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

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Showing element 951 to 1000 of 3228 in total

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

description	Rank	red	green	network_comparison
epsin 3. [refseq;acc:nm_017957]	1809	5816.12	6196.21	1.06535
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	0.00001	1
ero1-like. [refseq;acc:nm_014584]	855	6562.98	7242.37	1.10352
erythroid differentiation and denucleation factor 1. [swissprot;acc:o60584]	2128	5328.73	5616.59	1.05402
erythroid differentiation-related factor 1. [refseq;acc:nm_015608]	3095	0.00001	0.00001	1
espin. [refseq;acc:nm_031475]	1876	6076.66	6463.12	1.0636
esterase d (ec 3.1.1.1). [swissprot;acc:p10768]	2250	6834.03	7153.66	1.04677
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]	2520	5964.17	6113.96	1.02511
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	7286.61	1.02325
estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [swissprot;acc:o75454]	902	10246.1	11285.8	1.10147
ethanolamine kinase (ec 2.7.1.82) (eki). [swissprot;acc:q9hbu6]	2328	6773.67	7075.51	1.04456
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]	749	4565.34	5085.92	1.11403
eukaryotic initiation factor 4a-i (eif-4a-i) (eif4a-i). [swissprot;acc:p04765]	2868	0.00001	0.00001	1
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	5683	1.01485
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	5350.93	1.05732
eukaryotic translation initiation factor 2 subunit 2 (eukaryotic translation initiation factor 2 beta subunit) (eif-2-beta). [swissprot;acc:p20042]	1753	5423.67	5787.46	1.06707
eukaryotic translation initiation factor 2 subunit 3 (eukaryotic translation initiation factor 2 gamma subunit) (eif-2-gamma). [swissprot;acc:p41091]	1882	5490.24	5838.67	1.06346
eukaryotic translation initiation factor 3 subunit 10 (eif-3 theta) (eif3 p167) (eif3 p180) (eif3 p185) (eif3a). [swissprot;acc:q14152]	743	4131.04	4607.9	1.11543
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	5616.59	1.05402
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	4485.05	1.1281
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	4607.9	1.11543
eukaryotic translation initiation factor 3 subunit 6 interacting protein (hspc021/hspc025). [swissprot;acc:q9y262]	2133	5328.73	5616.59	1.05402
eukaryotic translation initiation factor 3 subunit 7 (eif-3 zeta) (eif3 p66) (eif3d). [swissprot;acc:o15371]	1597	5665.34	6070.32	1.07148
eukaryotic translation initiation factor 3 subunit 8 (eif3 p110) (eif3c). [swissprot;acc:q99613]	923	4057.54	4457.66	1.09861
eukaryotic translation initiation factor 3 subunit 9 (eif-3 eta) (eif3 p116) (eif3 p110) (eif3b). [swissprot;acc:p55884]	684	4359.82	4880.99	1.11954
eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]	186	4071.1	5251.75	1.29001
eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]	181	4068.56	5252.6	1.29102
eukaryotic translation initiation factor 4e (eif-4e) (eif4e) (mrna cap-binding protein) (eif-4f 25 kda subunit). [swissprot;acc:p06730]	393	4490.28	5222.25	1.16301
eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010]	273	3199.4	3870.8	1.20985
eukaryotic translation initiation factor 5a (eif-5a) (eif-4d) (rev- binding factor). [swissprot;acc:p10159]	1612	6212.98	6655.12	1.07116
eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [swissprot;acc:p56537]	506	3893.85	4450.98	1.14308
evolutionarily conserved g-patch domain containing. [refseq;acc:nm_018025]	1652	5944.24	6358.1	1.06962
evolutionarily conserved signaling intermediate in toll pathway; ecsit. [refseq;acc:nm_016581]	1537	6184.27	6637.44	1.07328
exocyst complex component exo70. [swissprot;acc:q9upt5]	2781	0.00001	0.00001	1
exocyst complex component sec10 (hsec10). [swissprot;acc:o00471]	1438	6721.25	7238.34	1.07693
exocyst complex component sec15a. [swissprot;acc:q8tag9]	1068	6201.54	6774.35	1.09237
exocyst complex component sec15b. [swissprot;acc:q9y2d4]	1083	6213.51	6785.04	1.09198
exocyst complex component sec3 (bm-012). [swissprot;acc:q9nv70]	2048	6036.68	6379.44	1.05678
exocyst complex component sec5. [swissprot;acc:q96kp1]	286	23316	19288.8	1.20878
exocyst complex component sec6. [swissprot;acc:o60645]	2135	7387.42	7785.45	1.05388
exocyst complex component sec8. [swissprot;acc:q96a65]	1311	6221.22	6727.77	1.08142
exonuclease 1 isoform b; rad2 nuclease family member, homolog of s. cerevisiae exonuclease 1. [refseq;acc:nm_006027]	2170	5825.61	6126.74	1.05169
exosome complex exonuclease rrp4 (ec 3.1.13.-) (ribosomal rna processing protein 4). [swissprot;acc:q13868]	2594	4921.84	5005.06	1.01691
exosome complex exonuclease rrp40 (ec 3.1.13.-) (ribosomal rna processing protein 40) (p10) (cgi-102). [swissprot;acc:q9nqt5]	2595
exosome complex exonuclease rrp41 (ec 3.1.13.-) (ribosomal rna processing protein 41) (p12a). [swissprot;acc:q9npd3]	2593
exosome complex exonuclease rrp46 (ec 3.1.13.-) (ribosomal rna processing protein 46) (p12b) (chronic myelogenous leukemia tumor antigen 28). [swissprot;acc:q9nqt4]	2596
exportin 1; exportin-1 (required for chromosome region maintenance); exportin 1 (crm1, yeast, homolog); crm1, yeast, homolog. [refseq;acc:nm_003400]	826	5195.58	5750.34	1.10678
eyes absent homolog 1. [swissprot;acc:q99502]	2268	5785.08	6051.03	1.04597

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.