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

Results: HTML CSV LaTeX

Showing element 401 to 450 of 2116 in total

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

Rank	Value Type	description
2842	Measured	nucleolar phosphoprotein p130 (nucleolar 130 kda protein) (140 kda nucleolar phosphoprotein) (nopp140) (nucleolar and coiled-body phosphoprotein 1). [swissprot;acc:q14978]
	Ranked
	Squared
	Rooted
2843	Measured	sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8]
	Ranked
	Squared
	Rooted
2844	Measured	fibrillin 1 precursor. [swissprot;acc:p35555]
	Ranked
	Squared
	Rooted
2845	Measured	protein kinase c and casein kinase substrate in neurons protein 3 (sh3 domain-containing protein 6511) (endophilin i). [swissprot;acc:q9uks6]
	Ranked
	Squared
	Rooted
2846	Measured	ctcl tumor antigen l14-2. [refseq;acc:nm_018017]
	Ranked
	Squared
	Rooted
2847	Measured	dachshund homolog isoform a. [refseq;acc:nm_080759]
	Ranked
	Squared
	Rooted
2848	Measured	transcription initiation factor iia alpha and beta chains (tfiia p35 and p19 subunits) (tfiia-42) (tfiial). [swissprot;acc:p52655]
	Ranked
	Squared
	Rooted
2849	Measured	snrna activating protein complex 50 kda subunit (snapc 50 kda subunit) (proximal sequence element-binding transcription factor beta subunit) (pse-binding factor beta subunit) (ptf beta subunit). [swissprot;acc:q92966]
	Ranked
	Squared
	Rooted
2850	Measured	cell division protein kinase 5 (ec 2.7.1.-) (tau protein kinase ii catalytic subunit) (tpkii catalytic subunit) (serine/threonine protein kinase pssalre). [swissprot;acc:q00535]
	Ranked
	Squared
	Rooted
2851	Measured	origin recognition complex subunit 5. [swissprot;acc:o43913]
	Ranked
	Squared
	Rooted
2852	Measured	histone h2a; h2a histone family, member r. [refseq;acc:nm_170745]
	Ranked
	Squared
	Rooted
2853	Measured	tigger transposable element derived 6. [refseq;acc:nm_030953]
	Ranked
	Squared
	Rooted
2854	Measured	transcriptional coactivator tubedown-100 isoform 1; putative n-acetyltransferase; gastric cancer antigen ga19. [refseq;acc:nm_057175]
	Ranked

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.