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

Results: HTML CSV LaTeX

Showing element 101 to 150 of 14920 in total

Filtered  : 0
Network Comparison Type  : Divided
Interaction Map  : High confidence

description	Rank	Value Type	green	red	network_comparison
60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]	331	Squared	22.8932	26.2121	1.14497
	384	Rooted	12.8903	13.3606	1.03648
	392	Measured	219.891	229.211	1.04238
	429	Ranked	12631.5	12318.7	1.02539
60s ribosomal protein l15. [swissprot;acc:p39030]	186	Rooted	17.0546	19.482	1.14233
	188	Ranked	13203.1	11745.2	1.12413
	272	Measured	753.793	846.216	1.12261
	410	Squared	1286.61	1362.84	1.05925
60s ribosomal protein l17 (l23). [swissprot;acc:p18621]	232	Measured	1906.28	1663.73	1.14579
	262	Rooted	28.761	26.0693	1.10325
	269	Squared	5159.2	4121.56	1.25176
	277	Ranked	10251.6	11096.8	1.08245
60s ribosomal protein l18a. [swissprot;acc:q02543]	102		10437.1	12738.7	1.22052
	363	Rooted	32.2238	30.8547	1.04437
	419	Measured	2604.71	2688.7	1.03225
	475	Squared	9385.52	9310.69	1.00804
60s ribosomal protein l21. [swissprot;acc:p46778]	41	Ranked	6758.83	9994.33	1.47871
	65	Rooted	29.2291	20.5734	1.42072
	72	Measured	992.083	572	1.73441
	86	Squared	359.589	146.619	2.45254
60s ribosomal protein l22 (epstein-barr virus small rna associated protein) (eber associated protein) (eap) (heparin binding protein hbp15). [swissprot;acc:p35268]	82		141.849	374.181	2.63788
	97	Measured	476.619	728.65	1.52879
	131	Rooted	16.0484	19.3128	1.20341
	411	Ranked	12508.3	12115.7	1.0324
60s ribosomal protein l23 (l17). [swissprot;acc:p23131]	274	Squared	5226.4	4214.44	1.24012
	284	Measured	1956.36	1753.85	1.11547
	298	Rooted	30.112	28.0195	1.07468
	311	Ranked	9622.45	10253.5	1.06558
60s ribosomal protein l23a. [swissprot;acc:p29316]	205		10636.3	11844.9	1.11363
	244	Rooted	25.1571	22.6514	1.11062
	259	Measured	1463.51	1295.49	1.1297
	283	Squared	3420.27	2784.77	1.22821
60s ribosomal protein l37a. [swissprot;acc:p12751]	18	Measured	26.1599	305.45	11.6763
	25	Squared	0.344399	44.3683	128.828
		Rooted	3.80565	13.7805	3.62106
	46	Ranked	18499.2	12941.7	1.42943
60s ribosomal protein l39. [swissprot;acc:p02404]	128		9794.29	11564.4	1.18073
	412	Measured	2923.92	3024.78	1.03449
	451	Rooted	35.3591	34.7116	1.01865
	476	Squared	10558.6	10474.5	1.00803
60s ribosomal protein l7. [swissprot;acc:p18124]	147	Ranked	9505.89	11080.3	1.16562
	173	Rooted	31.7228	27.512	1.15305
	224	Measured	2206.07	1915.27	1.15183
	307	Squared	6955.21	5826.27	1.19377
60s ribosomal protein l9. [swissprot;acc:p32969]	265	Measured	1894.01	1685.44	1.12375
	276	Ranked	9922.33	10741.6	1.08257
		Rooted	28.8011	26.3707	1.09216
	297	Squared	5985.86	4941.26	1.2114
acrc protein; putative nuclear protein. [refseq;acc:nm_052957]	21	Ranked	10621.4	6313.38	1.68236
	80	Rooted	32.7593	44.2946	1.35212

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.