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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description Gene Rank Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2730 to 2779 of 9634 in total
Value Type  : Measured
Network Comparison Type  : Divided
description
Rank
Interaction Map
Filtered
red
green
network_comparison
endothelial-derived gene 1. [refseq;acc:nm_025205] 4027 Low confidence 1 8087.84 8266 1.02203
enhancer of filamentation 1 (hef1) (crk-associated substrate-related protein) (cas-l) (casl) (pp105) (neural precursor cell expressed developmentally down-regulated 9). [swissprot;acc:q14511] 202 High confidence 4812.01 6076.09 1.26269
1146 Low confidence 7949.21 8241.92 1.03682
enhancer of rudimentary homolog. [swissprot;acc:q14259] 2072 High confidence 6437.24 6797.24 1.05592
2450 Low confidence 7946.84 8188.84 1.03045
enhancer of zeste homolog 1 (enx-2). [swissprot;acc:q92800] 3090 High confidence 0.00001 0.00001 1
4073 Low confidence 7880.71 8051.39 1.02166
enhancer of zeste homolog 2 (enx-1). [swissprot;acc:q15910] 3098 High confidence 0.00001 0.00001 1
4074 Low confidence 7880.71 8051.39 1.02166
enigma protein; lim domain protein. [refseq;acc:nm_005451] 110 0 967.877 1337.82 1.38222
181 High confidence 187.25 153 1.22386
1596 1 5665.34 6070.32 1.07148
2624 Low confidence 7780.62 8012.82 1.02984
enos interacting protein; cgi-25 protein. [refseq;acc:nm_015953] 2294 7607.74 7844.46 1.03112
enoyl-coa hydratase, mitochondrial precursor (ec 4.2.1.17) (short chain enoyl-coa hydratase) (sceh) (enoyl-coa hydratase 1). [swissprot;acc:p30084] 504 High confidence 10067.9 11511 1.14334
646 Low confidence 7808.99 8156 1.04444
enteropeptidase precursor (ec 3.4.21.9) (enterokinase). [swissprot;acc:p98073] 347 High confidence 4991.02 5885.09 1.17914
697 Low confidence 7691.66 8024.18 1.04323
enthoprotin; epsin 4; clathrin interacting protein localized in the trans-golgi region. [refseq;acc:nm_014666] 2022 High confidence 5520.26 5841.16 1.05813
2697 Low confidence 7940.01 8174.47 1.02953
ephrin type-a receptor 2 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor eck) (epithelial cell kinase). [swissprot;acc:p29317] 1722 7384.03 7628.26 1.03308
ephrin type-a receptor 3 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor etk1) (hek) (hek4). [swissprot;acc:p29320] 1730
ephrin type-a receptor 4 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor sek) (receptor protein-tyrosine kinase hek8). [swissprot;acc:p54764] 1726
ephrin type-a receptor 5 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor ehk-1) (eph homology kinase-1) (receptor protein- tyrosine kinase hek7). [swissprot;acc:p54756] 1721
ephrin type-a receptor 7 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor ehk-3) (eph homology kinase-3) (receptor protein- tyrosine kinase hek11). [swissprot;acc:q15375] 1723
ephrin type-a receptor 8 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor eek) (eph-and elk-related kinase) (hek3). [swissprot;acc:p29322] 1729
ephrin type-b receptor 1 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor eph-2) (net) (hek6) (elk). [swissprot;acc:p54762] 1720
ephrin type-b receptor 2 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor eph-3) (drt) (receptor protein-tyrosine kinase hek5) (erk). [swissprot;acc:p29323] 1724
ephrin type-b receptor 4 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor htk). [swissprot;acc:p54760] 46 0 24 67 2.79167
1727 1 7384.03 7628.26 1.03308
ephrin type-b receptor 6 precursor (tyrosine-protein kinase-defective receptor eph-6) (hep). [swissprot;acc:o15197] 1728
epidermal growth factor receptor kinase substrate eps8. [swissprot;acc:q12929] 1178 7660.99 7940.13 1.03644
1261 High confidence 5685.34 6157.53 1.08305
epidermal growth factor receptor pathway substrate 8-like protein 1 isoform c; epidermal growth factor receptor pathway substrate 8-related protein 1; eps8-related protein 1. [refseq;acc:nm_139204] 1179 Low confidence 7660.66 7939.84 1.03644
1259 High confidence 5685.38 6157.7 1.08308
epidermal growth factor receptor pathway substrate 8-like protein 2; eps8-related protein 2; epidermal growth factor receptor pathway substrate 8-related protein 2. [refseq;acc:nm_022772] 1187 Low confidence 7663.15 7942 1.03639
1270 High confidence 5685.08 6156.48 1.08292
epidermal growth factor receptor precursor (ec 2.7.1.112) (receptor protein-tyrosine kinase erbb-1). [swissprot;acc:p00533] 1391 5743.36 6192.7 1.07824
2059 Low confidence 7455.02 7692.75 1.03189
epidermal growth factor receptor substrate 15 (protein eps15) (af-1p protein). [swissprot;acc:p42566] 4687 8513.95 8640.73 1.01489
epidermal growth factor receptor substrate eps15r. [refseq;acc:nm_021235] 4676 8503.69 8633.02 1.01521
epididymal secretory protein e1 precursor (niemann-pick disease type c2 protein) (epi-1) (he1) (epididymal secretory protein 14.6) (esp14.6). [swissprot;acc:q15668] 872 High confidence 6781.05 7480.15 1.1031
892 Low confidence 8119.56 8442.71 1.0398
epithelial discoidin domain receptor 1 precursor (ec 2.7.1.112) (tyrosine-protein kinase cak) (cell adhesion kinase) (tyrosine kinase ddr) (discoidin receptor tyrosine kinase) (trk e) (protein-tyrosine kinase rtk 6) (cd167a antigen). [swissprot;acc:q08345] 2911 8088.57 8318.7 1.02845
epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830] 2173 High confidence 3641.4 3462.96 1.05153
4612 Low confidence 7434.1 7556.88 1.01652
epoxide hydrolase 1 (ec 3.3.2.3) (microsomal epoxide hydrolase) (epoxide hydratase). [swissprot;acc:p07099] 1573 High confidence 11785.4 10995.3 1.07186
3701 Low confidence 8140.64 8341.87 1.02472
epsin 1; eh domain-binding mitotic phosphoprotein. [refseq;acc:nm_013333] 319 8527.78 9018.27 1.05752
1801 High confidence 5881.33 6268.57 1.06584

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/