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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 12864 to 12913 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

description	Network Comparison Type	Rank	Value Type	green	red	network_comparison
megf6 (fragment). [sptrembl;acc:o75095]	Subtracted	1744	Ranked	219.09	221.811	2.721
megsin (tp55) (serpin b7). [swissprot;acc:o75635]	Divided	1688	Measured	6165.87	5767.69	1.06904
		1881	Squared	28767.6	26276.4	1.09481
		1987	Rooted	63.5621	61.8616	1.02749
		2414	Ranked	218.984	218.2	1.00359
	Subtracted	1643	Squared	28767.6	26276.4	2491.2
		1714	Measured	6165.87	5767.69	398.18
		2018	Rooted	63.5621	61.8616	1.7005
		2402	Ranked	218.984	218.2	0.784
meiotic recombination protein dmc1/lim15 homolog. [swissprot;acc:q14565]	Divided	687	Squared	28893.6	24633.6	1.17293
		1208	Measured	6423.98	5913.73	1.08628
		1947	Rooted	65.3899	63.5764	1.02852
		2259	Ranked	214.606	213.391	1.00569
	Subtracted	720	Squared	28893.6	24633.6	4260
		1153	Measured	6423.98	5913.73	510.25
		1936	Rooted	65.3899	63.5764	1.8135
		2255	Ranked	214.606	213.391	1.215
meiotic recombination protein spo11. [swissprot;acc:q9y5k1]	Divided	924		245.547	236.741	1.0372
		2314	Squared	17167.1	15947.3	1.07649
		2347	Rooted	52.3236	53.2692	1.01807
		2588	Measured	4253.46	4180.32	1.0175
	Subtracted	844	Ranked	245.547	236.741	8.806
		2400	Rooted	52.3236	53.2692	0.9456
		2450	Squared	17167.1	15947.3	1219.8
		2632	Measured	4253.46	4180.32	73.14
melanoma antigen p15 (melanoma-associated antigen recognized by t lymphocytes). [swissprot;acc:q13084]	Divided	816	Ranked	221.785	212.386	1.04425
		2210	Rooted	61.0748	62.412	1.02189
		2687	Squared	24679.6	24123.5	1.02305
		2727	Measured	5583.64	5603.24	1.00351
	Subtracted	804	Ranked	221.785	212.386	9.399
		2277	Rooted	61.0748	62.412	1.3372
		2642	Squared	24679.6	24123.5	556.1
		2718	Measured	5583.64	5603.24	19.6
melanoma antigen recognized by t cells 2. [refseq;acc:nm_018194]	Divided	790	Squared	31927.7	27407.7	1.16492
		1914	Measured	7287.27	6858.84	1.06246
		2316	Rooted	71.8706	70.5239	1.0191
		2495	Ranked	195.08	194.527	1.00284
	Subtracted	622	Squared	31927.7	27407.7	4520
		1582	Measured	7287.27	6858.84	428.43
		2257	Rooted	71.8706	70.5239	1.3467
		2506	Ranked	195.08	194.527	0.553
melanoma antigen, family b, 6. [refseq;acc:nm_173523]	Divided	64	Squared	129762	219048	1.68808
		93	Ranked	110.265	88.2482	1.24949
		162	Measured	18263	23693.7	1.29736
		233	Rooted	120.823	137.446	1.13758
	Subtracted	20	Squared	129762	219048	89286
		31	Measured	18263	23693.7	5430.7
		56	Rooted	120.823	137.446	16.623
		311	Ranked	110.265	88.2482	22.0168
melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	Divided	54	Squared	129762	219048	1.68808

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.