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 2732 to 2781 of 3228 in total 
Value Type: Measured
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
2732\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
transcription factor relb (i-rel). [source:swissprot;acc:q01201]\vspace{3pt}}&\multirow{3}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
7913.63\vspace{3pt}}}&\multirow{3}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
7939.94\vspace{3pt}}}&\multirow{3}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.00332\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2733\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
nf-kappab inhibitor alpha (major histocompatibility complex enhancer- binding protein mad3) (i-kappa-b-alpha) (ikappabalpha) (ikb-alpha). [source:swissprot;acc:p25963]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2734\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
coproporphyrinogen iii oxidase, mitochondrial precursor (ec 1.3.3.3) (coproporphyrinogenase) (coprogen oxidase) (cox). [source:swissprot;acc:p36551]\vspace{3pt}}&&&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2735\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
creatine kinase, b chain (ec 2.7.3.2) (b-ck). [source:swissprot;acc:p12277]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
8991.87\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
9019.99\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.00313\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2736\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
inhibitor of growth family, member 1; inhibitor of growth 1. [source:refseq;acc:nm\_005537]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
4887.59\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
4902.08\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.00296\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2737\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
tfiih basal transcription factor complex p44 subunit (basic transcription factor 2 44 kda subunit) (btf2-p44) (general transcription factor iih polypeptide 2). [source:swissprot;acc:q13888]\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
4486.83\vspace{3pt}}}&\multirow{2}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
4499.52\vspace{3pt}}}&\multirow{2}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.00283\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2738\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
tfiih basal transcription factor complex p62 subunit (basic transcription factor 62 kda subunit) (btf2-p62) (general transcription factor iih polypeptide 1). [source:swissprot;acc:p32780]\vspace{3pt}}&&&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2739\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
inhibitor of growth family, member 1-like; inhibitor of growth 1-like. [source:refseq;acc:nm\_001564]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
4877.74\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
4890.64\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.00264\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2740\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
dna-directed rna polymerases i, ii, and iii 17.1 kda polypeptide (ec 2.7.7.6) (rpb17) (rpb8) (rpabc3). [source:swissprot;acc:p52434]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
4200.59\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
4210.94\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.00246\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2741\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
sorting nexin 5. [source:swissprot;acc:q9y5x3]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
5339.67\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
5327.2\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.00234\vspace{3pt}}}\\\cline{1-4}
\parbox{\wcA}{\vspace{3pt}\noindent
2742\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [source:swissprot;acc:p46059]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
10198.1\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
10174.3\vspace{3pt}}&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2743\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
60s acidic ribosomal protein p2. [source:swissprot;acc:p05387]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
4824.49\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
4813.92\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.0022\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2744\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [source:swissprot;acc:q16348]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
10143.6\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
10163.6\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.00197\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2745\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
tripartite motif protein 3 (ring finger protein 22) (brain-expressed ring finger protein). [source:swissprot;acc:o75382]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
7746.61\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
7757.23\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.00137\vspace{3pt}}}\\\cline{1-4}
\parbox{\wcA}{\vspace{3pt}\noindent
2746\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
hpaii tiny  fragments locus 9c. [source:refseq;acc:nm\_022727]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
4188.5\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
4194.22\vspace{3pt}}&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2747\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
putatative 28 kda protein. [source:refseq;acc:nm\_020143]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
4708.68\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
4702.58\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.0013\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2748\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
syntaxin 6. [source:swissprot;acc:o43752]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
5296.39\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
5301.11\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.00089\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2749\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
alpha-fetoprotein enhancer binding protein (at motif-binding factor) (at-binding transcription factor 1). [source:swissprot;acc:q15911]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
7776.91\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
7783.48\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.00084\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2750\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
syntaxin 10 (syn10). [source:swissprot;acc:o60499]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
5294.28\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
5298.42\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.00078\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2751\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
tripartite motif protein 2. [source:swissprot;acc:q9c040]\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
7810.47\vspace{3pt}}&\parbox{\wcD}{\vspace{3pt}\noindent
7812.55\vspace{3pt}}&\parbox{\wcE}{\vspace{3pt}\noindent
1.00027\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2752\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
set domain and mariner transposase fusion gene. [source:refseq;acc:nm\_006515]\vspace{3pt}}&\multirow{4}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
4521.42\vspace{3pt}}}&\multirow{4}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
4521.87\vspace{3pt}}}&\multirow{4}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1.0001\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2753\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
cd209 antigen-like; putative type ii membrane protein. [source:refseq;acc:nm\_014257]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2754\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [source:swissprot;acc:p06734]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2755\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [source:refseq;acc:nm\_021155]\vspace{3pt}}&&&\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2756\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
3 beta-hydroxysteroid dehydrogenase (fragments). [source:sptrembl;acc:q9udk8]\vspace{3pt}}&\multirow{26}{*}{\parbox{\wcC}{\vspace{3pt}\noindent
0.00001\vspace{3pt}}}&\multirow{26}{*}{\parbox{\wcD}{\vspace{3pt}\noindent
0.00001\vspace{3pt}}}&\multirow{26}{*}{\parbox{\wcE}{\vspace{3pt}\noindent
1\vspace{3pt}}}\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2757\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
nucleosome assembly protein 1-like 1 (nap-1 related protein). [source:swissprot;acc:p55209]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2758\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
nucleosome assembly protein 1-like 2 (brain-specific protein, x- linked). [source:swissprot;acc:q9ulw6]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2759\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
retinoic acid receptor rxr-alpha. [source:swissprot;acc:p19793]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2760\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
t-cell acute lymphocytic leukemia-2 protein (tal-2 protein). [source:swissprot;acc:q16559]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2761\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
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). [source:swissprot;acc:q9byb4]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2762\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
developmentally regulated gtp-binding protein 1 (drg 1). [source:swissprot;acc:q9y295]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2763\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
ring finger protein 3. [source:refseq;acc:nm\_006315]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2764\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
ras-related protein rab-11b (gtp-binding protein ypt3). [source:swissprot;acc:q15907]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2765\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
histone h2a.e (h2a/e). [source:swissprot;acc:q99878]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2766\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
ss18-like protein 1 (syt homolog-1). [source:swissprot;acc:o75177]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2767\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [source:swissprot;acc:p02261]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2768\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
histone h2a.x (h2a/x). [source:swissprot;acc:p16104]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2769\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
histone h2a.q (h2a/q) (h2a-gl101) (fragment). [source:swissprot;acc:q16777]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2770\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
nipsnap1 protein. [source:swissprot;acc:q9bpw8]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2771\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
t-box transcription factor tbx1 (t-box protein 1) (testis-specific t-box protein). [source:swissprot;acc:o43435]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2772\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
uridine diphosphate glucose pyrophosphatase. [source:refseq;acc:nm\_177533]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2773\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
bone morphogenetic protein 8 precursor (bmp-8) (osteogenic protein 2) (op-2). [source:swissprot;acc:p34820]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2774\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
dc12 protein. [source:refseq;acc:nm\_020187]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2775\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
jerky protein homolog like (hhmjg). [source:swissprot;acc:q9y4a0]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2776\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
bcl-6 interacting corepressor isoform 1. [source:refseq;acc:nm\_017745]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2777\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
guanine nucleotide exchange factor mss4 (rab interacting factor). [source:swissprot;acc:p47224]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2778\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
transcription factor mammalian mafa (pancreatic beta-cell specific transcriptional activator). [source:sptrembl;acc:q8nhw3]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2779\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
caveolin-3 (m-caveolin). [source:swissprot;acc:p56539]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2780\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
importin alpha-2 subunit (karyopherin alpha-2 subunit) (srp1-alpha) (rag cohort protein 1). [source:swissprot;acc:p52292]\vspace{3pt}}&&&\\\cline{1-2}
\parbox{\wcA}{\vspace{3pt}\noindent
2781\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
exocyst complex component exo70. [source:swissprot;acc:q9upt5]\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/