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

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Showing element 1101 to 1150 of 3730 in total

Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence

description	Filtered	Rank	red	network_comparison	green
epididymal secretory protein e1 precursor (niemann-pick disease type c2 protein) (epi-1) (he1) (epididymal secretory protein 14.6) (esp14.6). [swissprot;acc:q15668]	1	872	6781.05	1.1031	7480.15
epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830]		2173	3641.4	1.05153	3462.96
epoxide hydrolase 1 (ec 3.3.2.3) (microsomal epoxide hydrolase) (epoxide hydratase). [swissprot;acc:p07099]		1573	11785.4	1.07186	10995.3
epsin 1; eh domain-binding mitotic phosphoprotein. [refseq;acc:nm_013333]		1801	5881.33	1.06584	6268.57
epsin 2 isoform b; eps15 binding protein. [refseq;acc:nm_014964]		1794	5948.26	1.06634	6342.84
epsin 3. [refseq;acc:nm_017957]		1809	5816.12	1.06535	6196.21
ergic-53 protein precursor (er-golgi intermediate compartment 53 kda protein) (lectin, mannose-binding 1) (gp58) (intracellular mannose specific lectin mr60). [swissprot;acc:p49257]		3177	0.00001	1	0.00001
ero1-like. [refseq;acc:nm_014584]	0	20	82	8200000
	1	855	6562.98	1.10352	7242.37
erythroid differentiation and denucleation factor 1. [swissprot;acc:o60584]		2128	5328.73	1.05402	5616.59
erythroid differentiation-related factor 1. [refseq;acc:nm_015608]		3095	0.00001	1	0.00001
espin. [refseq;acc:nm_031475]	0	253	1225.07	1.13498	1079.38
	1	1876	6076.66	1.0636	6463.12
esterase d (ec 3.1.1.1). [swissprot;acc:p10768]		2250	6834.03	1.04677	7153.66
estradiol 17 beta-dehydrogenase 1 (ec 1.1.1.62) (17-beta-hsd 1) (placental 17-beta-hydroxysteroid dehydrogenase) (20 alpha- hydroxysteroid dehydrogenase) (20-alpha-hsd) (e2dh). [swissprot;acc:p14061]	0	375	2323.8	1.05527	2452.23
	1	2520	5964.17	1.02511	6113.96
estradiol 17 beta-dehydrogenase 4 (ec 1.1.1.62) (17-beta-hsd 4) (17-beta-hydroxysteroid dehydrogenase 4). [swissprot;acc:p51659]		2538	7121.07	1.02325	7286.61
estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [swissprot;acc:o75454]	0	119	633.85	1.37734	460.2
	1	902	10246.1	1.10147	11285.8
ethanolamine kinase (ec 2.7.1.82) (eki). [swissprot;acc:q9hbu6]		2328	6773.67	1.04456	7075.51
ethanolamine kinase-like protein eki2 (flj10761). [swissprot;acc:q9nvf9]		2327
ethanolamine-phosphate cytidylyltransferase (ec 2.7.7.14) (phosphorylethanolamine transferase) (ctp:phosphoethanolamine cytidylyltransferase). [swissprot;acc:q99447]	0	379	1927.62	1.05125	1833.64
	1	749	4565.34	1.11403	5085.92
eukaryotic initiation factor 4a-i (eif-4a-i) (eif4a-i). [swissprot;acc:p04765]		2868	0.00001	1	0.00001
eukaryotic initiation factor 4a-ii (eif-4a-ii) (eif4a-ii). [swissprot;acc:q14240]		2888
eukaryotic peptide chain release factor subunit 1 (erf1) (eukaryotic release factor 1) (tb3-1) (c11 protein). [swissprot;acc:p46055]		2621	5599.85	1.01485	5683
eukaryotic translation initiation factor 2 subunit 1 (eukaryotic translation initiation factor 2 alpha subunit) (eif-2-alpha) (eif- 2alpha) (eif-2a). [swissprot;acc:p05198]		2031	5060.82	1.05732	5350.93
eukaryotic translation initiation factor 2 subunit 2 (eukaryotic translation initiation factor 2 beta subunit) (eif-2-beta). [swissprot;acc:p20042]		1753	5423.67	1.06707	5787.46
eukaryotic translation initiation factor 2 subunit 3 (eukaryotic translation initiation factor 2 gamma subunit) (eif-2-gamma). [swissprot;acc:p41091]		1882	5490.24	1.06346	5838.67
eukaryotic translation initiation factor 3 subunit 10 (eif-3 theta) (eif3 p167) (eif3 p180) (eif3 p185) (eif3a). [swissprot;acc:q14152]		743	4131.04	1.11543	4607.9
eukaryotic translation initiation factor 3 subunit 11 (eif-3 p25) (eif3k) (muscle specific gene m9 protein) (ptd001) (hspc029) (arg134). [swissprot;acc:q9ubq5]		2127	5328.73	1.05402	5616.59
eukaryotic translation initiation factor 3 subunit 2 (eif-3 beta) (eif3 p36) (eif3i) (tgf-beta receptor interacting protein 1) (trip-1). [swissprot;acc:q13347]		612	3975.77	1.1281	4485.05
eukaryotic translation initiation factor 3 subunit 4 (eif-3 delta) (eif3 p44) (eif-3 rna-binding subunit) (eif3 p42) (eif3g). [swissprot;acc:o75821]		742	4131.04	1.11543	4607.9
eukaryotic translation initiation factor 3 subunit 6 interacting protein (hspc021/hspc025). [swissprot;acc:q9y262]		2133	5328.73	1.05402	5616.59
eukaryotic translation initiation factor 3 subunit 7 (eif-3 zeta) (eif3 p66) (eif3d). [swissprot;acc:o15371]		1597	5665.34	1.07148	6070.32
eukaryotic translation initiation factor 3 subunit 8 (eif3 p110) (eif3c). [swissprot;acc:q99613]		923	4057.54	1.09861	4457.66
eukaryotic translation initiation factor 3 subunit 9 (eif-3 eta) (eif3 p116) (eif3 p110) (eif3b). [swissprot;acc:p55884]		684	4359.82	1.11954	4880.99
eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]		186	4071.1	1.29001	5251.75
eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]		181	4068.56	1.29102	5252.6
eukaryotic translation initiation factor 4e (eif-4e) (eif4e) (mrna cap-binding protein) (eif-4f 25 kda subunit). [swissprot;acc:p06730]		393	4490.28	1.16301	5222.25
eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010]		273	3199.4	1.20985	3870.8
eukaryotic translation initiation factor 5a (eif-5a) (eif-4d) (rev- binding factor). [swissprot;acc:p10159]		1612	6212.98	1.07116	6655.12
eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [swissprot;acc:p56537]		506	3893.85	1.14308	4450.98
evolutionarily conserved g-patch domain containing. [refseq;acc:nm_018025]		1652	5944.24	1.06962	6358.1
evolutionarily conserved signaling intermediate in toll pathway; ecsit. [refseq;acc:nm_016581]		1537	6184.27	1.07328	6637.44
exocyst complex component exo70. [swissprot;acc:q9upt5]		2781	0.00001	1	0.00001
exocyst complex component sec10 (hsec10). [swissprot;acc:o00471]		1438	6721.25	1.07693	7238.34
exocyst complex component sec15a. [swissprot;acc:q8tag9]		1068	6201.54	1.09237	6774.35
exocyst complex component sec15b. [swissprot;acc:q9y2d4]		1083	6213.51	1.09198	6785.04
exocyst complex component sec3 (bm-012). [swissprot;acc:q9nv70]		2048	6036.68	1.05678	6379.44

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.