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	network_comparison	Network Comparison Type	green	Filtered	Value Type	red	Interaction Map

Results: HTML CSV LaTeX

Showing element 501 to 550 of 77072 in total

description	Rank	network_comparison	Network Comparison Type	green	Filtered	Value Type	red	Interaction Map
26s protease regulatory subunit 8 (proteasome subunit p45) (thyroid hormone receptor interacting protein 1) (trip1) (msug1 protein) (tat-binding protein homolog 10) (tbp10) (p45/sug). [swissprot;acc:p47210]	1682	2.95	Subtracted	199.408	1	Ranked	202.358	High confidence
	1721	1.10282	Divided	53788.1		Squared	59318.4
	1772	1.9751	Subtracted	76.9113		Rooted	74.9362
	2059	1.02636	Divided
	2149	3.762	Subtracted	197.22		Ranked	200.982	Low confidence
	2163	1.01908	Divided
	2260	2.4749	Subtracted	74.792		Rooted	72.3171
	2297	1.03422	Divided
	2602	83.65	Subtracted	9234.09		Measured	9150.44	High confidence
	2651	1.00914	Divided
	2944	225.57	Subtracted	8314.51			8088.94	Low confidence
	3044	1.02789	Divided
26s protease regulatory subunit s10b (proteasome subunit p42) (p44) (conserved atpase domain protein 44) (cadp44). [swissprot;acc:q92524]	1280	2937.1	Subtracted	30113.9		Squared	27176.8	High confidence
	1577	1.07181	Divided	6349.04		Measured	5923.66
	1599	425.38	Subtracted
	1630	1.10807	Divided	30113.9		Squared	27176.8
	1944	1.02853		64.5421		Rooted	62.7515
	1968	1.7906	Subtracted
	2478	1.00289	Divided	216.801		Ranked	216.177
	2486	0.624	Subtracted
	2526	238.39		8326.51		Measured	8088.12	Low confidence
	2711	1.02947	Divided
	3092	2.2929	Subtracted	74.8438		Rooted	72.5509
	3167	1.0316	Divided
	3429	1427.9	Subtracted	44345.7		Squared	45773.6
	3515	1.01489	Divided	197.374		Ranked	200.312
	3521	2.938	Subtracted
	3537	1.0322	Divided	44345.7		Squared	45773.6
26s proteasome non-atpase regulatory subunit 1 (26s proteasome regulatory subunit s1) (26s proteasome subunit p112). [swissprot;acc:q99460]	830	5.131	Subtracted	199.229		Ranked	204.36
	857	1.02575	Divided
	1146	1.04611		42544.1		Squared	44506
	1162	1.03812		73.5808		Rooted	70.8788
	1182	3108.3	Subtracted	29969		Squared	26860.7	High confidence
	1280	2.702		73.5808		Rooted	70.8788	Low confidence
	1379	1961.9		42544.1		Squared	44506
	1476	1.11572	Divided	29969			26860.7	High confidence
	1862	369.48	Subtracted	6195.48		Measured	5826
	1883	1.06342	Divided
	2129	1.02418		63.5033		Rooted	62.0038
	2140	1.4995	Subtracted
	2355	0.879		219.434		Ranked	218.555
	2368	1.00402	Divided
	2447	1.03046		8063.51		Measured	7825.14	Low confidence
	2527	238.37	Subtracted
26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832]	104	1264.81		7355.46	0	Squared	8620.27	High confidence
	316	1.17196	Divided
	335	1.2874	Subtracted	32.0298		Rooted	30.7424
	370	1.04188	Divided
	378	422.4	Subtracted	10806		Ranked	11228.4
	379	1.03909	Divided

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.