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

Results: HTML CSV LaTeX

Showing element 1051 to 1100 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

description	Rank	Value Type	red	green	network_comparison
alpha-soluble nsf attachment protein (snap-alpha) (n-ethylmaleimide- sensitive factor attachment protein, alpha). [swissprot;acc:p54920]	2683	Squared	24123.5	24679.6	1.02305
	2722	Measured	5603.24	5583.64	1.00351
alpha/beta hydrolase domain containing protein 1 isoform 2; lung alpha/beta hydrolase protein 1. [refseq;acc:nm_152870]	586	Squared	23526.4	27879.3	1.18502
	1134	Measured	5790.65	6303.92	1.08864
	1904	Rooted	63.4353	65.2789	1.02906
	1961	Ranked	211.633	213.703	1.00978
alpha/beta hydrolase domain containing protein 3; lung alpha/beta hydrolase 3. [refseq;acc:nm_138340]	584	Squared	23526.4	27879.3	1.18502
	1132	Measured	5790.65	6303.92	1.08864
	1902	Rooted	63.4353	65.2789	1.02906
	1959	Ranked	211.633	213.703	1.00978
alveolar soft part sarcoma chromosome region, candidate 1; aspl protein; renal cell carcinoma gene on chromosome 17; renal cell carcinoma, papillary, 17 gene; aspscr1/tfe3 fusion gene, included. [refseq;acc:nm_024083]	2829	Measured	0.00001	0.00001	1
		Ranked
		Squared
		Rooted
amidophosphoribosyltransferase precursor (ec 2.4.2.14) (glutamine phosphoribosylpyrophosphate amidotransferase) (atase) (gpat). [swissprot;acc:q06203]	637	Ranked	228.639	242.258	1.05957
	1503	Squared	18555.4	20672	1.11407
	1698	Rooted	56.6562	54.8538	1.03286
	2550	Measured	4725.79	4824.4	1.02087
aminoacylase-1 (ec 3.5.1.14) (n-acyl-l-amino-acid amidohydrolase) (acy-1). [swissprot;acc:q03154]	524	Squared	53174	44377.4	1.19822
	1420	Ranked	203.979	208.229	1.02084
	2349	Measured	8353.97	8001.45	1.04406
	2479	Rooted	72.1147	71.2783	1.01173
aminoadipate-semialdehyde synthase; lysine-ketoglutarate reductase /saccharopine dehydrogenase; lysine-2-oxoglutarate reductase; aminoadipic semialdehyde synthase. [refseq;acc:nm_005763]	379	Squared	33010.8	40732.2	1.23391
	818	Measured	6807.78	7543.28	1.10804
	1319	Rooted	67.3443	70.1972	1.04236
	2064	Ranked	207.655	205.939	1.00833
aminomethyltransferase, mitochondrial precursor (ec 2.1.2.10) (glycine cleavage system t protein) (gcvt). [swissprot;acc:p48728]	1317	Squared	25544.9	28816.9	1.12809
	1545	Measured	5945.96	6380.28	1.07304
	1877	Rooted	63.6973	65.5763	1.0295
	2544	Ranked	212.67	212.262	1.00192
ammecr1 protein. [refseq;acc:nm_015365]	1062	Measured	5412.23	5913.4	1.0926
	1155	Rooted	59.9298	62.8125	1.0481
	1577	Ranked	222.585	218.982	1.01645
	1675	Squared	23713.7	26223.8	1.10585
amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]	34		9924.76	25146.6	2.53372
	52	Ranked	133	105	1.26667
	70	Measured	6475.5	10307.5	1.59177
	116	Rooted	80.4705	101.526	1.26165
amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410]	87		42.2825	54.9687	1.30003
	97	Measured	2820.51	3897.1	1.3817
	139	Ranked	271.752	225.68	1.20415
	2112	Squared	11682.9	12711	1.088
amyloid beta precursor protein-binding protein 1; amyloid protein-binding protein 1. [refseq;acc:nm_003905]	785		27407.7	31927.7	1.16492
	1909	Measured	6858.84	7287.27	1.06246
	2311	Rooted	70.5239	71.8706	1.0191
	2490	Ranked	194.527	195.08	1.00284
amyloid beta precursor protein-binding protein 2; amyloid beta precursor protein (cytoplasmic tail)-binding protein 2; protein interacting with app tail 1. [refseq;acc:nm_006380]	3191	Measured	0.00001	0.00001	1
		Ranked
		Squared
		Rooted

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.