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

Results: HTML CSV LaTeX

Showing element 373 to 422 of 2061 in total

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

Rank	description	Hugo	Value Type
2849	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]	SNAPC3	Measured
			Ranked
			Squared
			Rooted
2850	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]	CDK5	Measured
			Ranked
			Squared
			Rooted
2851	origin recognition complex subunit 5. [swissprot;acc:o43913]	ORC5L	Measured
			Ranked
			Squared
			Rooted
2852	histone h2a; h2a histone family, member r. [refseq;acc:nm_170745]	HIST1H2AA	Measured
			Ranked
			Squared
			Rooted
2853	tigger transposable element derived 6. [refseq;acc:nm_030953]	TIGD6	Measured
			Ranked
			Squared
			Rooted
2854	transcriptional coactivator tubedown-100 isoform 1; putative n-acetyltransferase; gastric cancer antigen ga19. [refseq;acc:nm_057175]	NARG1	Measured
			Ranked
			Squared
			Rooted
2855	15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [swissprot;acc:p15428]	HPGD	Measured
			Ranked
			Squared
			Rooted
2856	high mobility group protein 2 (hmg-2). [swissprot;acc:p26583]	HMGB2	Measured
			Ranked
			Squared
			Rooted
2857	protein kinase c, delta type (ec 2.7.1.-) (npkc-delta). [swissprot;acc:q05655]	PRKCD	Measured
			Ranked
			Squared
			Rooted
2858	tyrosine-protein kinase ryk precursor (ec 2.7.1.112). [swissprot;acc:p34925]	RYK	Measured
			Ranked
			Squared
			Rooted
2859	homeobox protein nkx-6.1. [swissprot;acc:p78426]	NKX6-1	Measured
			Ranked
			Squared
			Rooted
2860	importin 9. [refseq;acc:nm_018085]	no value	Measured
			Ranked
			Squared
			Rooted
2861	glucosamine-6-phosphate isomerase. [refseq;acc:nm_138335]	GNPDA2	Measured
			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
- 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.