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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Gene Rank Network Comparison Type Value Type green Interaction Map description network_comparison red Filtered
Results: HTML CSV LaTeX Showing element 2051 to 2100 of 3228 in total
Network Comparison Type  : Divided
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
green
description
network_comparison
red
2051 216.981 oxidation resistance 1. [refseq;acc:nm_181354] 1.00834 218.79
2052 205.95 ornithine decarboxylase antizyme inhibitor. [swissprot;acc:o14977] 207.667
2053 216.981 lats, large tumor suppressor, homolog 2; lats (large tumor suppressor, drosophila) homolog 2. [refseq;acc:nm_014572] 218.79
2054 205.948 ornithine decarboxylase-like protein (ec 4.1.1.17) (odc-paralogue) (odc-p). [swissprot;acc:q96a70] 207.665
2055 216.981 dymeclin. [refseq;acc:nm_017653] 218.79
2056 sh3 domain-binding glutamic acid-rich-like protein. [swissprot;acc:o75368]
2057 lats homolog 1. [refseq;acc:nm_004690]
2058 sh3 domain-binding glutamic acid-rich-like protein 2 (fovea-associated sh3 domain binding protein). [swissprot;acc:q9ujc5]
2059 nuclear receptor coactivator 7; estrogen receptor associated protein 140 kda. [refseq;acc:nm_181782]
2060 dj132f21.2 (contains a novel protein similar to the l82e from drosophila) (fragment). [sptrembl;acc:q9h125]
2061 tbc1 domain family protein c22orf4-like (fragment). [swissprot;acc:q9nu19]
2062 tbc1 domain family protein c22orf4. [swissprot;acc:q8wua7]
2063 205.923 ornithine decarboxylase (ec 4.1.1.17) (odc). [swissprot;acc:p11926] 1.00833 207.638
2064 205.939 aminoadipate-semialdehyde synthase; lysine-ketoglutarate reductase /saccharopine dehydrogenase; lysine-2-oxoglutarate reductase; aminoadipic semialdehyde synthase. [refseq;acc:nm_005763] 207.655
2065 212.561 ubiquitin-conjugating enzyme e2 n (ec 6.3.2.19) (ubiquitin-protein ligase n) (ubiquitin carrier protein n) (ubc13) (bendless-like ubiquitin conjugating enzyme). [swissprot;acc:q16781] 1.00831 214.328
2066 231.001 proliferating cell nuclear antigen (pcna) (cyclin). [swissprot;acc:p12004] 1.00829 229.102
2067 191.639 adenylosuccinate lyase (ec 4.3.2.2) (adenylosuccinase) (asl) (asase). [swissprot;acc:p30566] 1.00828 193.226
2068 222.61 fas apoptotic inhibitory molecule. [refseq;acc:nm_018147] 1.0082 220.8
2069 215.807 dual specificity mitogen-activated protein kinase kinase 1 (ec 2.7.1.-) (map kinase kinase 1) (mapkk 1) (erk activator kinase 1) (mapk/erk kinase 1) (mek1). [swissprot;acc:q02750] 1.0081 217.555
2070 225.008 rac gtpase activating protein 1; gtpase activating protein. [refseq;acc:nm_013277] 223.199
2071 215.807 similar to kinase suppressor of ras (fragment). [sptrembl;acc:q8ivt5] 217.555
2072 dual specificity mitogen-activated protein kinase kinase 2 (ec 2.7.1.-) (map kinase kinase 2) (mapkk 2) (erk activator kinase 2) (mapk/erk kinase 2) (mek2). [swissprot;acc:p36507]
2073 227.433 topoisomerase-related function protein 4-2. [refseq;acc:nm_022447] 1.00806 229.267
2074 214.599 dna polymerase gamma subunit 1 (ec 2.7.7.7) (mitochondrial dna polymerase catalytic subunit) (polg-alpha). [swissprot;acc:p54098] 1.00804 216.324
2075 223.483 cd109; gov system alloantigens on platelets. [refseq;acc:nm_133493] 1.00803 221.703
2076 peptidyl-prolyl cis-trans isomerase nima-interacting 1 (ec 5.2.1.8) (rotamase pin1) (ppiase pin1). [swissprot;acc:q13526]
2077 iroquois-class homeodomain protein irx-4 (iroquois homeobox protein 4). [swissprot;acc:p78413]
2078 213.814 fidgetin-like 1. [refseq;acc:nm_022116] 1.00794 215.511
2079 214.28 phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing gamma polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-gamma) (ptdins-3-kinase c2 gamma) (pi3k-c2gamma). [swissprot;acc:o75747] 1.00787 215.967
2080 phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [swissprot;acc:o00750]
2081 dynamin 1-like protein isoform 3; dynamin-like protein. [refseq;acc:nm_005690]
2082 phosphoinositide-3-kinase, class 2, alpha polypeptide; c2-containing phosphatidylinositol kinase. [refseq;acc:nm_002645]
2083 213.579 vacuolar protein sorting 16 (hvps16). [swissprot;acc:q9h269] 1.00786 215.258
2084 224.293 glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 1 (ec 2.6.1.16) (hexosephosphate aminotransferase 1) (d-fructose-6- phosphate amidotransferase 1) (gfat 1) (gfat1). [swissprot;acc:q06210] 1.00784 222.548
2085 224.32 isocitrate dehydrogenase [nad] subunit alpha, mitochondrial precursor (ec 1.1.1.41) (isocitric dehydrogenase) (nad+-specific icdh). [swissprot;acc:p50213] 1.00782 222.58
2086 isocitrate dehydrogenase [nad] subunit beta, mitochondrial precursor (ec 1.1.1.41) (isocitric dehydrogenase) (nad+-specific icdh). [swissprot;acc:o43837]
2087 isocitrate dehydrogenase [nad] subunit gamma, mitochondrial precursor (ec 1.1.1.41) (isocitric dehydrogenase) (nad+-specific icdh). [swissprot;acc:p51553]
2088 216.433 maguk p55 subfamily member 3 (mpp3 protein) (discs, large homolog 3). [swissprot;acc:q13368] 1.00781 218.124
2089 213.479 serologically defined colon cancer antigen 16. [refseq;acc:nm_006649] 1.0078 215.144
2090 224.344 glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 2 (ec 2.6.1.16) (hexosephosphate aminotransferase 2) (d-fructose-6- phosphate amidotransferase 2) (gfat 2) (gfat2). [swissprot;acc:o94808] 1.00779 222.609
2091 210.052 rna, u transporter 1; snurportin-1. [refseq;acc:nm_005701] 1.00775 211.679
2092 210.369 evolutionarily conserved signaling intermediate in toll pathway; ecsit. [refseq;acc:nm_016581] 1.00772 211.992
2093 208.387 ribokinase (ec 2.7.1.15). [swissprot;acc:q9h477] 1.00771 209.994
2094 205.747 pms1 protein homolog 2 (dna mismatch repair protein pms2). [swissprot;acc:p54278] 1.00765 207.321
2095 227.53 polymerase (dna directed) sigma; topoisomerase-related function protein 4-1; polymerase (dna-directed) sigma. [refseq;acc:nm_006999] 1.00763 229.266
2096 216.089 limkain beta 2. [refseq;acc:nm_025140] 1.00756 217.723
2097 213.39 delta-interacting protein a (hepatitis delta antigen interacting protein a). [swissprot;acc:q15834] 1.00745 214.979
2098 178.831 ret finger protein 2 (leukemia associated protein 5) (b-cell chronic lymphocytic leukemia tumor suppressor leu5) (putative tumor suppressor rfp2) (tripartite motif protein 13). [swissprot;acc:o60858] 1.00741 177.515
2099 213.27 ubiquitin-like protein smt3a. [swissprot;acc:p55854] 1.00737 211.71
2100 ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]

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/