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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Gene description Rank Network Comparison Type Value Type network_comparison green Filtered Interaction Map red
Results: HTML CSV LaTeX Showing element 3180 to 3229 of 9634 in total
Network Comparison Type  : Divided
Value Type  : Ranked
description
Rank
network_comparison
green
Filtered
Interaction Map
red
galectin-8 (gal-8) (prostate carcinoma tumor antigen 1) (pcta-1) (po66 carbohydrate-binding protein) (po66-cbp). [swissprot;acc:o00214] 2637 1.01777 199.656 1 Low confidence 203.204
galectin-9 (hom-hd-21) (ecalectin). [swissprot;acc:o00182] 2122 1.00696 207.911 High confidence 206.473
2503 1.01817 195.119 Low confidence 198.665
gamma adducin (adducin-like protein 70). [swissprot;acc:q9uey8] 1467 1.02156 201.572 205.917
1934 1.00995 222.055 High confidence 224.264
gamma enolase (ec 4.2.1.11) (2-phospho-d-glycerate hydro-lyase) (neural enolase) (nse) (enolase 2). [swissprot;acc:p09104] 2360 1.00415 208.046 207.186
4637 1.00659 200.674 Low confidence 201.997
gamma-aminobutyric acid type b receptor, subunit 2 precursor (gaba-b receptor 2) (gaba-b-r2) (gb2) (gababr2) (g protein-coupled receptor 51) (gpr 51) (hg20). [swissprot;acc:o75899] 832 1.02599 198.895 204.064
gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [swissprot;acc:p14867] 628 1.05994 202.14 High confidence 214.256
2418 1.01846 199.444 Low confidence 203.126
gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p47869] 621 1.05994 202.14 High confidence 214.256
2412 1.01846 199.444 Low confidence 203.126
gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [swissprot;acc:p34903] 629 1.05994 202.14 High confidence 214.256
2419 1.01846 199.444 Low confidence 203.126
gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [swissprot;acc:p48169] 625 1.05994 202.14 High confidence 214.256
2416 1.01846 199.444 Low confidence 203.126
gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [swissprot;acc:q16445] 622 1.05994 202.14 High confidence 214.256
2413 1.01846 199.444 Low confidence 203.126
gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [swissprot;acc:p78334] 626 1.05994 202.14 High confidence 214.256
2417 1.01846 199.444 Low confidence 203.126
gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [swissprot;acc:q8n1c3] 620 1.05994 202.14 High confidence 214.256
2411 1.01846 199.444 Low confidence 203.126
gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507] 623 1.05994 202.14 High confidence 214.256
2415 1.01846 199.444 Low confidence 203.126
gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928] 618 1.05994 202.139 High confidence 214.256
2404 1.01847 199.443 Low confidence 203.126
gamma-butyrobetaine,2-oxoglutarate dioxygenase (ec 1.14.11.1) (gamma-butyrobetaine hydroxylase) (gamma-bbh). [swissprot;acc:o75936] 876 1.0256 198.658 203.744
1842 1.01115 210.113 High confidence 212.455
gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [refseq;acc:nm_080920] 838 1 0.00001 0 Low confidence 0.00001
5029 1
gamma-glutamyltransferase. [sptrembl;acc:q14390] 841 0
5053 1
gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [swissprot;acc:p19440] 842 0
5054 1
gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [swissprot;acc:p36268] 837 0
5020 1
gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [swissprot;acc:p36269] 843 0
5055 1
gamma-interferon inducible lysosomal thiol reductase precursor (gamma-interferon-inducible protein ip-30). [swissprot;acc:p13284] 3101 High confidence
4028 1.01152 198.325 Low confidence 200.61
gamma-sarcoglycan (gamma-sg) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q13326] 1026 1.02431 201.874 206.781
1181 1.02593 212.672 High confidence 218.186
gamma-snap-associated factor 1; rab11-interacting protein. [refseq;acc:nm_015470] 1817 1.01164 217.926 220.462
2278 1.01881 198.041 Low confidence 201.767
gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [swissprot;acc:q99747] 166 1.19058 249.187 High confidence 209.299
3246 1.01586 198.167 Low confidence 201.31
gamma-tubulin complex component 2 (gcp-2) (spindle pole body protein spc97 homolog) (hspc97) (hgcp2) (h103p). [swissprot;acc:q9bsj2] 2916 1.01702 197.365 200.725
gamma-tubulin complex component 3 (gcp-3) (spindle pole body protein spc98 homolog) (hspc98) (hgcp3) (h104p). [swissprot;acc:q96cw5] 3488 1.01499 197.562 200.524
gamma-tubulin complex component 5 (gcp-5). [swissprot;acc:q96rt8] 3065 1.01656 197.051 200.314
ganglioside induced differentiation associated protein 2; likely ortholog of mouse ganglioside-induced differentiation-associated-protein 2. [refseq;acc:nm_017686] 800 1.00553 9441.84 0 9389.91

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/