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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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Network Comparison Type Value Type Gene description Rank green network_comparison Filtered red Interaction Map
Results: HTML CSV LaTeX Showing element 68 to 117 of 3228 in total
Network Comparison Type  : Divided
Value Type  : Ranked
Filtered  : 1
Interaction Map  : High confidence
description
Rank
green
network_comparison
red
40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232] 387 264.11 1.09029 242.238
40s ribosomal protein s19. [swissprot;acc:p39019] 861 224.958 1.04031 234.025
40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880] 344 265.136 1.0973 241.625
40s ribosomal protein s20. [swissprot;acc:p17075] 342 267.21 1.09737 243.5
40s ribosomal protein s21. [swissprot;acc:p35265] 790 234.511 1.04578 224.244
40s ribosomal protein s23. [swissprot;acc:p39028] 324 268.195 1.09941 243.944
40s ribosomal protein s24 (s19). [swissprot;acc:p16632] 1690 227.184 1.0138 224.091
40s ribosomal protein s26. [swissprot;acc:p02383] 454 226.578 1.07779 210.224
40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [swissprot;acc:p42677] 1102 235.974 1.02847 229.442
40s ribosomal protein s28. [swissprot;acc:p25112] 1982 198.427 1.00966 200.343
40s ribosomal protein s29. [swissprot;acc:p30054] 277 267.642 1.10665 241.849
40s ribosomal protein s3. [swissprot;acc:p23396] 346 265.119 1.09729 241.612
40s ribosomal protein s30. [swissprot;acc:q05472] 1081 216.875 1.03027 223.44
40s ribosomal protein s3a. [swissprot;acc:p49241] 867 234.674 1.03981 225.689
40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 288 266.078 1.10517 240.758
40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] 287 266.079
40s ribosomal protein s5. [swissprot;acc:p46782] 366 265.756 1.09602 242.473
40s ribosomal protein s7 (s8). [swissprot;acc:p23821] 2149 219.366 1.00686 217.871
40s ribosomal protein s8. [swissprot;acc:p09058] 1397 214.049 1.02145 218.64
40s ribosomal protein s9. [swissprot;acc:p46781] 439 257.784 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] 789 234.511 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] 2232 214.194 1.00632 215.547
44050 protein. [refseq;acc:nm_178832] 2506 151.009 1.0025 151.386
45 kda calcium-binding protein precursor (cab45) (stromal cell-derived factor 4) (sdf-4). [swissprot;acc:q9brk5] 2147 207.862 1.00688 206.442
5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478] 879 203.954 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] 1769 225.734 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] 1021 214.409 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] 2491 195.08 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] 2754 210.642 1.00002 210.638
5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [swissprot;acc:q99707] 1921 219.386 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] 2532 190.812 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] 1822 243.085 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] 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 1.01067 240.317
6-phosphogluconate dehydrogenase, decarboxylating (ec 1.1.1.44). [swissprot;acc:p52209] 2274 214.801 1.00542 213.642
6-phosphogluconolactonase (ec 3.1.1.31) (6pgl). [swissprot;acc:o95336] 1584 220.432 1.01633 216.891
6-pyruvoyl tetrahydrobiopterin synthase (ec 4.2.3.12) (ptps) (ptp synthase). [swissprot;acc:q03393] 2904 0.00001 1 0.00001
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 1.00151 222.305
60 kda tat interactive protein (tip60) (hiv-1 tat interactive protein) (cpla(2) interacting protein). [swissprot;acc:q92993] 826 213.912 1.04335 223.186
60s acidic ribosomal protein p0 (l10e). [swissprot;acc:p05388] 1092 232.855 1.02941 226.203
60s acidic ribosomal protein p1. [swissprot;acc:p05386] 898 238.048 1.03874 229.171
60s acidic ribosomal protein p2. [swissprot;acc:p05387] 720 244.435 1.05396 231.92
60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635] 357 266.661 1.09683 243.12

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/