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

Results: HTML CSV LaTeX

Showing element 501 to 550 of 2158 in total

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

Rank	description	Value Type
2856	high mobility group protein 2 (hmg-2). [swissprot;acc:p26583]	Squared
		Rooted
2857	protein kinase c, delta type (ec 2.7.1.-) (npkc-delta). [swissprot;acc:q05655]	Measured
		Ranked
		Squared
		Rooted
2858	tyrosine-protein kinase ryk precursor (ec 2.7.1.112). [swissprot;acc:p34925]	Measured
		Ranked
		Squared
		Rooted
2859	homeobox protein nkx-6.1. [swissprot;acc:p78426]	Measured
		Ranked
		Squared
		Rooted
2860	importin 9. [refseq;acc:nm_018085]	Measured
		Ranked
		Squared
		Rooted
2861	glucosamine-6-phosphate isomerase. [refseq;acc:nm_138335]	Measured
		Ranked
		Squared
		Rooted
2862	syndecan-3 (synd3). [swissprot;acc:o75056]	Measured
		Ranked
		Squared
		Rooted
2863	high-glucose-regulated protein 8 (ny-ren-2 antigen). [swissprot;acc:q9y5a9]	Measured
		Ranked
		Squared
		Rooted
2864	mago nashi protein homolog. [swissprot;acc:p50606]	Measured
		Ranked
		Squared
		Rooted
2865	t-cell acute lymphocytic leukemia-1 protein (tal-1 protein) (stem cell protein) (t-cell leukemia/lymphoma-5 protein). [swissprot;acc:p17542]	Measured
		Ranked
		Squared
		Rooted
2866	syntaxin 5. [swissprot;acc:q13190]	Measured
		Ranked
		Squared
		Rooted
2867	sh3 adapter protein spin90 (sh3 protein interacting with nck, 90 kda) (vaca-interacting protein, 54 kda) (vip54) (af3p21) (diaphanous protein interacting protein) (dia interacting protein-1) (dip-1). [swissprot;acc:q9nzq3]	Measured
		Ranked
		Squared
		Rooted
2868	eukaryotic initiation factor 4a-i (eif-4a-i) (eif4a-i). [swissprot;acc:p04765]	Measured
		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
- 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.