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.


Navigation/Query Panel:
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 [...,...].
description Rank Gene Network Comparison Type network_comparison Value Type green Filtered red Interaction Map
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
red
Interaction Map
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 1 203.204 Low confidence
galectin-9 (hom-hd-21) (ecalectin). [swissprot;acc:o00182] 2122 1.00696 207.911 206.473 High confidence
2503 1.01817 195.119 198.665 Low confidence
gamma adducin (adducin-like protein 70). [swissprot;acc:q9uey8] 1467 1.02156 201.572 205.917
1934 1.00995 222.055 224.264 High confidence
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 200.674 201.997 Low confidence
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 202.14 214.256 High confidence
2418 1.01846 199.444 203.126 Low confidence
gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p47869] 621 1.05994 202.14 214.256 High confidence
2412 1.01846 199.444 203.126 Low confidence
gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [swissprot;acc:p34903] 629 1.05994 202.14 214.256 High confidence
2419 1.01846 199.444 203.126 Low confidence
gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [swissprot;acc:p48169] 625 1.05994 202.14 214.256 High confidence
2416 1.01846 199.444 203.126 Low confidence
gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [swissprot;acc:q16445] 622 1.05994 202.14 214.256 High confidence
2413 1.01846 199.444 203.126 Low confidence
gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [swissprot;acc:p78334] 626 1.05994 202.14 214.256 High confidence
2417 1.01846 199.444 203.126 Low confidence
gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [swissprot;acc:q8n1c3] 620 1.05994 202.14 214.256 High confidence
2411 1.01846 199.444 203.126 Low confidence
gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507] 623 1.05994 202.14 214.256 High confidence
2415 1.01846 199.444 203.126 Low confidence
gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928] 618 1.05994 202.139 214.256 High confidence
2404 1.01847 199.443 203.126 Low confidence
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 210.113 212.455 High confidence
gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [refseq;acc:nm_080920] 838 1 0.00001 0 0.00001 Low confidence
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 198.325 200.61 Low confidence
gamma-sarcoglycan (gamma-sg) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q13326] 1026 1.02431 201.874 206.781
1181 1.02593 212.672 218.186 High confidence
gamma-snap-associated factor 1; rab11-interacting protein. [refseq;acc:nm_015470] 1817 1.01164 217.926 220.462
2278 1.01881 198.041 201.767 Low confidence
gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [swissprot;acc:q99747] 166 1.19058 249.187 209.299 High confidence
3246 1.01586 198.167 201.31 Low confidence
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/