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

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Showing element 551 to 600 of 77072 in total

Filtered  : 0
Value Type  : Measured

green	network_comparison	Rank	Interaction Map	description	red	Network Comparison Type
378.206	1.29455	147	High confidence	cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6]	292.152	Divided
	86.054	307				Subtracted
379.277	2.17326	55	Low confidence	selenoprotein t. [swissprot;acc:q9nzj3]	174.52	Divided
	204.757	275				Subtracted
379.474	1.29435	148	High confidence	cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187]	293.178	Divided
		149		cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329]
	86.296	305		cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187]		Subtracted
		306		cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329]
384.407	1.82385	62		dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743]	210.767	Divided
	173.64	187				Subtracted
384.733	1.22228	186		glycine receptor alpha-3 chain precursor. [swissprot;acc:o75311]	470.251	Divided
	85.518	311				Subtracted
384.843	1.10902	295		adaptor-related protein complex 1, mu 2 subunit (mu-adaptin 2) (adaptor protein complex ap-1 mu-2 subunit) (golgi adaptor ha1/ap1 adaptin mu-2 subunit) (clathrin assembly protein assembly protein complex 1 medium chain 2) (ap-mu chain family member mu1b). [swissprot;acc:q9y6q5]	426.8	Divided
	41.957	378				Subtracted
385.626	1.78524	66		soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825]	688.436	Divided
		73	Low confidence
	302.81	104	High confidence			Subtracted
		194	Low confidence
391	1.32993	128		double-stranded rna-specific editase 1 (ec 3.5.-.-) (dsrna adenosine deaminase) (rna editing deaminase 1) (rna editing enzyme 1). [swissprot;acc:p78563]	294	Divided
	97	443				Subtracted
399.534	1.14538	233	High confidence	maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168]	348.823	Divided
	50.711	360				Subtracted
402	1.47761	100		atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [swissprot;acc:p12956]	594	Divided
	192	171				Subtracted
402.138	1.05585	520	Low confidence	dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743]	380.866	Divided
	21.272	735				Subtracted
403.196	2.15895	48	High confidence	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]	870.482	Divided
	467.286	61				Subtracted
405.367	1.04615	385		40s ribosomal protein s28. [swissprot;acc:p25112]	387.486	Divided
	17.881	430				Subtracted
410	1.3561	115	Low confidence	g protein-coupled receptor kinase grk5 (ec 2.7.1.-) (g-protein-coupled receptor kinase 5). [swissprot;acc:p34947]	556	Divided
		116		g protein-coupled receptor kinase grk6 (ec 2.7.1.-) (g-protein-coupled receptor kinase 6). [swissprot;acc:p43250]
	146	335		g protein-coupled receptor kinase grk5 (ec 2.7.1.-) (g-protein-coupled receptor kinase 5). [swissprot;acc:p34947]		Subtracted
		336		g protein-coupled receptor kinase grk6 (ec 2.7.1.-) (g-protein-coupled receptor kinase 6). [swissprot;acc:p43250]
416.524	1.70956	77	High confidence	inosine-5'-monophosphate dehydrogenase 2 (ec 1.1.1.205) (imp dehydrogenase 2) (impdh-ii) (impd 2). [swissprot;acc:p12268]	712.071	Divided
	295.547	106				Subtracted
417.983	1.26047	167		transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675]	331.61	Divided
	86.373	303				Subtracted
420.355	1.2585	168		transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525]	334.012	Divided
	86.343	304				Subtracted
421	1.44178	108		basic proline-rich peptide p-e (ib-9). [swissprot;acc:p02811]	292	Divided
	129	245				Subtracted
426.641	1.13821	340	Low confidence	syntaxin 1a (neuron-specific antigen hpc-1). [swissprot;acc:q16623]	374.834	Divided
	51.807	596				Subtracted
429	1.00704	477	High confidence	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]	426	Divided
		791	Low confidence
	3	479	High confidence			Subtracted
		811	Low confidence
430.121	1.28761	145		lipocalin-interacting membrane receptor. [refseq;acc:nm_018113]	553.827	Divided
	123.706	390				Subtracted

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.