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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 3551 to 3600 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
1776 keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060] Subtracted 6076.66 6463.14 386.48
zinc finger protein 261 (dxs6673e protein). [swissprot;acc:q14202] Divided 5386.37 5744.89 1.06656
1777 keratin associated protein 4-2; keratin associated protein 4.2. [refseq;acc:nm_033062] Subtracted 6076.66 6463.14 386.48
zinc finger protein 262; cell death inhibiting rna. [refseq;acc:nm_005095] Divided 5386.37 5744.89 1.06656
1778 actin-like protein 2 (actin-related protein 2). [swissprot;acc:o15142]
keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4] Subtracted 6076.66 6463.14 386.48
1779 conserved oligomeric golgi complex component 3 (vesicle docking protein sec34 homolog) (p94). [swissprot;acc:q96jb2] Divided 5386.37 5744.89 1.06656
keratin associated protein 1.5. [refseq;acc:nm_031957] Subtracted 6076.66 6463.14 386.48
1780 keratin, ultra high-sulfur matrix protein b (uhs keratin b) (uhs kerb). [swissprot;acc:o75690]
similar to actin-related protein 3-beta. [sptrembl;acc:q96bt2] Divided 5386.37 5744.89 1.06656
1781 arp2/3 complex 41 kda subunit (p41-arc) (actin-related protein 2/3 complex subunit 1b). [swissprot;acc:o15143]
keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371] Subtracted 6076.66 6463.14 386.48
1782 keratin associated protein 4.4. [refseq;acc:nm_032524]
zinc finger protein 198 (fused in myeloproliferative disorders protein) (rearranged in atypical myeloproliferative disorder protein). [swissprot;acc:q9ubw7] Divided 5386.37 5744.89 1.06656
1783 actin-like protein 3 (actin-related protein 3) (actin-2). [swissprot;acc:p32391]
keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966] Subtracted 6076.66 6463.14 386.48
1784 arp2/3 complex 21 kda subunit (p21-arc) (actin-related protein 2/3 complex subunit 3). [swissprot;acc:o15145] Divided 5386.37 5744.89 1.06656
keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059] Subtracted 6076.66 6463.13 386.47
1785 keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8]
nardilysin precursor (ec 3.4.24.61) (n-arginine dibasic convertase) (nrd convertase) (nrd-c). [swissprot;acc:o43847] Divided 5386.37 5744.89 1.06656
1786 actin-related protein 2/3 complex subunit 1a (sop2-like protein). [swissprot;acc:q92747]
keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854] Subtracted 6076.66 6463.13 386.47
1787 interferon-related developmental regulator 2 (skmc15 protein). [swissprot;acc:q12894] Divided 5386.48 5744.78 1.06652
star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095] Subtracted 6076.66 6463.13 386.47
1788 arp2/3 complex 16 kda subunit (p16-arc) (actin-related protein 2/3 complex subunit 5). [swissprot;acc:o15511] Divided 5386.49 5744.76 1.06651
star-related lipid transfer protein 4 (stard4) (start domain- containing protein 4). [swissprot;acc:q96dr4] Subtracted 6076.66 6463.13 386.47
1789 serine/threonine protein kinase 12 (ec 2.7.1.37) (aurora- and ipl1- like midbody-associated protein 1) (aim-1) (aurora/ipl1-related kinase 2) (aurora-related kinase 2) (stk-1) (aurora-b). [swissprot;acc:q96gd4] Divided 5839.72 6227.33 1.06637
star-related lipid transfer protein 5 (stard5) (start domain- containing protein 5). [swissprot;acc:q9nsy2] Subtracted 6076.66 6463.12 386.46
1790 alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7]
kinesin-like protein kif23 (mitotic kinesin-like protein-1) (kinesin- like protein 5). [swissprot;acc:q02241] Divided 5839.72 6227.33 1.06637
1791 pinch protein (particularly interesting new cys-his protein) (lim and senescent cell antigen-like domains 1). [swissprot;acc:p48059] Subtracted 6076.66 6463.12 386.46
serine/threonine protein kinase 13 (ec 2.7.1.37) (aurora/ipl1/eg2 protein 2) (aurora/ipl1-related kinase 3) (aurora-c). [swissprot;acc:q9uqb9] Divided 5839.72 6227.33 1.06637
1792 integrin-linked protein kinase 1 (ec 2.7.1.-) (ilk-1) (59 kda serine/threonine protein kinase) (p59ilk). [swissprot;acc:q13418] Subtracted 6076.66 6463.12 386.46
serine/threonine kinase 6 (ec 2.7.1.37) (serine/threonine kinase 15) (aurora/ipl1-related kinase 1) (aurora-related kinase 1) (hark1) (aurora-a) (breast-tumor-amplified kinase). [swissprot;acc:o14965] Divided 5839.72 6227.33 1.06637
1793 cylindromatosis (turban tumor syndrome); cylindromatosis 1, turban tumor syndrome. [refseq;acc:nm_015247]
ras suppressor protein 1 (rsu-1) (rsp-1). [swissprot;acc:q15404] Subtracted 6076.66 6463.12 386.46
1794 epsin 2 isoform b; eps15 binding protein. [refseq;acc:nm_014964] Divided 5948.26 6342.84 1.06634
ras-gtpase-activating protein binding protein 1 (gap sh3-domain binding protein 1) (g3bp-1). [swissprot;acc:q13283] Subtracted 6076.66 6463.12 386.46
1795 dna-directed rna polymerases iii 12.5 kda polypeptide (ec 2.7.7.6) (rna polymerase iii c11 subunit) (hsc11p) (hrpc11) (my010 protein). [swissprot;acc:q9y2y1] Divided 5501.3 5866.02 1.0663
ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [swissprot;acc:q9un86] Subtracted 6076.66 6463.12 386.46
1796 espin. [refseq;acc:nm_031475]
tubulin tyrosine ligase-like protein hottl (hqp0207). [swissprot;acc:q9y4r7] Divided 5387.64 5743.5 1.06605
1797 cytochrome p450 2d6 (ec 1.14.14.1) (cypiid6) (p450-db1) (debrisoquine 4-hydroxylase). [swissprot;acc:p10635] Subtracted 6076.66 6463.12 386.46
valyl-trna synthetase 2 (ec 6.1.1.9) (valine--trna ligase 2) (valrs 2) (g7a). [swissprot;acc:p26640] Divided 5096.02 5432.63 1.06605
1798 60s ribosomal protein l32. [swissprot;acc:p02433] 3618.02 3394.29 1.06591
pleckstrin homology domain containing, family c (with ferm domain) member 1; mitogen inducible 2; kindlin 2. [refseq;acc:nm_006832] Subtracted 6076.66 6463.12 386.46
1799 lim and senescent cell antigen-like domains 2; ilk-binding protein. [refseq;acc:nm_017980]
translation initiation factor eif-2b beta subunit (eif-2b gdp-gtp exchange factor) (s20i15) (s20iii15). [swissprot;acc:p49770] Divided 5456.57 5816.14 1.0659
1800 d(4) dopamine receptor (d(2c) dopamine receptor). [swissprot;acc:p21917] Subtracted 6076.66 6463.12 386.46
translation initiation factor eif-2b delta subunit (eif-2b gdp-gtp exchange factor). [swissprot;acc:q9ui10] Divided 5424.3 5781.58 1.06587

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/