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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 463 to 512 of 3730 in total
Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence
Rank
description
Filtered
red
green
network_comparison
232 60s ribosomal protein l17 (l23). [swissprot;acc:p18621] 0 1663.73 1906.28 1.14579
dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430] 1 9035 7279.6 1.24114
233 maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168] 0 348.823 399.534 1.14538
myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3] 1 9035 7279.6 1.24114
234 ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424] 5181.2 6410.58 1.23728
wiskott-aldrich syndrome protein family member 3 (wasp-family protein member 3) (verprolin homology domain-containing protein 3). [swissprot;acc:q9upy6] 0 5202.89 4550.64 1.14333
235 integrin beta-3 precursor (platelet membrane glycoprotein iiia) (gpiiia) (cd61 antigen). [swissprot;acc:p05106] 1612.86 1843.92 1.14326
ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464] 1 5181.2 6410.58 1.23728
236 peroxisomal acyl-coenzyme a thioester hydrolase 2a (ec 3.1.2.2) (peroxisomal long-chain acyl-coa thioesterase 2) (zap128). [swissprot;acc:p49753] 0 2715.75 3103.01 1.1426
spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834] 1 4723.53 5828.46 1.23392
237 p28 ing5. [refseq;acc:nm_032329] 0 2551.23 2243.69 1.13707
u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9] 1 4567.04 5631.2 1.23301
238 casein kinase i alpha s-like. [refseq;acc:nm_145203] 0 2198.47 1933.94 1.13678
protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712] 1 27642.5 22440.4 1.23182
239 carboxypeptidase b precursor. [refseq;acc:nm_020361] 7711.38 6265.8 1.23071
guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] 0 382.142 434.366 1.13666
240 mast cell carboxypeptidase a precursor (ec 3.4.17.1) (mc-cpa) (carboxypeptidase a3). [swissprot;acc:p15088] 1 7711.36 6265.79 1.23071
putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642] 0 1475.83 1676.18 1.13575
241 keratin associated protein 9.2. [refseq;acc:nm_031961] 1225.47 1079.01 1.13574
plasma carboxypeptidase b2 isoform a preproprotein; carboxypeptidase u; thrombin-activatable fibrinolysis inhibitor; carboxypeptidase b-like protein; thrombin-activable fibrinolysis inhibitor. [refseq;acc:nm_001872] 1 7711.31 6265.76 1.23071
242 max protein. [swissprot;acc:p25912] 4640.26 5704.87 1.22943
splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393] 0 729.216 642.343 1.13524
243 homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839] 1 4246.95 5208.98 1.22652
keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4] 0 1225.09 1079.36 1.13502
244 keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184]
ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807] 1 4250.14 5211.25 1.22614
245 homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272] 4251.65 5212.33 1.22595
keratin associated protein 1.5. [refseq;acc:nm_031957] 0 1225.09 1079.36 1.13502
246 homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838] 1 4252.66 5213.05 1.22583
keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371] 0 1225.09 1079.36 1.13502
247 keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966]
wiskott-aldrich syndrome protein (wasp). [swissprot;acc:p42768] 1 6416.68 7865.15 1.22574
248 keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060] 0 1225.09 1079.37 1.135
proto-oncogene c-crk (p38) (adapter molecule crk). [swissprot;acc:p46108] 1 6417.18 7859.6 1.22477
249 keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059] 0 1225.08 1079.37 1.135
tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [swissprot;acc:p42684] 1 6417.18 7859.59 1.22477
250 keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8] 0 1225.08 1079.37 1.135
proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931] 1 6417.18 7859.6 1.22477
251 keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854] 0 1225.08 1079.38 1.13498
tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [swissprot;acc:p08631] 1 6417.18 7859.6 1.22477
252 crk-like protein. [swissprot;acc:p46109]
star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095] 0 1225.08 1079.38 1.13498
253 espin. [refseq;acc:nm_031475] 1225.07
proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [swissprot;acc:p00519] 1 6417.18 7859.59 1.22477
254 40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] 0 1318.22 1495.66 1.13461
proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [swissprot;acc:p06241] 1 6417.18 7859.6 1.22477
255 40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 0 1317.84 1495.22 1.1346
proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [swissprot;acc:p09769] 1 6417.18 7859.6 1.22477
256 grb2-related adaptor protein 2 (gads protein) (growth factor receptor binding protein) (grblg) (grf40 adaptor protein) (grf-40) (grb-2-like protein) (grb2l) (grbx) (p38) (hematopoietic cell-associated adaptor protein grpl) (adapter protein grid) (sh3-sh2-sh3 adaptor mona). [swissprot;acc:o75791] 6417.19 7859.51 1.22476
keratin associated protein 9-4; keratin associated protein 9.4. [refseq;acc:nm_033191] 0 1224.65 1079.77 1.13418

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/