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 - 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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Network Comparison Type Gene Value Type description green Rank network_comparison red Filtered Interaction Map
Results: HTML CSV LaTeX Showing element 58 to 107 of 3228 in total
Network Comparison Type  : Divided
Value Type  : Ranked
Filtered  : 1
Interaction Map  : High confidence
description
green
Rank
network_comparison
red
3-oxo-5-alpha-steroid 4-dehydrogenase 2 (ec 1.3.99.5) (steroid 5-alpha-reductase 2) (sr type 2) (5 alpha-sr2). [swissprot;acc:p31213] 213.685 1084 1.03011 220.118
3-phosphoinositide dependent protein kinase-1 (ec 2.7.1.37) (hpdk1). [swissprot;acc:o15530] 283.472 897 1.03882 272.878
38 kda fk-506 binding protein homolog (fkbpr38) (fk506-binding protein 8). [swissprot;acc:q14318] 197.346 2358 1.00423 198.181
4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404] 222.215 1745 1.01272 219.423
40s ribosomal protein s11. [swissprot;acc:p04643] 267.088 278 1.10642 241.399
40s ribosomal protein s13. [swissprot;acc:q02546] 223.813 1722 1.01319 220.899
40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366] 264.11 386 1.09029 242.238
40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] 266.986 304 1.1017 242.339
40s ribosomal protein s15a. [swissprot;acc:p39027] 266.414 292 1.10357 241.411
40s ribosomal protein s16. [swissprot;acc:p17008] 263.62 391 1.09011 241.828
40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232] 264.11 387 1.09029 242.238
40s ribosomal protein s19. [swissprot;acc:p39019] 224.958 861 1.04031 234.025
40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880] 265.136 344 1.0973 241.625
40s ribosomal protein s20. [swissprot;acc:p17075] 267.21 342 1.09737 243.5
40s ribosomal protein s21. [swissprot;acc:p35265] 234.511 790 1.04578 224.244
40s ribosomal protein s23. [swissprot;acc:p39028] 268.195 324 1.09941 243.944
40s ribosomal protein s24 (s19). [swissprot;acc:p16632] 227.184 1690 1.0138 224.091
40s ribosomal protein s26. [swissprot;acc:p02383] 226.578 454 1.07779 210.224
40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677] 235.974 1102 1.02847 229.442
40s ribosomal protein s28. [swissprot;acc:p25112] 198.427 1982 1.00966 200.343
40s ribosomal protein s29. [swissprot;acc:p30054] 267.642 277 1.10665 241.849
40s ribosomal protein s3. [swissprot;acc:p23396] 265.119 346 1.09729 241.612
40s ribosomal protein s30. [swissprot;acc:q05472] 216.875 1081 1.03027 223.44
40s ribosomal protein s3a. [swissprot;acc:p49241] 234.674 867 1.03981 225.689
40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 266.078 288 1.10517 240.758
40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] 266.079 287
40s ribosomal protein s5. [swissprot;acc:p46782] 265.756 366 1.09602 242.473
40s ribosomal protein s7 (s8). [swissprot;acc:p23821] 219.366 2149 1.00686 217.871
40s ribosomal protein s8. [swissprot;acc:p09058] 214.049 1397 1.02145 218.64
40s ribosomal protein s9. [swissprot;acc:p46781] 257.784 439 1.07866 238.986
40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865] 234.511 789 1.04578 224.244
43 kda receptor-associated protein of the synapse (rapsyn) (acetylcholine receptor-associated 43 kda protein) (43 kda postsynaptic protein). [swissprot;acc:q13702] 214.194 2232 1.00632 215.547
44050 protein. [refseq;acc:nm_178832] 151.009 2506 1.0025 151.386
45 kda calcium-binding protein precursor (cab45) (stromal cell-derived factor 4) (sdf-4). [swissprot;acc:q9brk5] 207.862 2147 1.00688 206.442
5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478] 203.954 879 1.03946 212.002
5'-amp-activated protein kinase, beta-2 subunit (ampk beta-2 chain). [swissprot;acc:o43741] 877
5'-amp-activated protein kinase, catalytic alpha-1 chain (ec 2.7.1.-) (ampk alpha-1 chain). [swissprot;acc:q13131] 876
5'-amp-activated protein kinase, catalytic alpha-2 chain (ec 2.7.1.-) (ampk alpha-2 chain). [swissprot;acc:p54646] 875
5'-amp-activated protein kinase, gamma-1 subunit (ampk gamma-1 chain) (ampkg). [swissprot;acc:p54619] 874
5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [swissprot;acc:q9ugj0] 880
5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [swissprot;acc:q9ugi9] 878
5'-methylthioadenosine phosphorylase (ec 2.4.2.28) (mta phosphorylase) (mtapase). [swissprot;acc:q13126] 225.734 1769 1.01219 223.016
5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643] 214.409 1021 1.03204 221.278
5-aminolevulinic acid synthase, erythroid-specific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-e). [swissprot;acc:p22557] 195.08 2491 1.00284 194.527
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] 210.642 2754 1.00002 210.638
5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [swissprot;acc:q99707] 219.386 1921 1.01012 221.607
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] 190.812 2532 1.00214 190.405
6-phosphofructokinase, liver type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme b) (pfk-b). [swissprot;acc:p17858] 243.085 1822 1.01151 240.32
6-phosphofructokinase, muscle type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme a) (pfk-a) (phosphofructokinase-m). [swissprot;acc:p08237] 243.069 1830 1.01144

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.
- http://analysis.yellowcouch.org/