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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 29840 in total

Filtered  : 1
Interaction Map  : High confidence

description	Value Type	Rank	Network Comparison Type	red	green	network_comparison
1-phosphatidylinositol-4,5-bisphosphate phosphodiesterase beta 4 (ec 3.1.4.11) (phosphoinositide phospholipase c) (plc-beta-4) (phospholipase c-beta-4). [swissprot;acc:q15147]	Ranked	3126	Divided	0.00001	0.00001	1
			Subtracted	0	0	0
	Squared		Divided	0.00001	0.00001	1
			Subtracted	0	0	0
	Rooted		Divided	0.00001	0.00001	1
			Subtracted	0	0	0
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984]	Measured	1136	Divided	5790.65	6303.92	1.08864
		1140	Subtracted			513.27
	Ranked	1933		211.633	213.703	2.07
		1963	Divided			1.00978
	Squared	588		23526.4	27879.3	1.18502
		688	Subtracted			4352.9
	Rooted	1902		63.4353	65.2789	1.8436
		1907	Divided			1.02906
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891]	Measured	2922		0.00001	0.00001	1
			Subtracted	0	0	0
	Ranked		Divided	0.00001	0.00001	1
			Subtracted	0	0	0
	Squared		Divided	0.00001	0.00001	1
			Subtracted	0	0	0
	Rooted		Divided	0.00001	0.00001	1
			Subtracted	0	0	0
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946]	Measured	1411	Divided	5812.02	6262.07	1.07743
		1422	Subtracted			450.05
	Ranked	2421		220.681	221.425	0.744
		2439	Divided			1.00337
	Squared	792	Subtracted	28551.5	32561.8	4010.3
		1143	Divided			1.14046
	Rooted	1943		61.3337	63.0838	1.02853
		1987	Subtracted			1.7501
14-3-3 protein epsilon (mitochondrial import stimulation factor l subunit) (protein kinase c inhibitor protein-1) (kcip-1) (14-3-3e). [swissprot;acc:p42655]	Measured	3088	Divided	0.00001	0.00001	1
			Subtracted	0	0	0
	Ranked		Divided	0.00001	0.00001	1
			Subtracted	0	0	0
	Squared		Divided	0.00001	0.00001	1
			Subtracted	0	0	0
	Rooted		Divided	0.00001	0.00001	1
			Subtracted	0	0	0
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312]	Measured	1415	Divided	5815.33	6265.44	1.0774
		1418	Subtracted			450.11
	Ranked	2391		220.683	221.51	0.827
		2396	Divided			1.00375
	Squared	778	Subtracted	28600.9	32641.7	4040.8
		1135	Divided			1.14128
	Rooted	1961		61.3419	63.0743	1.02824
		2002	Subtracted			1.7324
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [swissprot;acc:p52758]	Measured	1404		6336.22	6788.96	452.74
		1600	Divided			1.07145
	Ranked	2366		203.353	202.529	1.00407
		2393	Subtracted			0.824

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.