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

Results: HTML CSV LaTeX

Showing element 3180 to 3229 of 38536 in total

Filtered  : 1
Network Comparison Type  : Divided

description	Rank	Interaction Map	Value Type	red	green	network_comparison
aminoacylase-1 (ec 3.5.1.14) (n-acyl-l-amino-acid amidohydrolase) (acy-1). [swissprot;acc:q03154]	724	Low confidence	Ranked	201.765	196.371	1.02747
	1420	High confidence		203.979	208.229	1.02084
	2349		Measured	8353.97	8001.45	1.04406
	2479		Rooted	72.1147	71.2783	1.01173
	4594	Low confidence	Squared	44757.2	43959.6	1.01814
aminoadipate-semialdehyde synthase; lysine-ketoglutarate reductase /saccharopine dehydrogenase; lysine-2-oxoglutarate reductase; aminoadipic semialdehyde synthase. [refseq;acc:nm_005763]	379	High confidence		33010.8	40732.2	1.23391
	818		Measured	6807.78	7543.28	1.10804
	1319		Rooted	67.3443	70.1972	1.04236
	1863	Low confidence	Measured	8081.38	8345.43	1.03267
	2064	High confidence	Ranked	207.655	205.939	1.00833
	2651	Low confidence	Rooted	72.1132	74.5089	1.03322
	3212		Ranked	202.212	199.028	1.016
	4276		Squared	46510.6	45390.2	1.02468
aminomethyltransferase, mitochondrial precursor (ec 2.1.2.10) (glycine cleavage system t protein) (gcvt). [swissprot;acc:p48728]	1237		Measured	8314.67	8613.43	1.03593
	1317	High confidence	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
	2841	Low confidence	Rooted	74.2363	76.6619	1.03267
	2903		Ranked	196.135	192.845	1.01706
	4813		Squared	45843.7	45391.7	1.00996
ammecr1 protein. [refseq;acc:nm_015365]	1062	High confidence	Measured	5412.23	5913.4	1.0926
	1155		Rooted	59.9298	62.8125	1.0481
	1229	Low confidence	Measured	8614.27	8924.44	1.03601
	1577	High confidence	Ranked	222.585	218.982	1.01645
	1675		Squared	23713.7	26223.8	1.10585
	2922	Low confidence	Ranked	193.976	190.73	1.01702
	2953		Rooted	75.4744	77.9118	1.03229
	4999		Squared	49004.6	49046.2	1.00085
amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]	34	High confidence		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
	560	Low confidence	Measured	7980.85	8350.82	1.04636
	586		Rooted	71.9616	75.1214	1.04391
	799		Ranked	201.294	196.11	1.02643
	4787		Squared	45089.2	44575.6	1.01152
amphiphysin. [swissprot;acc:p49418]	840			46542.4	44304.4	1.05051
	2389		Ranked	202.089	198.416	1.01851
	2559		Rooted	72.0438	74.4539	1.03345
	3426		Measured	8063.62	8276.52	1.0264
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]	69		Rooted	60.7884	67.1136	1.10405
	79		Ranked	229.144	208.803	1.09742
	87	High confidence	Rooted	42.2825	54.9687	1.30003
	97		Measured	2820.51	3897.1	1.3817
	139		Ranked	271.752	225.68	1.20415
	170	Low confidence	Measured	6131.26	6633.65	1.08194
	892		Squared	34361.2	32745.9	1.04933
	2112	High confidence		11682.9	12711	1.088
amyloid beta a4 protein precursor (app) (abpp) (alzheimer's disease amyloid protein) (cerebral vascular amyloid peptide) (cvap) (protease nexin-ii) (pn-ii) (appi) (prea4) [contains: soluble app-alpha (s-app- alpha); soluble app-beta (s-app-beta); c99; beta-amyloid protein 42 (beta-app42); beta-amyloid protein 40 (beta-app40); c83; p3(42); p3(40); gamma-ctf(59) (gamma-secretase c-terminal fragment 59) (amyloid intracellular domain 59) (aid(59)); gamma-ctf(57) (gamma- secretase c-terminal fragment 57) (amyloid intracellular domain 57) (aid(57)); gamma-ctf(50) (gamma-secretase c-terminal fragment 50) (amyloid intracellular domain 50) (aid(50)); c31]. [swissprot;acc:p05067]	508	Low confidence	Ranked	205.157	198.715	1.03242

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.