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.

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 38536 in total

Filtered  : 1
Network Comparison Type  : Divided

description	Rank	green	Value Type	Interaction Map	red	network_comparison
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592]	3423	196.707	Ranked	Low confidence	199.702	1.01523
	3667	44025.2	Squared		45400.4	1.03124
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]	2882	8175.27	Measured		7948.01	1.02859
	2991	44050.1	Squared		45624.8	1.03575
	3126	0.00001	Measured	High confidence	0.00001	1
			Ranked
			Squared
			Rooted
	3189	73.847		Low confidence	71.5946	1.03146
	3585	199.628	Ranked		202.517	1.01447
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984]	588	27879.3	Squared	High confidence	23526.4	1.18502
	1136	6303.92	Measured		5790.65	1.08864
	1907	65.2789	Rooted		63.4353	1.02906
	1963	213.703	Ranked		211.633	1.00978
	2182	8386.58	Measured	Low confidence	8130.62	1.03148
	2477	75.1674	Rooted		72.718	1.03368
	2659	196.574	Ranked		200.053	1.0177
	3878	44870.2	Squared		46195.2	1.02953
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891]	1632	74.1551	Rooted		71.5773	1.03601
	1693	8246.34	Measured		7981.12	1.03323
	1873	199.455	Ranked		203.414	1.01985
	2922	0.00001	Measured	High confidence	0.00001	1
			Ranked
			Squared
			Rooted
	4003	44461.5	Squared	Low confidence	45711.3	1.02811
130 kda leucine-rich protein (lrp 130) (gp130) (leucine-rich ppr-motif containing protein). [swissprot;acc:p42704]	1727	42157.3			43932.5	1.04211
	4071	8067.47	Measured		7896.47	1.02166
	4138	73.4871	Rooted		71.6344	1.02586
	4255	200.395	Ranked		202.306	1.00954
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946]	575	8965.49	Measured		8572.9	1.04579
	1143	32561.8	Squared	High confidence	28551.5	1.14046
	1272	77.1756	Rooted	Low confidence	74.3919	1.03742
	1411	6262.07	Measured	High confidence	5812.02	1.07743
	1943	63.0838	Rooted		61.3337	1.02853
	2076	194.83	Ranked	Low confidence	198.587	1.01928
	2439	221.425		High confidence	220.681	1.00337
	4439	50977.2	Squared	Low confidence	49879	1.02202
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]	1532	44795.5			46733.3	1.04326
	2834	75.0319	Rooted		72.6559	1.0327
	2864	197.043	Ranked		200.418	1.01713
	3088	0.00001	Measured	High confidence	0.00001	1
			Ranked
			Squared
			Rooted
	3095	8370.12	Measured	Low confidence	8144.39	1.02772
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312]	591	8956.98			8566.17	1.04562
	1135	32641.7	Squared	High confidence	28600.9	1.14128
	1291	77.1362	Rooted	Low confidence	74.3579	1.03736
	1415	6265.44	Measured	High confidence	5815.33	1.0774

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.