Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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
Results: HTML CSV LaTeX Showing element 101 to 150 of 3228 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
description
Rank
red
green
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 194.527 195.08 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 210.638 210.642 1.00002
5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [swissprot;acc:q99707] 1921 221.607 219.386 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 190.405 190.812 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 240.32 243.085 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 240.317 242.881 1.01067
6-phosphogluconate dehydrogenase, decarboxylating (ec 1.1.1.44). [swissprot;acc:p52209] 2274 213.642 214.801 1.00542
6-phosphogluconolactonase (ec 3.1.1.31) (6pgl). [swissprot;acc:o95336] 1584 216.891 220.432 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 222.305 222.64 1.00151
60 kda tat interactive protein (tip60) (hiv-1 tat interactive protein) (cpla(2) interacting protein). [swissprot;acc:q92993] 826 223.186 213.912 1.04335
60s acidic ribosomal protein p0 (l10e). [swissprot;acc:p05388] 1092 226.203 232.855 1.02941
60s acidic ribosomal protein p1. [swissprot;acc:p05386] 898 229.171 238.048 1.03874
60s acidic ribosomal protein p2. [swissprot;acc:p05387] 720 231.92 244.435 1.05396
60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635] 357 243.12 266.661 1.09683
60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025] 356 243.24 266.796 1.09684
60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7] 373 242.37 265.255 1.09442
60s ribosomal protein l11. [swissprot;acc:p39026] 283 241.828 267.346 1.10552
60s ribosomal protein l12 like protein. [sptrembl;acc:o60886] 338 243.583 267.528 1.0983
60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815] 369 242.159 265.104 1.09475
60s ribosomal protein l12. [swissprot;acc:p30050] 337 243.583 267.527 1.0983
60s ribosomal protein l13, mitochondrial (l13mt). [swissprot;acc:q9byd1] 390 241.828 263.62 1.09011
60s ribosomal protein l13a (23 kda highly basic protein). [swissprot;acc:p40429] 392 241.83 263.615 1.09008
60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] 306 242.153 266.673 1.10126
60s ribosomal protein l15. [swissprot;acc:p39030] 604 217.862 230.978 1.0602
60s ribosomal protein l17 (l23). [swissprot;acc:p18621] 281 241.808 267.335 1.10557
60s ribosomal protein l18. [swissprot;acc:q07020] 485 237.109 254.667 1.07405
60s ribosomal protein l18a. [swissprot;acc:q02543] 860 234.025 224.958 1.04031
60s ribosomal protein l19. [swissprot;acc:p14118] 319 240.73 264.729 1.09969
60s ribosomal protein l21. [swissprot;acc:p46778] 1054 223.958 217.263 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 199.129 200.413 1.00645
60s ribosomal protein l23 (l17). [swissprot;acc:p23131] 293 240.782 265.717 1.10356
60s ribosomal protein l23a. [swissprot;acc:p29316] 323 241.884 265.945 1.09947
60s ribosomal protein l24 (l30). [swissprot;acc:p38663] 1767 201.288 198.86 1.01221
60s ribosomal protein l26. [swissprot;acc:q02877] 302 242.326 267.008 1.10185
60s ribosomal protein l28. [swissprot;acc:p46779] 1882 215.896 213.61 1.0107
60s ribosomal protein l29 (cell surface heparin binding protein hip). [swissprot;acc:p47914] 2664 204.768 204.549 1.00107
60s ribosomal protein l3-like. [swissprot;acc:q92901] 312 242.195 266.663 1.10103
60s ribosomal protein l30. [swissprot;acc:p04645] 378 242.593 265.365 1.09387
60s ribosomal protein l31. [swissprot;acc:p12947] 862 234.025 224.958 1.04031
60s ribosomal protein l32. [swissprot;acc:p02433] 276 241.13 266.969 1.10716
60s ribosomal protein l34, mitochondrial precursor (l34mt). [swissprot;acc:q9bq48] 1333 220.681 215.78 1.02271
60s ribosomal protein l34. [swissprot;acc:p49207] 308 242.153 266.673 1.10126
60s ribosomal protein l35. [swissprot;acc:p42766] 303 242.333 266.999 1.10179
60s ribosomal protein l36, mitochondrial precursor (l36mt) (brca1- interacting protein 1). [swissprot;acc:q9p0j6] 365 242.744 266.07 1.09609
60s ribosomal protein l37 (g1.16). [swissprot;acc:p02403] 635 228.639 242.258 1.05957
60s ribosomal protein l37a. [swissprot;acc:p12751] 2959 0.00001 0.00001 1
60s ribosomal protein l39. [swissprot;acc:p02404] 859 234.025 224.958 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.
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