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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 597 to 646 of 3228 in total 
Value Type: Ranked
Network Comparison Type: Divided
Interaction Map: High confidence
Filtered: 1

\def\wcA{0.16666666666667\textwidth}
\def\wcB{0.16666666666667\textwidth}
\def\wcC{0.16666666666667\textwidth}
\def\wcD{0.16666666666667\textwidth}
\def\wcE{0.16666666666667\textwidth}
\begin{longtable}{|c|c|c|c|c|}
\hline
\parbox{\wcA}{\vspace{3pt}\noindent
Rank\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
description\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
red\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
green\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
network\_comparison\vspace{3pt}}\\
\hline
\hline
\parbox{\wcA}{\vspace{3pt}\noindent
597\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
vav-2 protein. [source:swissprot;acc:p52735]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
212.526\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
200.212\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.0615\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
598\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
rac-alpha serine/threonine kinase (ec 2.7.1.-) (rac-pk-alpha) (protein kinase b) (pkb) (c-akt). [source:swissprot;acc:p31749]\vspace{3pt}}&\multirow{3}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
248.463\vspace{3pt}}}&\multirow{3}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
234.095\vspace{3pt}}}&\multirow{3}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.06138\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
599\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
rac-gamma serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-gamma) (protein kinase akt-3) (protein kinase b, gamma) (pkb gamma) (stk-2). [source:swissprot;acc:q9y243]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
600\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
rac-beta serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-beta) (protein kinase akt-2) (protein kinase b, beta) (pkb beta). [source:swissprot;acc:p31751]\vspace{3pt}}&&&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
601\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
vam6/vps39-like protein (hvam6p). [source:swissprot;acc:q96jc1]\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
206.274\vspace{3pt}}}&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
218.792\vspace{3pt}}}&\multirow{2}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.06069\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
602\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
microtubule-associated protein 4 (map 4). [source:swissprot;acc:p27816]\vspace{3pt}}&&&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
603\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
lymphoid enhancer binding factor 1 (lef-1) (t cell-specific transcription factor 1-alpha) (tcf1-alpha). [source:swissprot;acc:q9uju2]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
225.829\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
212.945\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.0605\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
604\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
60s ribosomal protein l15. [source:swissprot;acc:p39030]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
217.862\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
230.978\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.0602\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
605\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
histone h2b.c (h2b/c). [source:swissprot;acc:q99880]\vspace{3pt}}&\multirow{9}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
247.47\vspace{3pt}}}&\multirow{9}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
233.441\vspace{3pt}}}&\multirow{9}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.0601\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
606\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
histone h2b.q (h2b/q) (h2b-gl105). [source:swissprot;acc:q16778]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
607\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
histone h3.1 (h3/a) (h3/c) (h3/d) (h3/f) (h3/h) (h3/i) (h3/j) (h3/k) (h3/l). [source:swissprot;acc:p16106]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
608\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
histone h2b. [source:refseq;acc:nm\_175055]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
609\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
histone h2b.s (h2b/s). [source:swissprot;acc:p57053]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
610\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
histone h2b.d (h2b/d). [source:swissprot;acc:q99877]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
611\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
histone h3.4 (h3t) (h3/t) (h3/g). [source:swissprot;acc:q16695]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
612\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
testis-specific histone h2b; h2b histone family, member u, (testis-specific). [source:refseq;acc:nm\_170610]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
613\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
histone h2b.e (h2b/e). [source:swissprot;acc:q99879]\vspace{3pt}}&&&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
614\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [source:swissprot;acc:p31260]\vspace{3pt}}&\multirow{4}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
214.257\vspace{3pt}}}&\parbox{\wcD}{\vspace{3pt}\noindent
202.125\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.06002\vspace{3pt}}\\\cline{1-2}\cline{4-5}
\parbox{\wcA}{\vspace{3pt}\noindent
615\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
homeobox protein hox-b9 (hox-2e) (hox-2.5). [source:swissprot;acc:p17482]\vspace{3pt}}&&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
202.132\vspace{3pt}}}&\multirow{2}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.05999\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
616\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
homeobox protein hox-a9 (hox-1g). [source:swissprot;acc:p31269]\vspace{3pt}}&&&\\\cline{1-2}\cline{4-5}
\parbox{\wcA}{\vspace{3pt}\noindent
617\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
homeobox protein hox-c9 (hox-3b). [source:swissprot;acc:p31274]\vspace{3pt}}&&\parbox{\wcD}{\vspace{3pt}\noindent
202.135\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.05997\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
618\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [source:swissprot;acc:q99928]\vspace{3pt}}&\multirow{14}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
214.256\vspace{3pt}}}&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
202.139\vspace{3pt}}}&\multirow{12}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.05994\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
619\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [source:swissprot;acc:q14488]\vspace{3pt}}&&&\\\cline{1-2}\cline{4-4}
\parbox{\wcA}{\vspace{3pt}\noindent
620\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [source:swissprot;acc:q8n1c3]\vspace{3pt}}&&\multirow{4}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
202.14\vspace{3pt}}}&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
621\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p47869]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
622\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [source:swissprot;acc:q16445]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
623\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p18507]\vspace{3pt}}&&&\\\cline{1-2}\cline{4-4}
\parbox{\wcA}{\vspace{3pt}\noindent
624\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [source:refseq;acc:nm\_016123]\vspace{3pt}}&&\parbox{\wcD}{\vspace{3pt}\noindent
202.139\vspace{3pt}}&\\\cline{1-2}\cline{4-4}
\parbox{\wcA}{\vspace{3pt}\noindent
625\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p48169]\vspace{3pt}}&&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
202.14\vspace{3pt}}}&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
626\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [source:swissprot;acc:p78334]\vspace{3pt}}&&&\\\cline{1-2}\cline{4-4}
\parbox{\wcA}{\vspace{3pt}\noindent
627\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
phosphatidylserine receptor; phosphatidylserine receptor beta. [source:refseq;acc:nm\_015167]\vspace{3pt}}&&\parbox{\wcD}{\vspace{3pt}\noindent
202.139\vspace{3pt}}&\\\cline{1-2}\cline{4-4}
\parbox{\wcA}{\vspace{3pt}\noindent
628\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p14867]\vspace{3pt}}&&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
202.14\vspace{3pt}}}&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
629\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p34903]\vspace{3pt}}&&&\\\cline{1-2}\cline{4-5}
\parbox{\wcA}{\vspace{3pt}\noindent
630\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
nadh-ubiquinone oxidoreductase b14 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b14) (ci-b14). [source:swissprot;acc:p56556]\vspace{3pt}}&&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
202.141\vspace{3pt}}}&\multirow{2}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.05993\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
631\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
similar to expressed sequence aa415817. [source:sptrembl;acc:q8n4q9]\vspace{3pt}}&&&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
632\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
homeobox protein hox-d9 (hox-4c) (hox-5.2). [source:swissprot;acc:p28356]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
214.254\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
202.166\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.05979\vspace{3pt}}}\\\cline{1-4}
\parbox{\wcA}{\vspace{3pt}\noindent
633\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
alanyl-trna synthetase (ec 6.1.1.7) (alanine--trna ligase) (alars). [source:swissprot;acc:p49588]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
234.106\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
248.104\vspace{3pt}}&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
634\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
dead-box protein abstrakt homolog. [source:swissprot;acc:q9ujv9]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
226.523\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
213.786\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.05958\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
635\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
60s ribosomal protein l37 (g1.16). [source:swissprot;acc:p02403]\vspace{3pt}}&\multirow{4}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
228.639\vspace{3pt}}}&\multirow{4}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
242.258\vspace{3pt}}}&\multirow{4}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.05957\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
636\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
splicing factor, arginine/serine-rich 1 (pre-mrna splicing factor sf2, p33 subunit) (alternative splicing factor asf-1). [source:swissprot;acc:q07955]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
637\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
amidophosphoribosyltransferase precursor (ec 2.4.2.14) (glutamine phosphoribosylpyrophosphate amidotransferase) (atase) (gpat). [source:swissprot;acc:q06203]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
638\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
sorting nexin 17. [source:swissprot;acc:q15036]\vspace{3pt}}&&&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
639\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
nucleoporin-like protein rip (hiv-1 rev-binding protein) (rev interacting protein) (rev/rex activation domain-binding protein). [source:swissprot;acc:p52594]\vspace{3pt}}&\multirow{7}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
217.67\vspace{3pt}}}&\multirow{7}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
230.596\vspace{3pt}}}&\multirow{7}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.05938\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
640\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [source:swissprot;acc:q15811]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
641\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [source:refseq;acc:nm\_032152]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
642\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [source:swissprot;acc:q9nzm3]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
643\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
hiv-1 rev binding protein-like; rev/rex activation domain binding protein-related. [source:refseq;acc:nm\_006076]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
644\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
cgthba protein (-14 gene protein). [source:swissprot;acc:q12980]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
645\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
hiv tat specific factor 1; cofactor required for tat activation of hiv-1 transcription. [source:refseq;acc:nm\_014500]\vspace{3pt}}&&&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
646\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
short coiled-coil protein; short coiled coil protein. [source:refseq;acc:nm\_032547]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
216.731\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
229.549\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.05914\vspace{3pt}}\\\hline
nd{longtable}

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/