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

Results: HTML CSV LaTeX

Showing element 11264 to 11313 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
red  : 0.00001
green  : 0.00001
network_comparison  : 1

Rank	description	Value Type
2816	tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702]	Rooted
2817	tubulin-specific chaperone a (tubulin-folding cofactor a) (cfa) (tcp1-chaperonin cofactor a). [swissprot;acc:o75347]	Measured
		Ranked
		Squared
		Rooted
2818	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	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	vacuolar proton-atpase subunit. [sptrembl;acc:q8nhe4]	Measured
		Ranked
		Squared
		Rooted
2822	zinc transporter 1 (znt-1). [swissprot;acc:q9y6m5]	Measured
		Ranked
		Squared
		Rooted
2823	nuclear factor related to kappa b binding protein. [refseq;acc:nm_006165]	Measured
		Ranked
		Squared
		Rooted
2824	heat-shock protein, beta-2 (hspb2) (dmpk-binding protein) (mkbp). [swissprot;acc:q16082]	Measured
		Ranked
		Squared
		Rooted
2825	mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932]	Measured
		Ranked
		Squared
		Rooted
2826	suppressor of actin 1. [refseq;acc:nm_014016]	Measured
		Ranked
		Squared
		Rooted
2827	cop9 signalosome complex subunit 1 (g protein pathway suppressor 1) (gps1 protein) (mfh protein). [swissprot;acc:q13098]	Measured
		Ranked
		Squared
		Rooted
2828	ubiquitin-conjugating enzyme e2-18 kda ubch7 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (ubcm4) (e2-f1) (l-ubc). [swissprot;acc:p51966]	Measured
		Ranked
		Squared
		Rooted
2829	alveolar soft part sarcoma chromosome region, candidate 1; aspl protein; renal cell carcinoma gene on chromosome 17; renal cell carcinoma, papillary, 17 gene; aspscr1/tfe3 fusion gene, included. [refseq;acc:nm_024083]	Measured

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.