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 Hugo description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX
Showing element 3075 to 3124 of 3228 in total
Value Type: Ranked
Network Comparison Type: Divided
Interaction Map: High confidence
Filtered: 1
red: 0.00001
green: 0.00001
network\_comparison: 1

\def\wcA{0.25\textwidth}
\def\wcB{0.25\textwidth}
\def\wcC{0.25\textwidth}
\begin{longtable}{|c|c|c|}
\hline
\parbox{\wcA}{\vspace{3pt}\noindent
Rank\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
Hugo\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
description\vspace{3pt}}\\
\hline
\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3075\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
USP5\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
ubiquitin carboxyl-terminal hydrolase 5 (ec 3.1.2.15) (ubiquitin thiolesterase 5) (ubiquitin-specific processing protease 5) (deubiquitinating enzyme 5) (isopeptidase t). [source:swissprot;acc:p45974]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3076\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
placental protein 11 precursor (ec 3.4.21.-) (pp11). [source:swissprot;acc:p21128]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3077\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
H2AFJ\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
h2a histone family, member j isoform 1. [source:refseq;acc:nm\_018267]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3078\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
CREBL2\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
camp responsive element binding protein-like 2. [source:refseq;acc:nm\_001310]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3079\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
CYP27B1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [source:swissprot;acc:o15528]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3080\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [source:swissprot;acc:q99733]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3081\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
PTPMT1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
nadh-ubiquinone oxidoreductase 30 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-30kd) (ci-30kd). [source:swissprot;acc:o75489]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3082\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
CRYAB\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
alpha crystallin b chain (alpha(b)-crystallin) (rosenthal fiber component). [source:swissprot;acc:p02511]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3083\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
GLRB\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
glycine receptor beta chain precursor (glycine receptor 58 kda subunit). [source:swissprot;acc:p48167]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3084\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
MAP2K1IP1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
mitogen-activated protein kinase kinase 1 interacting protein 1 (mek binding partner 1) (mp1) (pro2783). [source:swissprot;acc:q9uha4]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3085\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
UGT2B10\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
udp-glucuronosyltransferase 2b10 precursor, microsomal (ec 2.4.1.17) (udpgt). [source:swissprot;acc:p36537]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3086\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
udp-glucuronosyltransferase 2b15 precursor, microsomal (ec 2.4.1.17) (udpgt) (udpgth-3) (hlug4). [source:swissprot;acc:p54855]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3087\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
ALDOC\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
fructose-bisphosphate aldolase c (ec 4.1.2.13) (brain-type aldolase). [source:swissprot;acc:p09972]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3088\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
YWHAE\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
14-3-3 protein epsilon (mitochondrial import stimulation factor l subunit) (protein kinase c inhibitor protein-1) (kcip-1) (14-3-3e). [source:swissprot;acc:p42655]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3089\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
PRKAR1A\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
camp-dependent protein kinase type i-alpha regulatory chain (tissue- specific extinguisher-1) (tse1). [source:swissprot;acc:p10644]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3090\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
EZH1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
enhancer of zeste homolog 1 (enx-2). [source:swissprot;acc:q92800]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3091\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
MLX\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
transcription factor-like protein 4 (max-like bhlhzip protein) (bigmax protein) (mlx). [source:swissprot;acc:q9uh92]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3092\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
DRG2\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
developmentally regulated gtp-binding protein 2 (drg 2). [source:swissprot;acc:p55039]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3093\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
ptd016 protein. [source:refseq;acc:nm\_016125]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3094\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
UBE2S\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
ubiquitin-conjugating enzyme e2-24 kda (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (e2-epf5). [source:swissprot;acc:q16763]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3095\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
C10orf137\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
erythroid differentiation-related factor 1. [source:refseq;acc:nm\_015608]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3096\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
NPM3\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
nucleoplasmin 3. [source:swissprot;acc:o75607]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3097\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
SEC23IP\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
sec23-interacting protein p125; phospholipase. [source:refseq;acc:nm\_007190]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3098\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
EZH2\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
enhancer of zeste homolog 2 (enx-1). [source:swissprot;acc:q15910]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3099\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
CAV1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
caveolin-1. [source:swissprot;acc:q03135]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3100\vspace{3pt}}&\multirow{2}{*}{\parbox{\wcB}{\vspace{3pt}\noindent
\vspace{3pt}}}&\parbox{\wcC}{\vspace{3pt}\noindent
presenilin enhancer 2; hematopoietic stem/progenitor cells protein mds033. [source:refseq;acc:nm\_172341]\vspace{3pt}}\\\cline{1-1}\cline{3-3}
\parbox{\wcA}{\vspace{3pt}\noindent
3101\vspace{3pt}}&&\parbox{\wcC}{\vspace{3pt}\noindent
gamma-interferon inducible lysosomal thiol reductase precursor (gamma-interferon-inducible protein ip-30). [source:swissprot;acc:p13284]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3102\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
C19orf56\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
protein cgi-140 (protein ptd008) (my006 protein). [source:swissprot;acc:q9y284]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3103\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
LIG1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
dna ligase i (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [source:swissprot;acc:p18858]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3104\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
SNORD23\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
glioma tumor suppressor candidate region gene 2 protein (p60). [source:swissprot;acc:q9nzm5]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3105\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
TGFB1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
transforming growth factor beta 1 precursor (tgf-beta 1). [source:swissprot;acc:p01137]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3106\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
PTOV1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
prostate tumor overexpressed gene 1; prostate tumor over expressed gene 1. [source:refseq;acc:nm\_017432]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3107\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
LYL1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
lyl-1 protein (lymphoblastic leukemia derived sequence 1). [source:swissprot;acc:p12980]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3108\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
SNX16\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
sorting nexin 16. [source:swissprot;acc:p57768]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3109\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
WISP1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
wnt1 inducible signaling pathway protein 1 isoform 1 precursor; wnt-1 signaling pathway protein 1; wnt1 signaling pathway protein 1; wnt-1 inducible signaling pathway protein 1. [source:refseq;acc:nm\_003882]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3110\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
RAB2A\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
ras-related protein rab-2a. [source:swissprot;acc:p08886]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3111\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
STK3\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
serine/threonine protein kinase 3 (ec 2.7.1.37) (ste20-like kinase mst2) (mst-2) (mammalian ste20-like protein kinase 2) (serine/threonine protein kinase krs-1). [source:swissprot;acc:q13188]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3112\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
RAB11A\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
ras-related protein rab-11a (rab-11) (24kg) (yl8). [source:swissprot;acc:p24410]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3113\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
NUTF2\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
nuclear transport factor 2 (ntf-2) (placental protein 15) (pp15). [source:swissprot;acc:p13662]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3114\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
TSC22D1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
regulatory protein tsc-22 (tgfb stimulated clone 22 homolog). [source:swissprot;acc:q15714]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3115\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
STK24\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
serine/threonine protein kinase 24 (ec 2.7.1.37) (ste20-like kinase mst3) (mst-3) (mammalian ste20-like protein kinase 3). [source:swissprot;acc:q9y6e0]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3116\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
CAB39L\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
mo25-like protein. [source:swissprot;acc:q9h9s4]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3117\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
FNDC3A\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
ba203i16.1 (hypothetical protein kiaa0970). [source:sptrembl;acc:q9h1w1]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3118\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
SMS\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
spermine synthase (ec 2.5.1.22) (spermidine aminopropyltransferase) (spmsy). [source:swissprot;acc:p52788]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3119\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
rab gdp dissociation inhibitor alpha (rab gdi alpha) (gdi-1) (xap-4) (oligophrenin 2). [source:swissprot;acc:p31150]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3120\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
SCML2\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
sex comb on midleg-like 2; sex comb on midleg like 2. [source:refseq;acc:nm\_006089]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3121\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
GLRA2\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
glycine receptor alpha-2 chain precursor. [source:swissprot;acc:p23416]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3122\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
PRPS2\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
ribose-phosphate pyrophosphokinase ii (ec 2.7.6.1) (phosphoribosyl pyrophosphate synthetase ii) (ppribp) (prs-ii). [source:swissprot;acc:p11908]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3123\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
VAPA\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
vesicle-associated membrane protein-associated protein a (vamp- associated protein a) (vamp-a) (vap-a) (33 kda vamp-associated protein) (vap-33). [source:swissprot;acc:q9p0l0]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
3124\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
SAMHD1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
sam domain and hd domain-containing protein 1 (dendritic cell-derived ifng-induced protein) (dcip) (monocyte protein 5) (mop-5). [source:swissprot;acc:q9y3z3]\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

 - Hugo is the HGNC identifier if it exists

 - 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/