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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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

Results: HTML CSV LaTeX

Showing element 2632 to 2681 of 14920 in total

Network Comparison Type  : Divided
Filtered  : 1
Interaction Map  : High confidence

description	Value Type	Rank	red	network_comparison	green
centromere/kinetochore protein zw10 homolog. [swissprot;acc:o43264]	Rooted	3167	0.00001	1	0.00001
cerebral cell adhesion molecule. [refseq;acc:nm_016174]	Measured	1747	9596.59	1.06724	10241.9
	Ranked	2508	194.349	1.00247	193.871
	Squared	1234	62198.5	1.13507	70599.4
	Rooted	1837	77.9868	1.03028	80.3483
cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902]	Measured	900	4713.58	1.10152	4279.17
	Ranked	172	174.667	1.17685	205.556
	Squared	2285	8157.62	1.07882	8800.59
	Rooted	347	66.4284	1.10713	60.0004
cgi-142; hepatoma-derived growth factor 2. [refseq;acc:nm_016073]	Measured	384	4533.74	1.16447	5279.4
	Ranked	832	231.734	1.0428	222.222
	Squared	885	18178.2	1.15974	21081.9
	Rooted	493	55.1759	1.09218	60.2621
cgthba protein (-14 gene protein). [swissprot;acc:q12980]	Measured	2562	5291.65	1.02002	5187.78
	Ranked	644	217.67	1.05938	230.596
	Squared	2694	22249	1.02285	22757.3
	Rooted	1360	60.4911	1.04088	58.1154
channel associated protein of synapse-110 (chapsyn-110) (discs, large homolog 2). [swissprot;acc:q15700]	Measured	2085	5835.4	1.05552	6159.4
	Ranked	2657	216.934	1.00108	216.7
	Squared	2228	26586.2	1.08276	28786.6
	Rooted	2078	62.3035	1.02603	63.9253
chaperone-activity of bc1 complex-like, mitochondrial precursor (chaperone-abc1-like). [swissprot;acc:q8ni60]	Measured	1173	5799.35	1.08735	6305.95
	Ranked	1730	215.336	1.01303	212.567
	Squared	1311	24923.6	1.12836	28122.8
	Rooted	1345	62.7228	1.04102	65.296
choline dehydrogenase. [refseq;acc:nm_018397]	Measured	1556	5875.75	1.07267	6302.76
	Ranked	1647	217.256	1.01451	214.149
	Squared	2118	26865.2	1.08751	29216.1
	Rooted	1374	62.3839	1.04051	64.9113
choline o-acetyltransferase (ec 2.3.1.6) (choactase) (choline acetylase) (chat). [swissprot;acc:p28329]	Measured	1139	5790.66	1.08864	6303.95
	Ranked	1967	211.632	1.00978	213.702
	Squared	591	23526.5	1.18502	27879.4
	Rooted	1910	63.4354	1.02906	65.279
cholinephosphate cytidylyltransferase a (ec 2.7.7.15) (phosphorylcholine transferase a) (ctp:phosphocholine cytidylyltransferase a) (ct a) (cct a) (cct-alpha). [swissprot;acc:p49585]	Measured	1840	3591.95	1.06417	3375.34
	Ranked	269	241.373	1.10763	267.352
	Squared	1958	12175.3	1.09284	13305.6
	Rooted	323	50.3803	1.10923	45.4193
cholinephosphate cytidylyltransferase b (ec 2.7.7.15) (phosphorylcholine transferase b) (ctp:phosphocholine cytidylyltransferase b) (ct b) (cct b) (cct-beta). [swissprot;acc:q9y5k3]	Measured	1846	3591.95	1.06417	3375.34
	Ranked	275	241.373	1.10763	267.352
	Squared	1964	12175.3	1.09284	13305.6
	Rooted	329	50.3803	1.10923	45.4193
chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	Measured	271	2554.89	1.21092	3093.78
	Ranked	234	287.41	1.11905	256.835
	Squared	1693	9190.5	1.10551	10160.2
	Rooted	151	38.8223	1.1977	46.4975
chromatin assembly factor 1 subunit c (caf-1 subunit c) (chromatin assembly factor i p48 subunit) (caf-i 48 kda subunit) (caf-ip48) (retinoblastoma binding protein p48) (retinoblastoma-binding protein 4) (rbbp-4) (msi1 protein homolog). [swissprot;acc:q09028]	Measured	468	4869.15	1.14558	5578.02
	Ranked	282	252.39	1.10553	228.297
	Squared	919	23346.9	1.15665	27004.3
	Rooted	222	52.7936	1.13762	60.0592
chromatin-specific transcription elongation factor large subunit. [refseq;acc:nm_007192]	Measured	958	4483.26	1.09692	4917.77

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.