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 501 to 550 of 14920 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence

description	Rank	Value Type	Filtered	red	network_comparison	green
6-phosphofructokinase, liver type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme b) (pfk-b). [swissprot;acc:p17858]	642	Squared	1	16123.9	1.17898	19009.7
	764	Measured		4250.18	1.11269	4729.12
	1822	Ranked		240.32	1.01151	243.085
	1905	Rooted		52.8713	1.02906	54.4076
6-phosphofructokinase, muscle type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme a) (pfk-a) (phosphofructokinase-m). [swissprot;acc:p08237]	643	Squared		16126.5	1.17897	19012.6
	763	Measured		4250.54	1.11272	4729.67
	1830	Ranked		240.32	1.01144	243.069
	1894	Rooted		52.8726	1.02913	54.4127
6-phosphofructokinase, type c (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme c) (pfk-c) (6-phosphofructokinase, platelet type). [swissprot;acc:q01813]	644	Squared		16156.3	1.17886	19046
	759	Measured		4254.62	1.11315	4736.03
	1846	Rooted		52.887	1.02996	54.4715
	1883	Ranked		240.317	1.01067	242.881
6-phosphogluconate dehydrogenase, decarboxylating (ec 1.1.1.44). [swissprot;acc:p52209]	922	Squared		27031.3	1.15634	31257.4
	1339	Measured		5988.06	1.07964	6464.94
	2041	Rooted		63.5421	1.02698	65.2562
	2274	Ranked		213.642	1.00542	214.801
6-phosphogluconolactonase (ec 3.1.1.31) (6pgl). [swissprot;acc:o95336]	899	Squared		29345.7	1.15875	34004.2
	1584	Ranked		216.891	1.01633	220.432
	1627	Measured		6038.46	1.07046	6463.9
	2366	Rooted		62.9164	1.01725	64.002
6-pyruvoyl tetrahydrobiopterin synthase (ec 4.2.3.12) (ptps) (ptp synthase). [swissprot;acc:q03393]	2904	Measured		0.00001	1	0.00001
		Ranked
		Squared
		Rooted
60 kda heat shock protein, mitochondrial precursor (hsp60) (60 kda chaperonin) (cpn60) (heat shock protein 60) (hsp-60) (mitochondrial matrix protein p1) (p60 lymphocyte protein) (hucha60). [swissprot;acc:p10809]	1238	Squared		23538.3	1.13485	26712.4
	1313	Measured		5457.14	1.08112	5899.85
	1830	Rooted		60.2038	1.03036	62.0316
	2588	Ranked		222.305	1.00151	222.64
60 kda tat interactive protein (tip60) (hiv-1 tat interactive protein) (cpla(2) interacting protein). [swissprot;acc:q92993]	821	Rooted		61.3164	1.06394	65.2371
	826	Ranked		223.186	1.04335	213.912
	1751	Measured		6011.57	1.06711	6414.98
	2621	Squared		31749.4	1.03095	30796.3
60s acidic ribosomal protein p0 (l10e). [swissprot;acc:p05388]	1092	Ranked		226.203	1.02941	232.855
	2254	Squared		22719.3	1.08197	24581.5
	2258	Measured		5150.31	1.04616	5388.05
	2720	Rooted		58.3416	1.00112	58.4068
60s acidic ribosomal protein p1. [swissprot;acc:p05386]	233	Ranked	0	9586.97	1.1015	10560
	313	Measured		6131.07	1.09921	6739.34
	377	Rooted		45.8794	1.03908	47.6722
	381	Squared		49458.1	1.10427	54614.9
	898	Ranked	1	229.171	1.03874	238.048
	2326	Squared		20706.1	1.07514	22261.9
	2418	Measured		4857.03	1.03763	5039.78
	2564	Rooted		56.832	1.00907	56.3214
60s acidic ribosomal protein p2. [swissprot;acc:p05387]	720	Ranked		231.92	1.05396	244.435
	1708	Rooted		56.1247	1.03266	54.3497
	2743	Measured		4824.49	1.0022	4813.92
	2745	Squared		21770.6	1.00342	21696.3
60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635]	199	Ranked	0	11781.8	1.11721	10545.7
	261	Rooted		22.315	1.10328	24.6198

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.