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 [...,...].

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