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	Value Type	description	Interaction Map	Filtered	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 347 to 396 of 2060 in total

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

Rank	Hugo	Value Type	description
2842	NOLC1	Squared	nucleolar phosphoprotein p130 (nucleolar 130 kda protein) (140 kda nucleolar phosphoprotein) (nopp140) (nucleolar and coiled-body phosphoprotein 1). [swissprot;acc:q14978]
		Rooted
2843	SENP8	Measured	sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8]
		Ranked
		Squared
		Rooted
2844	FBN1	Measured	fibrillin 1 precursor. [swissprot;acc:p35555]
		Ranked
		Squared
		Rooted
2845	PACSIN3	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	C10orf118	Measured	ctcl tumor antigen l14-2. [refseq;acc:nm_018017]
		Ranked
		Squared
		Rooted
2847	DACH1	Measured	dachshund homolog isoform a. [refseq;acc:nm_080759]
		Ranked
		Squared
		Rooted
2848	GTF2A1	Measured	transcription initiation factor iia alpha and beta chains (tfiia p35 and p19 subunits) (tfiia-42) (tfiial). [swissprot;acc:p52655]
		Ranked
		Squared
		Rooted
2849	SNAPC3	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	CDK5	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	ORC5L	Measured	origin recognition complex subunit 5. [swissprot;acc:o43913]
		Ranked
		Squared
		Rooted
2852	HIST1H2AA	Measured	histone h2a; h2a histone family, member r. [refseq;acc:nm_170745]
		Ranked
		Squared
		Rooted
2853	TIGD6	Measured	tigger transposable element derived 6. [refseq;acc:nm_030953]
		Ranked
		Squared
		Rooted
2854	NARG1	Measured	transcriptional coactivator tubedown-100 isoform 1; putative n-acetyltransferase; gastric cancer antigen ga19. [refseq;acc:nm_057175]
		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
- 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.