	CAB39	mo25 protein (cgi-66). [swissprot;acc:q9y376]	Measured
			Ranked
			Squared
			Rooted
2977	CYP27A1	cytochrome p450 27, mitochondrial precursor (ec 1.14.-.-) (cytochrome p-450c27/25) (sterol 26-hydroxylase) (sterol 27-hydroxylase) (vitamin d(3) 25-hydroxylase) (5-beta-cholestane-3-alpha,7-alpha,12-alpha-triol 27-hydroxylase). [swissprot;acc:q02318]	Measured
			Ranked
			Squared
			Rooted
2978	ITGA7	integrin alpha-7 precursor. [swissprot;acc:q13683]	Measured
			Ranked
			Squared
			Rooted
2979	UGT2B28	udp-glucuronosyltransferase 2b28 precursor, microsomal (ec 2.4.1.17). [swissprot;acc:q9by64]	Measured
			Ranked
			Squared
			Rooted
2980	TAOK3	ste20-like kinase; ste2-like kinase. [refseq;acc:nm_016281]	Measured
			Ranked
			Squared
			Rooted
2981	DZIP1	zinc finger daz interacting protein 1. [refseq;acc:nm_014934]	Measured
			Ranked
			Squared
			Rooted
2982	no value	serine/threonine protein kinase mask; ste20-like kinase mst4. [refseq;acc:nm_016542]	Measured
			Ranked
			Squared
			Rooted
2983	CCNH	cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]	Measured
			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.