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

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Showing element 101 to 150 of 3228 in total

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

description	Rank	green	red	network_comparison
5-aminolevulinic acid synthase, erythroid-specific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-e). [swissprot;acc:p22557]	2491	195.08	194.527	1.00284
5-aminolevulinic acid synthase, nonspecific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-h). [swissprot;acc:p13196]	2496
5-formyltetrahydrofolate cyclo-ligase (ec 6.3.3.2) (5,10-methenyl- tetrahydrofolate synthetase) (methenyl-thf synthetase) (mthfs). [swissprot;acc:p49914]	2754	210.642	210.638	1.00002
5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [swissprot;acc:q99707]	1921	219.386	221.607	1.01012
54 kda nuclear rna- and dna-binding protein (p54(nrb)) (p54nrb) (55 kda nuclear protein) (nmt55) (non-pou domain-containing octamer- binding protein) (dna-binding p52/p100 complex, 52 kda subunit). [swissprot;acc:q15233]	2532	190.812	190.405	1.00214
6-phosphofructokinase, liver type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme b) (pfk-b). [swissprot;acc:p17858]	1822	243.085	240.32	1.01151
6-phosphofructokinase, muscle type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme a) (pfk-a) (phosphofructokinase-m). [swissprot;acc:p08237]	1830	243.069		1.01144
6-phosphofructokinase, type c (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme c) (pfk-c) (6-phosphofructokinase, platelet type). [swissprot;acc:q01813]	1883	242.881	240.317	1.01067
6-phosphogluconate dehydrogenase, decarboxylating (ec 1.1.1.44). [swissprot;acc:p52209]	2274	214.801	213.642	1.00542
6-phosphogluconolactonase (ec 3.1.1.31) (6pgl). [swissprot;acc:o95336]	1584	220.432	216.891	1.01633
6-pyruvoyl tetrahydrobiopterin synthase (ec 4.2.3.12) (ptps) (ptp synthase). [swissprot;acc:q03393]	2904	0.00001	0.00001	1
60 kda heat shock protein, mitochondrial precursor (hsp60) (60 kda chaperonin) (cpn60) (heat shock protein 60) (hsp-60) (mitochondrial matrix protein p1) (p60 lymphocyte protein) (hucha60). [swissprot;acc:p10809]	2588	222.64	222.305	1.00151
60 kda tat interactive protein (tip60) (hiv-1 tat interactive protein) (cpla(2) interacting protein). [swissprot;acc:q92993]	826	213.912	223.186	1.04335
60s acidic ribosomal protein p0 (l10e). [swissprot;acc:p05388]	1092	232.855	226.203	1.02941
60s acidic ribosomal protein p1. [swissprot;acc:p05386]	898	238.048	229.171	1.03874
60s acidic ribosomal protein p2. [swissprot;acc:p05387]	720	244.435	231.92	1.05396
60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635]	357	266.661	243.12	1.09683
60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025]	356	266.796	243.24	1.09684
60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7]	373	265.255	242.37	1.09442
60s ribosomal protein l11. [swissprot;acc:p39026]	283	267.346	241.828	1.10552
60s ribosomal protein l12 like protein. [sptrembl;acc:o60886]	338	267.528	243.583	1.0983
60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815]	369	265.104	242.159	1.09475
60s ribosomal protein l12. [swissprot;acc:p30050]	337	267.527	243.583	1.0983
60s ribosomal protein l13, mitochondrial (l13mt). [swissprot;acc:q9byd1]	390	263.62	241.828	1.09011
60s ribosomal protein l13a (23 kda highly basic protein). [swissprot;acc:p40429]	392	263.615	241.83	1.09008
60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]	306	266.673	242.153	1.10126
60s ribosomal protein l15. [swissprot;acc:p39030]	604	230.978	217.862	1.0602
60s ribosomal protein l17 (l23). [swissprot;acc:p18621]	281	267.335	241.808	1.10557
60s ribosomal protein l18. [swissprot;acc:q07020]	485	254.667	237.109	1.07405
60s ribosomal protein l18a. [swissprot;acc:q02543]	860	224.958	234.025	1.04031
60s ribosomal protein l19. [swissprot;acc:p14118]	319	264.729	240.73	1.09969
60s ribosomal protein l21. [swissprot;acc:p46778]	1054	217.263	223.958	1.03082
60s ribosomal protein l22 (epstein-barr virus small rna associated protein) (eber associated protein) (eap) (heparin binding protein hbp15). [swissprot;acc:p35268]	2205	200.413	199.129	1.00645
60s ribosomal protein l23 (l17). [swissprot;acc:p23131]	293	265.717	240.782	1.10356
60s ribosomal protein l23a. [swissprot;acc:p29316]	323	265.945	241.884	1.09947
60s ribosomal protein l24 (l30). [swissprot;acc:p38663]	1767	198.86	201.288	1.01221
60s ribosomal protein l26. [swissprot;acc:q02877]	302	267.008	242.326	1.10185
60s ribosomal protein l28. [swissprot;acc:p46779]	1882	213.61	215.896	1.0107
60s ribosomal protein l29 (cell surface heparin binding protein hip). [swissprot;acc:p47914]	2664	204.549	204.768	1.00107
60s ribosomal protein l3-like. [swissprot;acc:q92901]	312	266.663	242.195	1.10103
60s ribosomal protein l30. [swissprot;acc:p04645]	378	265.365	242.593	1.09387
60s ribosomal protein l31. [swissprot;acc:p12947]	862	224.958	234.025	1.04031
60s ribosomal protein l32. [swissprot;acc:p02433]	276	266.969	241.13	1.10716
60s ribosomal protein l34, mitochondrial precursor (l34mt). [swissprot;acc:q9bq48]	1333	215.78	220.681	1.02271
60s ribosomal protein l34. [swissprot;acc:p49207]	308	266.673	242.153	1.10126
60s ribosomal protein l35. [swissprot;acc:p42766]	303	266.999	242.333	1.10179
60s ribosomal protein l36, mitochondrial precursor (l36mt) (brca1- interacting protein 1). [swissprot;acc:q9p0j6]	365	266.07	242.744	1.09609
60s ribosomal protein l37 (g1.16). [swissprot;acc:p02403]	635	242.258	228.639	1.05957
60s ribosomal protein l37a. [swissprot;acc:p12751]	2959	0.00001	0.00001	1
60s ribosomal protein l39. [swissprot;acc:p02404]	859	224.958	234.025	1.04031

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.