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

Results: HTML CSV LaTeX

Showing element 451 to 500 of 1923 in total

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

Rank	Value Type	description
2860	Rooted	importin 9. [refseq;acc:nm_018085]
2861	Measured	glucosamine-6-phosphate isomerase. [refseq;acc:nm_138335]
	Ranked
	Squared
	Rooted
2862	Measured	syndecan-3 (synd3). [swissprot;acc:o75056]
	Ranked
	Squared
	Rooted
2863	Measured	high-glucose-regulated protein 8 (ny-ren-2 antigen). [swissprot;acc:q9y5a9]
	Ranked
	Squared
	Rooted
2864	Measured	mago nashi protein homolog. [swissprot;acc:p50606]
	Ranked
	Squared
	Rooted
2865	Measured	t-cell acute lymphocytic leukemia-1 protein (tal-1 protein) (stem cell protein) (t-cell leukemia/lymphoma-5 protein). [swissprot;acc:p17542]
	Ranked
	Squared
	Rooted
2866	Measured	syntaxin 5. [swissprot;acc:q13190]
	Ranked
	Squared
	Rooted
2867	Measured	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]
	Ranked
	Squared
	Rooted
2868	Measured	eukaryotic initiation factor 4a-i (eif-4a-i) (eif4a-i). [swissprot;acc:p04765]
	Ranked
	Squared
	Rooted
2869	Measured	phosphoribosyl pyrophosphate synthetase-associated protein 1 (prpp synthetase-associated protein 1) (39 kda phosphoribosypyrophosphate synthetase-associated protein) (pap39). [swissprot;acc:q14558]
	Ranked
	Squared
	Rooted
2870	Measured	adaptor protein with pleckstrin homology and src homology 2 domains. [refseq;acc:nm_020979]
	Ranked
	Squared
	Rooted
2871	Measured	vps28 protein homolog. [swissprot;acc:q9uk41]
	Ranked
	Squared
	Rooted
2872	Measured	transcriptional repressor nac1. [refseq;acc:nm_052876]
	Ranked
	Squared
	Rooted
2873	Measured	integrin beta-2 precursor (cell surface adhesion glycoproteins lfa- 1/cr3/p150,95 beta-subunit) (cd18) (complement receptor c3 beta- subunit). [swissprot;acc:p05107]

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.