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 [...,...].
Rank Gene Value Type description Filtered Network Comparison Type Interaction Map green red network_comparison
Results: HTML CSV LaTeX Showing element 3580 to 3629 of 8289 in total
Value Type  : Ranked
Filtered  : 1
Network Comparison Type  : Divided
Rank
description
Interaction Map
green
red
network_comparison
1790 dna topoisomerase ii, alpha isozyme (ec 5.99.1.3). [swissprot;acc:p11388] High confidence 201.349 203.759 1.01197
1791 elav-like protein 3 (hu-antigen c) (huc) (paraneoplastic cerebellar degeneration-associated antigen) (paraneoplastic limbic encephalitis antigen 21). [swissprot;acc:q14576] 215.295 217.866 1.01194
translin. [swissprot;acc:q15631] Low confidence 198.743 202.745 1.02014
1792 aquaporin 5. [swissprot;acc:p55064] 191.588 195.447
elav-like protein 4 (paraneoplastic encephalomyelitis antigen hud) (hu-antigen d). [swissprot;acc:p26378] High confidence 215.199 217.766 1.01193
1793 polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361] Low confidence 200.302 204.337 1.02014
putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361] High confidence 190.823 193.1 1.01193
1794 cda11 protein. [refseq;acc:nm_032026] Low confidence 195.403 199.338 1.02014
nucleoside diphosphate kinase b (ec 2.7.4.6) (ndk b) (ndp kinase b) (nm23-h2) (c-myc purine-binding transcription factor puf). [swissprot;acc:p22392] High confidence 190.861 193.138 1.01193
1795 elav-like protein 2 (hu-antigen b) (hub) (elav-like neuronal protein 1) (nervous system-specific rna binding protein hel-n1). [swissprot;acc:q12926] 215.158 217.724
lens fiber major intrinsic protein (mip26) (mp26) (aquaporin 0). [swissprot;acc:p30301] Low confidence 191.589 195.447 1.02014
1796 dna topoisomerase ii, beta isozyme (ec 5.99.1.3). [swissprot;acc:q02880] High confidence 201.357 203.759 1.01193
translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598] Low confidence 198.743 202.745 1.02014
1797 nucleoside diphosphate kinase a (ec 2.7.4.6) (ndk a) (ndp kinase a) (tumor metastatic process-associated protein) (metastasis inhibition factor nm23) (nm23-h1). [swissprot;acc:p15531] High confidence 190.834 193.111 1.01193
polyglutamine binding protein 1; nuclear protein containing ww domain 38 kd. [refseq;acc:nm_005710] Low confidence 198.743 202.745 1.02014
1798 26s proteasome non-atpase regulatory subunit 8 (26s proteasome regulatory subunit s14) (p31). [swissprot;acc:p48556] 196.088 200.037
elav-like protein 1 (hu-antigen r) (hur). [swissprot;acc:q15717] High confidence 215.242 217.807 1.01192
1799 alpha-actinin 2 (alpha actinin skeletal muscle isoform 2) (f-actin cross linking protein). [swissprot;acc:p35609] 214.481 217.016 1.01182
retinol dehydrogenase 8 (all-trans); photoreceptor outer segment all-trans retinol dehydrogenase. [refseq;acc:nm_015725] Low confidence 195.666 199.606 1.02014
1800 af-6 protein. [swissprot;acc:p55196] 199.529 203.545 1.02013
dual-specificity tyrosine-phosphorylation regulated kinase 1a (ec 2.7.1.-) (protein kinase minibrain homolog) (mnbh) (hp86) (dual specificity yak1-related kinase). [swissprot;acc:q13627] High confidence 214.481 217.011 1.0118
1801 cug triplet repeat rna-binding protein 1 (cug-bp1) (rna-binding protein brunol-2) (deadenylation factor cug-bp) (50 kda nuclear polyadenylated rna-binding protein) (eden-bp). [swissprot;acc:q92879] 215.441 217.984
dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [swissprot;acc:q9y2s0] Low confidence 192.879 196.761 1.02013
1802 elongation protein 4 homolog; pax6 neighbor gene; chromosome 11 open reading frame 19. [refseq;acc:nm_019040] High confidence 214.481 217.011 1.0118
estradiol 17 beta-dehydrogenase 1 (ec 1.1.1.62) (17-beta-hsd 1) (placental 17-beta-hydroxysteroid dehydrogenase) (20 alpha- hydroxysteroid dehydrogenase) (20-alpha-hsd) (e2dh). [swissprot;acc:p14061] Low confidence 195.657 199.594 1.02012
1803 17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034] 195.655 199.592
dual-specificity tyrosine-phosphorylation regulated kinase 1b (ec 2.7.1.-) (mirk protein kinase). [swissprot;acc:q9y463] High confidence 214.481 217.011 1.0118
1804 aquaporin-chip (water channel protein for red blood cells and kidney proximal tubule) (aquaporin 1) (aqp-1) (urine water channel). [swissprot;acc:p29972] Low confidence 191.599 195.454 1.02012
cug triplet repeat, rna binding protein 2; elav-type rna-binding protein; cug triplet repeat,rna-binding protein 2; cug triplet repeat, rna-binding protein 2; neuroblastoma apoptosis-related rna-binding protein. [refseq;acc:nm_006561] High confidence 215.442 217.984 1.0118
1805 alpha-actinin 4 (non-muscle alpha-actinin 4) (f-actin cross linking protein). [swissprot;acc:o43707] 214.482 217.008 1.01178
glycogen synthase kinase-3 alpha (ec 2.7.1.37) (gsk-3 alpha). [swissprot;acc:p49840] Low confidence 195.368 199.294 1.0201
1806 alpha-actinin 1 (alpha-actinin cytoskeletal isoform) (non-muscle alpha-actinin 1) (f-actin cross linking protein). [swissprot;acc:p12814] High confidence 214.482 217.009 1.01178
ornithine decarboxylase antizyme inhibitor. [swissprot;acc:o14977] Low confidence 194.978 198.893 1.02008
1807 ornithine decarboxylase-like protein (ec 4.1.1.17) (odc-paralogue) (odc-p). [swissprot;acc:q96a70]
ral guanine nucleotide exchange factor ralgps1a. [refseq;acc:nm_014636] High confidence 208.651 211.102 1.01175
1808 ornithine decarboxylase (ec 4.1.1.17) (odc). [swissprot;acc:p11926] Low confidence 194.973 198.888 1.02008
ral-a exchange factor ralgps2. [refseq;acc:nm_152663] High confidence 208.651 211.102 1.01175
1809 glycogen synthase kinase-3 beta (ec 2.7.1.37) (gsk-3 beta). [swissprot;acc:p49841] Low confidence 195.398 199.322 1.02008
stip1 homology and u-box containing protein 1; serologically defined colon cancer antigen 7; carboxy terminus of hsp70p-interacting protein; heat shock protein a binding protein 2 (c-terminal). [refseq;acc:nm_005861] High confidence 208.651 211.102 1.01175
1810 double-strand-break repair protein rad21 homolog (hhr21) (nuclear matrix protein 1) (nxp-1) (scc1 homolog). [swissprot;acc:o60216] Low confidence 198.153 202.127 1.02006
lon protease homolog, mitochondrial precursor (ec 3.4.21.-) (lon protease-like protein) (lonp) (lonhs). [swissprot;acc:p36776] High confidence 225.827 223.214 1.01171
1811 polypeptide n-acetylgalactosaminyltransferase 2; udp-galnac transferase 2. [refseq;acc:nm_004481] 214.35 216.854 1.01168
prefoldin subunit 2 (hspc231). [swissprot;acc:q9uhv9] Low confidence 188.792 192.58 1.02006
1812 cyclin c. [swissprot;acc:p24863] High confidence 214.564 217.071 1.01168
uxt protein (ubiquitously expressed transcript protein) (hspc024). [swissprot;acc:q9ubk9] Low confidence 188.792 192.58 1.02006
1813 dj545l17.2 (novel protein similar to rad21 (s. pombe) homolog (kiaa0078)) (fragment). [sptrembl;acc:q9h4i0] 198.153 202.127
similar to expressed sequence ai415388 (fragment). [sptrembl;acc:q8n428] High confidence 214.35 216.854 1.01168
1814 dj467n11.1 protein. [refseq;acc:nm_022091] Low confidence 195.266 199.184 1.02006
serine/threonine protein phosphatase pp1-gamma catalytic subunit (ec 3.1.3.16) (pp-1g). [swissprot;acc:p36873] High confidence 123.727 122.3 1.01167
1815 dpy-30-like protein. [swissprot;acc:q9c005] 217.926 220.462 1.01164

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/