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.


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 [...,...].
Filtered Gene Rank network_comparison description Network Comparison Type green Value Type red Interaction Map
Results: HTML CSV LaTeX Showing element 51 to 100 of 38536 in total
Filtered  : 0
Network Comparison Type  : Divided
Rank
network_comparison
description
green
Value Type
red
Interaction Map
7 14096.2 jumonji protein. [swissprot;acc:q92833] 0.140962 Squared 0.00001 Low confidence
187479 homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] 1.87479 High confidence
231962 tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063] 0.00001 Measured 2.31962 Low confidence
608276 carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [refseq;acc:nm_004267] Rooted 6.08276
943398 homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] 9.43398 0.00001 High confidence
4300000 sedlin. [swissprot;acc:o14582] 43 Measured
8 1.68629 homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] 13216 Ranked 22286 Low confidence
1.89918 nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7] 21888 11525 High confidence
75.4118 ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] 6410 Measured 85 Low confidence
11098 19295.9 Squared 1.73869
159148 ero1-like. [refseq;acc:nm_014584] 0.00001 1.59148 High confidence
360555 homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099] Rooted 3.60555 Low confidence
905539 ero1-like. [refseq;acc:nm_014584] 9.05539 High confidence
4300000 synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296] 43 Measured 0.00001
9 1.68629 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 13216 Ranked 22286 Low confidence
1.89918 transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87] 21888 11525 High confidence
36.1876 ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607] 10.6048 Measured 383.762 Low confidence
75.4118 ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] 6410 85 High confidence
4000 homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099] 0.00001 Squared 0.04 Low confidence
85207.1 similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] 0.852071 High confidence
300407 jumonji protein. [swissprot;acc:q92833] 3.00407 Rooted 0.00001 Low confidence
774597 similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] 0.00001 7.74597 High confidence
10 1.68629 homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] 13216 Ranked 22286 Low confidence
1.88805 fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757] 14178.1 7509.39 High confidence
35.8425 serpin b12. [swissprot;acc:q96p63] 5.56738 Measured 199.549 Low confidence
75.4118 lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] 6410 85 High confidence
1084.62 ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607] 0.0577305 Squared 62.6156 Low confidence
82390.5 guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4] 0.823905 0.00001 High confidence
115981 tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063] 0.00001 Rooted 1.15981 Low confidence
768115 guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4] 7.68115 0.00001 High confidence
11 1.66289 ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] 8257 Ranked 13730.5 Low confidence
1.86092 potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110] 6248 11627 High confidence
8.67149 serpin b12. [swissprot;acc:q96p63] 1.18697 Rooted 10.2928 Low confidence
34.8539 hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8] 5.71669 Measured 199.249
35.8425 serpin b12. [swissprot;acc:q96p63] 5.56738 199.549 High confidence
813.196 0.0289898 Squared 23.5744 Low confidence
43763.3 sedlin. [swissprot;acc:o14582] 0.437633 0.00001 High confidence
655744 6.55744 Rooted
12 1.65028 anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801] 1933 Ranked 3190 Low confidence
1.81023 folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [swissprot;acc:q05932] 5208.84 9429.18 High confidence
8.45791 hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8] 1.2188 Rooted 10.3085 Low confidence
14.8103 mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849] 58 Measured 859
34.8539 hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8] 5.71669 199.249 High confidence
789.312 0.0297673 Squared 23.4957 Low confidence
43763.3 synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296] 0.437633 0.00001 High confidence
655744 6.55744 Rooted
13 1.63963 sorbitol dehydrogenase (ec 1.1.1.14) (l-iditol 2-dehydrogenase). [swissprot;acc:q00796] 12191.6 Ranked 7435.56 Low confidence
1.77804 heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107] 9264.5 5210.5 High confidence
7.72053 ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607] 2.21126 Rooted 17.0721 Low confidence
14.21 fk506-binding protein 6 (ec 5.2.1.8) (peptidyl-prolyl cis-trans isomerase) (ppiase) (rotamase) (36 kda fk506 binding protein) (fkbp- 36) (immunophilin fkbp36). [swissprot;acc:o75344] 115.385 Measured 8.11997

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/