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.

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

Results: HTML CSV LaTeX

Showing element 1501 to 1550 of 14920 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence

description	Rank	Value Type	Filtered	red	network_comparison	green
armet protein precursor (arginine-rich protein). [swissprot;acc:p55145]	350	Squared	1	35508.7	1.24452	44191.4
	698	Measured		7101.95	1.11939	7949.85
	1111	Rooted		68.4309	1.04946	71.8158
	1714	Ranked		206.549	1.01327	203.844
arp2/3 complex 16 kda subunit (p16-arc) (actin-related protein 2/3 complex subunit 5). [swissprot;acc:o15511]	1788	Measured		5386.49	1.06651	5744.76
	2025	Rooted		59.3853	1.02735	61.0095
	2060	Squared		24224.5	1.08974	26398.4
	2602	Ranked		224.875	1.00141	225.192
arp2/3 complex 21 kda subunit (p21-arc) (actin-related protein 2/3 complex subunit 3). [swissprot;acc:o15145]	1784	Measured		5386.37	1.06656	5744.89
	2010	Rooted		59.3823	1.0274	61.0094
	2071	Squared		24225.6	1.08972	26399
	2632	Ranked		224.891	1.00135	225.195
arp2/3 complex 34 kda subunit (p34-arc) (actin-related protein 2/3 complex subunit 2). [swissprot;acc:o15144]	1750	Measured		5384.89	1.06715	5746.51
	1971	Rooted		59.346	1.02799	61.0071
	2083	Squared		24238.8	1.08945	26406.9
	2697	Ranked		225.081	1.00067	225.232
arp2/3 complex 41 kda subunit (p41-arc) (actin-related protein 2/3 complex subunit 1b). [swissprot;acc:o15143]	321	Squared	0	5671.94	1.162	6590.82
	337	Measured		2039.07	1.07624	2194.52
	449	Ranked		9897.12	1.02129	9690.83
	464	Rooted		30.3413	1.01265	30.7252
	1781	Measured	1	5386.37	1.06656	5744.89
	2007	Rooted		59.3823	1.0274	61.0093
	2068	Squared		24225.6	1.08972	26399
	2629	Ranked		224.891	1.00135	225.195
arsenical pump-driving atpase (ec 3.6.3.16) (arsenite-translocating atpase) (arsenical resistance atpase) (arsenite-transporting atpase) (arsa) (asna-i). [swissprot;acc:o43681]	213	Measured	0	1162.21	1.18471	1376.88
	227	Squared		1662.68	1.35551	2253.78
	264	Ranked		10037.1	1.08947	10935.1
	490	Rooted		24.4309	1.00094	24.4079
	2291	Ranked	1	200.158	1.00527	201.213
	2446	Rooted		74.1169	1.01403	75.157
	2525	Measured		8695.15	1.02505	8912.98
	2670	Squared		54033.8	1.02483	55375.5
aryl-hydrocarbon interacting protein-like 1. [swissprot;acc:q9nzn9]	1027			22126.7	1.14787	25398.5
	1156	Ranked		224.307	1.02646	230.242
	1903	Measured		5204.25	1.06261	5530.11
	2657	Rooted		58.9993	1.00507	59.2983
asc-1 complex subunit p100. [refseq;acc:nm_032204]	1169			62.8958	1.04757	65.8878
	1206	Measured		5946.33	1.08635	6459.79
	1374	Ranked		216.542	1.02187	211.908
	1904	Squared		27114.7	1.09399	29663.3
asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243]	576			26570.7	1.18569	31504.6
	730	Measured		6000.23	1.11611	6696.89
	865	Rooted		62.7551	1.06202	66.6474
	1057	Ranked		219.01	1.03079	212.468
asparaginyl-trna synthetase, cytoplasmic (ec 6.1.1.22) (asparagine-- trna ligase) (asnrs). [swissprot;acc:o43776]	957	Squared		26822.8	1.15243	30911.4
	2103	Measured		6847.82	1.05486	7223.51
	2323	Ranked		192.773	1.00476	193.691
	2392	Rooted		70.8454	1.01598	71.9775
aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468]	423	Squared	0	8975.38	1.04765	9403.03
	441	Measured		6158	1.02355	6303

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.