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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.
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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 2827 to 2876 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
2827\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
GPS1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
cop9 signalosome complex subunit 1 (g protein pathway suppressor 1) (gps1 protein) (mfh protein). [source:swissprot;acc:q13098]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2828\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
ubiquitin-conjugating enzyme e2-18 kda ubch7 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (ubcm4) (e2-f1) (l-ubc). [source:swissprot;acc:p51966]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2829\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
ASPSCR1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
alveolar soft part sarcoma chromosome region, candidate 1; aspl protein; renal cell carcinoma gene on chromosome 17; renal cell carcinoma, papillary, 17 gene; aspscr1/tfe3 fusion gene, included. [source:refseq;acc:nm\_024083]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2830\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
CSNK1G1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
casein kinase i, gamma 1 isoform (ec 2.7.1.-) (cki-gamma 1). [source:swissprot;acc:q9hcp0]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2831\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
FEN1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
flap endonuclease-1 (ec 3.-.-.-) (maturation factor 1) (mf1). [source:swissprot;acc:p39748]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2832\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
SEMA6B\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
semaphorin 6b precursor (semaphorin z) (sema z). [source:swissprot;acc:q9h3t3]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2833\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
TPM4\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
tropomyosin alpha 4 chain (tropomyosin 4) (tm30p1). [source:swissprot;acc:p07226]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2834\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
ATP5L\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
atp synthase g chain, mitochondrial (ec 3.6.3.14) (atpase subunit g). [source:swissprot;acc:o75964]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2835\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
UGT1A9\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
udp-glucuronosyltransferase 1-6 precursor, microsomal (ec 2.4.1.17) (udp-glucuronosyltransferase 1a6) (udpgt) (ugt1*6) (ugt1-06) (ugt1.6) (ugt-1f) (ugt1f) (phenol-metabolizing udp-glucuronosyltransferase). [source:swissprot;acc:p19224]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2836\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
COG1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
conserved oligomeric golgi complex component 1. [source:swissprot;acc:q8wtw3]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2837\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
TK2\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
thymidine kinase 2, mitochondrial precursor (ec 2.7.1.21) (mt-tk). [source:swissprot;acc:o00142]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2838\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
DCHS1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
protocadherin 16 precursor (cadherin 19) (cadherin fibroblast 1). [source:swissprot;acc:q96jq0]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2839\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
TAF10\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
transcription initiation factor tfiid 30 kda subunit (tafii-30) (tafii30). [source:swissprot;acc:q12962]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2840\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
CUL5\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
vasopressin-activated calcium-mobilizing receptor (vacm-1) (cullin homolog 5) (cul-5). [source:swissprot;acc:q93034]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2841\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
COPS2\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
cop9 signalosome complex subunit 2 (signalosome subunit 2) (sgn2) (thyroid receptor interacting protein 15) (trip15). [source:swissprot;acc:q15647]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2842\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
NOLC1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
nucleolar phosphoprotein p130 (nucleolar 130 kda protein) (140 kda nucleolar phosphoprotein) (nopp140) (nucleolar and coiled-body phosphoprotein 1). [source:swissprot;acc:q14978]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2843\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
SENP8\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [source:swissprot;acc:q96ld8]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2844\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
FBN1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
fibrillin 1 precursor. [source:swissprot;acc:p35555]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2845\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
PACSIN3\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
protein kinase c and casein kinase substrate in neurons protein 3 (sh3 domain-containing protein 6511) (endophilin i). [source:swissprot;acc:q9uks6]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2846\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
C10orf118\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
ctcl tumor antigen l14-2. [source:refseq;acc:nm\_018017]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2847\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
DACH1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
dachshund homolog isoform a. [source:refseq;acc:nm\_080759]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2848\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
GTF2A1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
transcription initiation factor iia alpha and beta chains (tfiia p35 and p19 subunits) (tfiia-42) (tfiial). [source:swissprot;acc:p52655]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2849\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
SNAPC3\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
snrna activating protein complex 50 kda subunit (snapc 50 kda subunit) (proximal sequence element-binding transcription factor beta subunit) (pse-binding factor beta subunit) (ptf beta subunit). [source:swissprot;acc:q92966]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2850\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
CDK5\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
cell division protein kinase 5 (ec 2.7.1.-) (tau protein kinase ii catalytic subunit) (tpkii catalytic subunit) (serine/threonine protein kinase pssalre). [source:swissprot;acc:q00535]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2851\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
ORC5L\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
origin recognition complex subunit 5. [source:swissprot;acc:o43913]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2852\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
HIST1H2AA\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
histone h2a; h2a histone family, member r. [source:refseq;acc:nm\_170745]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2853\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
TIGD6\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
tigger transposable element derived 6. [source:refseq;acc:nm\_030953]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2854\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
NARG1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
transcriptional coactivator tubedown-100 isoform 1; putative n-acetyltransferase; gastric cancer antigen ga19. [source:refseq;acc:nm\_057175]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2855\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
HPGD\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [source:swissprot;acc:p15428]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2856\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
HMGB2\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
high mobility group protein 2 (hmg-2). [source:swissprot;acc:p26583]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2857\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
PRKCD\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
protein kinase c, delta type (ec 2.7.1.-) (npkc-delta). [source:swissprot;acc:q05655]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2858\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
RYK\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
tyrosine-protein kinase ryk precursor (ec 2.7.1.112). [source:swissprot;acc:p34925]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2859\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
NKX6-1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
homeobox protein nkx-6.1. [source:swissprot;acc:p78426]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2860\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
importin 9. [source:refseq;acc:nm\_018085]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2861\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
GNPDA2\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
glucosamine-6-phosphate isomerase. [source:refseq;acc:nm\_138335]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2862\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
SDC3\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
syndecan-3 (synd3). [source:swissprot;acc:o75056]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2863\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
high-glucose-regulated protein 8 (ny-ren-2 antigen). [source:swissprot;acc:q9y5a9]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2864\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
MAGOH\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
mago nashi protein homolog. [source:swissprot;acc:p50606]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2865\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
TAL1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
t-cell acute lymphocytic leukemia-1 protein (tal-1 protein) (stem cell protein) (t-cell leukemia/lymphoma-5 protein). [source:swissprot;acc:p17542]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2866\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
STX5\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
syntaxin 5. [source:swissprot;acc:q13190]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2867\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
sh3 adapter protein spin90 (sh3 protein interacting with nck, 90 kda) (vaca-interacting protein, 54 kda) (vip54) (af3p21) (diaphanous protein interacting protein) (dia interacting protein-1) (dip-1). [source:swissprot;acc:q9nzq3]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2868\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
SNORA67\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
eukaryotic initiation factor 4a-i (eif-4a-i) (eif4a-i). [source:swissprot;acc:p04765]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2869\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
PRPSAP1\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
phosphoribosyl pyrophosphate synthetase-associated protein 1 (prpp synthetase-associated protein 1) (39 kda phosphoribosypyrophosphate synthetase-associated protein) (pap39). [source:swissprot;acc:q14558]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2870\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
SH2B2\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
adaptor protein with pleckstrin homology and src homology 2 domains. [source:refseq;acc:nm\_020979]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2871\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
VPS28\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
vps28 protein homolog. [source:swissprot;acc:q9uk41]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2872\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
BTBD14B\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
transcriptional repressor nac1. [source:refseq;acc:nm\_052876]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2873\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
ITGB2\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
integrin beta-2 precursor (cell surface adhesion glycoproteins lfa- 1/cr3/p150,95 beta-subunit) (cd18) (complement receptor c3 beta- subunit). [source:swissprot;acc:p05107]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2874\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
C21orf2\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
protein c21orf2 (c21orf-humf09g8.5) (yf5/a2). [source:swissprot;acc:o43822]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2875\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
CRYAA\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
alpha crystallin a chain. [source:swissprot;acc:p02489]\vspace{3pt}}\\\hline
\parbox{\wcA}{\vspace{3pt}\noindent
2876\vspace{3pt}}&\parbox{\wcB}{\vspace{3pt}\noindent
PDE9A\vspace{3pt}}&\parbox{\wcC}{\vspace{3pt}\noindent
high-affinity cgmp-specific 3',5'-cyclic phosphodiesterase 9a (ec 3.1.4.17). [source:swissprot;acc:o76083]\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/