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

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Showing element 401 to 450 of 38536 in total

Filtered  : 1
Network Comparison Type  : Divided

description	Rank	green	Value Type	Interaction Map	red	network_comparison
28s ribosomal protein s16, mitochondrial precursor (mrp-s16) (cgi- 132). [swissprot;acc:q9y3d3]	729	200.165	Ranked	Low confidence	205.65	1.0274
	829	73.6713	Rooted		70.798	1.04058
	1409	24115.7	Squared	High confidence	21512.7	1.121
	1782	8120.67	Measured	Low confidence	7861.76	1.03293
	1955	5510.67		High confidence	5195.3	1.0607
	2015	43100.6	Squared	Low confidence	44834.3	1.04022
	2212	225.854	Ranked	High confidence	224.411	1.00643
	2305	60.1552	Rooted		59.0186	1.01926
28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	9	44	Ranked	Low confidence	58	1.31818
	11	192141	Squared		106226	1.80879
	16	28492	Measured		21185	1.34491
	23	44	Ranked	High confidence	58	1.31818
	31	168.796	Rooted	Low confidence	145.551	1.1597
	35	192141	Squared	High confidence	106226	1.80879
	115	28492	Measured		21185	1.34491
	173	168.796	Rooted		145.551	1.1597
28s ribosomal protein s18a, mitochondrial precursor (mrp-s18-a) (mrps18a) (mrp-s18-3). [swissprot;acc:q9nvs2]	734	43963.6	Squared	Low confidence	46280	1.05269
	828	28112.8		High confidence	24211.7	1.16112
	835	6218.77	Measured		5623.18	1.10592
	1149	64.5415	Rooted		61.5672	1.04831
	1659	214.826	Ranked		217.925	1.01443
	2664	197.699		Low confidence	201.194	1.01768
	3116	74.5257	Rooted		72.2279	1.03181
	3803	8257.86	Measured		8064.23	1.02401
28s ribosomal protein s18b, mitochondrial precursor (mrp-s18-b) (mrps18b) (mrp-s18-2) (ptd017 protein) (hspc183). [swissprot;acc:q9y676]	878	39900.5	Squared		41874	1.04946
	3958	204.37	Ranked		201.908	1.01219
	4946	71.2064	Rooted		70.6903	1.0073
	4972	7632.4	Measured		7611.44	1.00275
28s ribosomal protein s18c, mitochondrial precursor (mrp-s18-c) (mrps18c) (mrp-s18-1) (cgi-134). [swissprot;acc:q9y3d5]	2324	8286.09			8037.13	1.03098
	2881	74.6485	Rooted		72.2922	1.03259
	3329	197.742	Ranked		200.825	1.01559
	3890	44075.7	Squared		45374.1	1.02946
28s ribosomal protein s26, mitochondrial precursor (mrp-s26) (mrp- s13). [swissprot;acc:q9byn8]	730	201.05	Ranked		206.555	1.02738
	747	72.965	Rooted		70.0626	1.04143
	1446	7969.42	Measured		7704.75	1.03435
	2071	6797.24		High confidence	6437.24	1.05592
	2082	66.1778	Rooted		64.5014	1.02599
	2449	35032	Squared		33026.7	1.06072
	2617	42162.6		Low confidence	43757.4	1.03782
	2675	215.108	Ranked	High confidence	214.893	1.001
28s ribosomal protein s9, mitochondrial precursor (mrp-s9). [swissprot;acc:p82933]	407	260.544			239.75	1.08673
	659	47.9816	Rooted		51.7081	1.07767
	1662	15480.4	Squared		13992.7	1.10632
	2530	3788.42	Measured		3880.5	1.02431
	2844	41427.9	Squared	Low confidence	42943	1.03657
	3986	7792.73	Measured		7621.65	1.02245
	4585	71.3675	Rooted		69.8928	1.0211
	4992	206.342	Ranked		206.266	1.00037
3 beta-hydroxy-delta 5-c27-steroid oxidoreductase. [refseq;acc:nm_025193]	1079	42724.1	Squared		44737.4	1.04712
	1667	193.866	Ranked		197.872	1.02066

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.