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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 66312 in total

Filtered  : 1

description	Network Comparison Type	Rank	Hugo	Value Type	Interaction Map	network_comparison	red	green
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	Divided	18	GBE1	Ranked	High confidence	1.32082	185.678	245.247
		60		Measured		1.6231	4489.19	2765.82
		64		Rooted		1.35128	63.8686	47.2654
		245		Squared		1.31131	8875.01	6768.05
		1119			Low confidence	1.04654	43628.5	41688.5
		4130		Ranked		1.01062	199.383	201.5
		4914		Measured		1.00597	7853.62	7900.54
				Rooted		1.00944	71.9496	72.6287
	Subtracted	54		Ranked	High confidence	59.569	185.678	245.247
		67		Rooted		16.6032	63.8686	47.2654
		164		Measured		1723.37	4489.19	2765.82
		1423		Squared	Low confidence	1940	43628.5	41688.5
		1962			High confidence	2106.96	8875.01	6768.05
		4141		Ranked	Low confidence	2.117	199.383	201.5
		4909		Measured		46.92	7853.62	7900.54
		4919		Rooted		0.6791	71.9496	72.6287
1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (ec 2.3.1.51) (1- agp acyltransferase 1) (1-agpat 1) (lysophosphatidic acid acyltransferase-alpha) (lpaat-alpha) (1-acylglycerol-3-phosphate o- acyltransferase 1) (g15 protein). [swissprot;acc:q99943]	Divided	295	no value	Squared	High confidence	1.27733	30807.7	39351.7
		509		Measured		1.14278	7551.8	8630.06
		805		Rooted		1.0645	74.3557	79.1513
		885		Measured	Low confidence	1.03993	8255.95	8585.64
		1038		Ranked	High confidence	1.03148	186.741	181.041
		1092		Rooted	Low confidence	1.0386	73.5001	76.3375
		1328		Ranked		1.02218	198.342	194.038
		4562		Squared		1.01928	46617.7	45736
	Subtracted	274			High confidence	8544	30807.7	39351.7
		310		Measured		1078.26	7551.8	8630.06
		610		Rooted		4.7956	74.3557	79.1513
		780		Measured	Low confidence	329.69	8255.95	8585.64
		980		Rooted		2.8374	73.5001	76.3375
		1120		Ranked	High confidence	5.7	186.741	181.041
		1408			Low confidence	4.304	198.342	194.038
		4514		Squared		881.7	46617.7	45736
1-acyl-sn-glycerol-3-phosphate acyltransferase beta (ec 2.3.1.51) (1- agp acyltransferase 2) (1-agpat 2) (lysophosphatidic acid acyltransferase-beta) (lpaat-beta) (1-acylglycerol-3-phosphate o- acyltransferase 2). [swissprot;acc:o15120]	Divided	294	AGPAT2		High confidence	1.2776	30826.5	39383.9
		508		Measured		1.14293	7556.75	8636.87
		804		Rooted		1.0646	74.3877	79.1931
		880		Measured	Low confidence	1.04001	8256.68	8587.03
		1032		Ranked	High confidence	1.03162	186.664	180.943
		1084		Rooted	Low confidence	1.03863	73.5068	76.3467
		1322		Ranked		1.0222	198.322	194.014
		4569		Squared		1.01914	46616.1	45740.5
	Subtracted	273			High confidence	8557.4	30826.5	39383.9
		307		Measured		1080.12	7556.75	8636.87
		609		Rooted		4.8054	74.3877	79.1931
		773		Measured	Low confidence	330.35	8256.68	8587.03
		977		Rooted		2.8399	73.5068	76.3467
		1115		Ranked	High confidence	5.721	186.664	180.943
		1406			Low confidence	4.308	198.322	194.014
		4523		Squared		875.6	46616.1	45740.5
1-acyl-sn-glycerol-3-phosphate acyltransferase delta (ec 2.3.1.51) (1- agp acyltransferase 4) (1-agpat 4) (lysophosphatidic acid acyltransferase-delta) (lpaat-delta) (1-acylglycerol-3-phosphate o- acyltransferase 4). [swissprot;acc:q9nrz5]	Divided	237	AGPAT4	Measured		1.06457	8530.51	9081.29
		311		Squared	High confidence	1.27154	30566.4	38866.5

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
- Hugo is the HGNC identifier if it exists
- 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.