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	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 230 to 279 of 2060 in total

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

Rank	Hugo	description	Value Type
2813	HDAC3	histone deacetylase 3 (hd3) (rpd3-2). [swissprot;acc:o15379]	Ranked
			Squared
			Rooted
2814	SPSB1	spry domain-containing socs box protein ssb-1. [refseq;acc:nm_025106]	Measured
			Ranked
			Squared
			Rooted
2815	NMUR1	g protein-coupled receptor 66. [refseq;acc:nm_006056]	Measured
			Ranked
			Squared
			Rooted
2816	TIGD1	tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702]	Measured
			Ranked
			Squared
			Rooted
2817	TBCA	tubulin-specific chaperone a (tubulin-folding cofactor a) (cfa) (tcp1-chaperonin cofactor a). [swissprot;acc:o75347]	Measured
			Ranked
			Squared
			Rooted
2818	UGT2B7	udp-glucuronosyltransferase 2b7 precursor, microsomal (ec 2.4.1.17) (udpgt) (3,4-catechol estrogen specific) (udpgth-2). [swissprot;acc:p16662]	Measured
			Ranked
			Squared
			Rooted
2819	no value	udp-glucuronosyltransferase 2b11 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:o75310]	Measured
			Ranked
			Squared
			Rooted
2820		peregrin (bromodomain and phd finger-containing protein 1) (br140 protein). [swissprot;acc:p55201]	Measured
			Ranked
			Squared
			Rooted
2821	ATP6V0E2	vacuolar proton-atpase subunit. [sptrembl;acc:q8nhe4]	Measured
			Ranked
			Squared
			Rooted
2822	SLC30A1	zinc transporter 1 (znt-1). [swissprot;acc:q9y6m5]	Measured
			Ranked
			Squared
			Rooted
2823	NFRKB	nuclear factor related to kappa b binding protein. [refseq;acc:nm_006165]	Measured
			Ranked
			Squared
			Rooted
2824	HSPB2	heat-shock protein, beta-2 (hspb2) (dmpk-binding protein) (mkbp). [swissprot;acc:q16082]	Measured
			Ranked
			Squared
			Rooted
2825	no value	mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932]	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.