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

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Showing element 501 to 550 of 16578 in total

Value Type  : Ranked
Filtered  : 1

description	Rank	Interaction Map	green	red	Network Comparison Type	network_comparison
60 kda tat interactive protein (tip60) (hiv-1 tat interactive protein) (cpla(2) interacting protein). [swissprot;acc:q92993]	808	High confidence	213.912	223.186	Subtracted	9.274
	826				Divided	1.04335
	3722	Low confidence	197.651	200.338		1.01359
	3751				Subtracted	2.687
60s acidic ribosomal protein p0 (l10e). [swissprot;acc:p05388]	1022	High confidence	232.855	226.203		6.652
	1092				Divided	1.02941
	3894	Low confidence	199.673	202.202	Subtracted	2.529
	3897				Divided	1.01267
60s acidic ribosomal protein p1. [swissprot;acc:p05386]	831	High confidence	238.048	229.171	Subtracted	8.877
	898				Divided	1.03874
	4994	Low confidence	203.189	203.12		1.00034
					Subtracted	0.069
60s acidic ribosomal protein p2. [swissprot;acc:p05387]	621	High confidence	244.435	231.92		12.515
	720				Divided	1.05396
	1863	Low confidence	200.886	204.808	Subtracted	3.922
	1982				Divided	1.01952
60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635]	267	High confidence	266.661	243.12	Subtracted	23.541
	357				Divided	1.09683
	4704	Low confidence	208.569	207.452	Subtracted	1.117
	4740				Divided	1.00538
60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025]	264	High confidence	266.796	243.24	Subtracted	23.556
	356				Divided	1.09684
	4855	Low confidence	208.103	207.503	Subtracted	0.6
	4858				Divided	1.00289
60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7]	283	High confidence	265.255	242.37	Subtracted	22.885
	373				Divided	1.09442
	4582	Low confidence	210.165	208.668	Subtracted	1.497
	4601				Divided	1.00717
60s ribosomal protein l11. [swissprot;acc:p39026]	201	High confidence	267.346	241.828	Subtracted	25.518
	283				Divided	1.10552
	2323	Low confidence	212.217	208.542	Subtracted	3.675
	2678				Divided	1.01762
60s ribosomal protein l12 like protein. [sptrembl;acc:o60886]	246	High confidence	267.528	243.583	Subtracted	23.945
	338				Divided	1.0983
	4651	Low confidence	208.125	206.86	Subtracted	1.265
	4667				Divided	1.00612
60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815]	281	High confidence	265.104	242.159	Subtracted	22.945
	369				Divided	1.09475
	3863	Low confidence	201.949	204.522	Subtracted	2.573
	3886				Divided	1.01274
60s ribosomal protein l12. [swissprot;acc:p30050]	247	High confidence	267.527	243.583	Subtracted	23.944
	337				Divided	1.0983
	4655	Low confidence	208.096	206.837	Subtracted	1.259
	4669				Divided	1.00609
60s ribosomal protein l13 (breast basic conserved protein 1). [swissprot;acc:p26373]	3620		201.053	203.892	Subtracted	2.839
	3643				Divided	1.01412
60s ribosomal protein l13, mitochondrial (l13mt). [swissprot;acc:q9byd1]	325	High confidence	263.62	241.828	Subtracted	21.792
	390				Divided	1.09011
	4858	Low confidence	205.562	206.138	Subtracted	0.576
	4867				Divided	1.0028

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.