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 1 to 50 of 14920 in total

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

description	Rank	Value Type	red	green	network_comparison
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	37	Measured	334.401	934.348	2.79409
		Squared	101.05	1034.13	10.2338
	53	Rooted	11.844	18.0183	1.5213
	242	Ranked	15260.6	13895.8	1.09822
25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]	19	Measured	305.45	26.1599	11.6763
	26	Squared	44.3683	0.344399	128.828
		Rooted	13.7805	3.80565	3.62106
	47	Ranked	12941.7	18499.2	1.42943
26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832]	316	Squared	8620.27	7355.46	1.17196
	370	Rooted	30.7424	32.0298	1.04188
	379	Ranked	11228.4	10806	1.03909
	451	Measured	2683.61	2642.79	1.01545
26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [swissprot;acc:o00232]	328	Squared	6747.71	5878.56	1.14785
	458	Rooted	28.0847	28.5146	1.01531
	474	Measured	2281.12	2263.85	1.00763
	495	Ranked	11725.2	11748.1	1.00195
3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8]	299		12338.7	11512.3	1.07178
	438	Rooted	43.8864	44.9836	1.025
	492	Measured	5038.33	5046.33	1.00159
	493	Squared	17901.1	17901.1	1
3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362]	327	Ranked	9897.29	10466.5	1.05751
	376	Rooted	32.3671	31.1453	1.03923
	438	Measured	2925.57	2853.65	1.0252
	477	Squared	18353.1	18218.3	1.0074
3-ketoacyl-coa thiolase, peroxisomal precursor (ec 2.3.1.16) (beta- ketothiolase) (acetyl-coa acyltransferase) (peroxisomal 3-oxoacyl- coa thiolase). [swissprot;acc:p09110]	346	Measured	1837.26	1721.76	1.06708
	357	Rooted	28.0711	26.8141	1.04688
	455	Squared	6970.13	6794.39	1.02587
	478	Ranked	10156.4	10243.1	1.00854
4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404]	36	Rooted	4.30525	2.18581	1.96964
	121	Measured	19.6667	14.3333	1.3721
	232	Squared	0.108639	0.145878	1.34278
	369	Ranked	18849.7	19704.7	1.04536
40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	222		12183	11013.2	1.10622
	251	Rooted	21.3142	23.5833	1.10646
	258	Measured	1183.16	1337.54	1.13048
	270	Squared	2569.37	3201.81	1.24615
40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880]	186	Ranked	11935.1	10592.8	1.12672
	222	Measured	1499.4	1735.23	1.15728
	225	Rooted	23.1768	26.17	1.12915
	241	Squared	4734.34	6172.1	1.30369
40s ribosomal protein s26. [swissprot;acc:p02383]	43	Rooted	9.92134	5.66499	1.75134
	58	Measured	150.741	81.2233	1.85588
	112	Ranked	14269.7	17098	1.1982
	152	Squared	8.80383	5.24885	1.67729
40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677]	380	Ranked	9566.15	9936.37	1.0387
	395	Rooted	32.0326	30.9731	1.03421
	444	Measured	2431.87	2378.99	1.02223
	472	Squared	6605.9	6524	1.01255
40s ribosomal protein s28. [swissprot;acc:p25112]	258	Ranked	12967.1	14193.6	1.09459
	285	Rooted	13.5612	12.5026	1.08467

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.