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 Network Type I Analysis

Type 1 network in which we propagated the absolute log regulation ratio abs(log(r/g)). We used the filtered lowest boundary of the confidence interval for the microarray measurement based and used the high confidence interaction map. Because type-I networks tend to favour highly connected proteins we tested a normalisation scheme in which we would run the network once with real values (the measured column) and once with simulated values where each measured point is set to 1 instead of the actual signal (the expected column). Afterwards we divided the measured value by the expected value. This normalisation scheme works to a certain extend but will lead to a variance that is directly related to the connectivity of each protein. In the end we dropped the use of Type-I networks due to the many technical problems they pose.

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Hugo	description	Gene	expected	measured	final	Rank

Results: HTML CSV LaTeX

Showing element 1 to 50 of 3206 in total

Hugo  : no value
description  :

expected	measured	final	Rank
0.7865	0.000173011	0.000219976	3206
0.0901539	0.02137	0.237039108	1731
0.101375	0.0217565	0.214614057	2541
0.11537	0.0275762	0.23902401	1647
0.117581	0.0274494	0.233450983	1854
0.122748	0.034272	0.279206179	373
0.125634	0.0344618	0.274303135	492
0.126946	0.0308447	0.242974966	1481
0.128294	0.029603	0.230743449	2002
0.13696	0.031325	0.228716414	2088
0.141189	0.030828500000000002	0.218349163	2413
0.142049	0.0331615	0.233451133	1853
0.144194	0.0378601	0.26256363	784
0.151058	0.042516	0.281454805	357
0.1519	0.0313747	0.206548387	2723
0.154846	0.0415188	0.268129626	644
0.157329	0.0410035	0.260622644	847
0.163636	0.0436424	0.266704148	672
0.163741	0.038359	0.234266311	1823
0.171674	0.0483186	0.281455549	356
0.180231	0.0856348	0.475139127	17
0.180466	0.0556846	0.308560061	262
0.188793	0.044904	0.237847802	1700
0.196598	0.0371369	0.188897649	2872
0.203458	0.0436957	0.21476521	2522
0.204356	0.0488461	0.239024545	1642
0.238723	0.0511995	0.214472422	2553
0.247338	0.0580492	0.234695841	1800
0.257167	0.0607427	0.236199435	1764
0.270506	0.0577101	0.213341294	2574
0.309407	0.0760628	0.245834128	1298
0.312352	0.0753661	0.241285793	1557
0.324228	0.0869771	0.268259065	626
0.389405	0.086859	0.223055688	2257
0.396725	0.152828	0.385224022	89
0.443579	0.110079	0.248160981	1207
0.450503	0.117829	0.261549868	810
0.478436	0.135144	0.282470383	347
0.494121	0.152054	0.307726245	267
0.504447	0.12467	0.24714192	1261
0.505621	0.116403	0.23021789	2032
0.514239	0.112482	0.218734868	2409
0.514373	0.101691	0.197698946	2807
0.517345	0.0533885	0.103197093	3069
0.525053	0.10808	0.205845886	2725
0.562729	0.231369	0.411155281	55
0.628094	0.1385	0.220508395	2347
0.766628	0.184977	0.241286517	1556
0.862726	0.236585	0.274229593	498
0.898593	0.194172	0.216084479	2489

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
- Hugo is the bloody hugo identifier as demanded by the BMC Bioinformatics idiots