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

Results: HTML CSV LaTeX

Showing element 1001 to 1050 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

description	Network Comparison Type	Rank	red	green	Value Type	network_comparison
60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]	Divided	306	242.153	266.673	Ranked	1.10126
		387	50.3345	45.6718	Rooted	1.10209
		2003	12429.9	13562.6	Squared	1.09113
		2074	3614.91	3423.89	Measured	1.05579
	Subtracted	222	242.153	266.673	Ranked	24.52
		658	50.3345	45.6718	Rooted	4.6627
		2392	3614.91	3423.89	Measured	191.02
		2504	12429.9	13562.6	Squared	1132.7
60s ribosomal protein l15. [swissprot;acc:p39030]	Divided	604	217.862	230.978	Ranked	1.0602
		1089	17766.4	20351.7	Squared	1.14552
		2238	59.1718	57.9477	Rooted	1.02112
		2532	4888.72	5006.1	Measured	1.02401
	Subtracted	577	217.862	230.978	Ranked	13.116
		1546	17766.4	20351.7	Squared	2585.3
		2312	59.1718	57.9477	Rooted	1.2241
		2530	4888.72	5006.1	Measured	117.38
60s ribosomal protein l17 (l23). [swissprot;acc:p18621]	Divided	281	241.808	267.335	Ranked	1.10557
		343	50.3169	45.4333	Rooted	1.10749
		1894	3598.08	3384.59	Measured	1.06308
		2212	12360.4	13390.2	Squared	1.08331
	Subtracted	200	241.808	267.335	Ranked	25.527
		590	50.3169	45.4333	Rooted	4.8836
		2362	3598.08	3384.59	Measured	213.49
		2538	12360.4	13390.2	Squared	1029.8
60s ribosomal protein l18. [swissprot;acc:q07020]	Divided	485	237.109	254.667	Ranked	1.07405
		969	52.9804	50.0947	Rooted	1.0576
		1618	15399.5	17067.9	Squared	1.10834
		2694	4113.79	4095.53	Measured	1.00446
	Subtracted	411	237.109	254.667	Ranked	17.558
		1188	52.9804	50.0947	Rooted	2.8857
		2244	15399.5	17067.9	Squared	1668.4
		2734	4113.79	4095.53	Measured	18.26
60s ribosomal protein l18a. [swissprot;acc:q02543]	Divided	770	55.6817	59.3786	Rooted	1.06639
		806	4708.61	5226.71	Measured	1.11003
		860	234.025	224.958	Ranked	1.04031
		1128	18854.4	21540.4	Squared	1.14246
	Subtracted	819	234.025	224.958	Ranked	9.067
		906	55.6817	59.3786	Rooted	3.6969
		1098	4708.61	5226.71	Measured	518.1
		1477	18854.4	21540.4	Squared	2686
60s ribosomal protein l19. [swissprot;acc:p14118]	Divided	319	240.73	264.729	Ranked	1.09969
		435	50.832	46.3081	Rooted	1.09769
		2054	12769	13918.3	Squared	1.09001
		2136	3687.49	3499.2	Measured	1.05381
	Subtracted	245	240.73	264.729	Ranked	23.999
		690	50.832	46.3081	Rooted	4.5239
		2401	3687.49	3499.2	Measured	188.29
		2491	12769	13918.3	Squared	1149.3
60s ribosomal protein l21. [swissprot;acc:p46778]	Divided	1051	60.1366	63.2237	Rooted	1.05133
		1054	223.958	217.263	Ranked	1.03082

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.