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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 451 to 500 of 77072 in total

Value Type  : Measured

description	Filtered	green	network_comparison	Interaction Map	red	Network Comparison Type	Rank
40s ribosomal protein s5. [swissprot;acc:p46782]	1	7645.87	1.02012	Low confidence	7495.04	Divided	4222
			150.83			Subtracted	4458
40s ribosomal protein s7 (s8). [swissprot;acc:p23821]		6186.39	1.06977	High confidence	5782.92	Divided	1642
			403.47			Subtracted	1679
		8023.9	1.03131	Low confidence	7780.28	Divided	2244
			243.62			Subtracted	2401
40s ribosomal protein s8. [swissprot;acc:p09058]		6087.55	1.07564	High confidence	5659.45	Divided	1471
			428.1			Subtracted	1587
		8569.5	1.00511	Low confidence	8525.9	Divided	4923
			43.6			Subtracted	4917
40s ribosomal protein s9. [swissprot;acc:p46781]		3877.14	1.0146	High confidence	3933.74	Divided	2628
			56.6			Subtracted	2654
		7908.36	1.02559	Low confidence	7711.01	Divided	3586
			197.35			Subtracted	3684
40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865]	0	838.364	1.01302		827.585	Divided	743
			10.779			Subtracted	785
		1104.61	1.09796	High confidence	1212.82	Divided	315
			108.21			Subtracted	266
	1	5275.76	1.03884		5078.5	Divided	2402
			197.26			Subtracted	2373
		8125.51	1.02607	Low confidence	7919.03	Divided	3484
			206.48			Subtracted	3486
43 kda receptor-associated protein of the synapse (rapsyn) (acetylcholine receptor-associated 43 kda protein) (43 kda postsynaptic protein). [swissprot;acc:q13702]		6640.78	1.07804	High confidence	6160.06	Divided	1402
			480.72			Subtracted	1261
		8261.9	1.02604	Low confidence	8052.19	Divided	3491
			209.71			Subtracted	3427
44050 protein. [refseq;acc:nm_178832]		8507.06	1.01436		8386.63	Divided	4703
			120.43			Subtracted	4674
		14889.2	1.16769	High confidence	17385.9	Divided	376
			2496.7			Subtracted	109
45 kda calcium-binding protein precursor (cab45) (stromal cell-derived factor 4) (sdf-4). [swissprot;acc:q9brk5]		8360.72	1.04566	Low confidence	7995.61	Divided	587
			365.11			Subtracted	598
		8570.11	1.09684	High confidence	7813.48	Divided	972
			756.63			Subtracted	576
5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478]		7747.63	1.11949		6920.69	Divided	691
			826.94			Subtracted	507
		8348.29	1.0257	Low confidence	8139.14	Divided	3556
			209.15			Subtracted	3436
5'-amp-activated protein kinase, beta-2 subunit (ampk beta-2 chain). [swissprot;acc:o43741]		7747.63	1.11949	High confidence	6920.69	Divided	689
			826.94			Subtracted	505
		8347.85	1.02597	Low confidence	8136.52	Divided	3509
			211.33			Subtracted	3382
5'-amp-activated protein kinase, catalytic alpha-1 chain (ec 2.7.1.-) (ampk alpha-1 chain). [swissprot;acc:q13131]		7747.6	1.11949	High confidence	6920.67	Divided	688
			826.93			Subtracted	509
		8396.61	1.02788	Low confidence	8168.9	Divided	3045
			227.71			Subtracted	2883
5'-amp-activated protein kinase, catalytic alpha-2 chain (ec 2.7.1.-) (ampk alpha-2 chain). [swissprot;acc:p54646]		7747.65	1.11949	High confidence	6920.71	Divided	687
			826.94			Subtracted	504
		8396.61	1.02783	Low confidence	8169.23	Divided	3059
			227.38			Subtracted	2897

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.