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 description Value Type Interaction Map red Filtered green network_comparison
Results: HTML CSV LaTeX Showing element 1513 to 1562 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
description
red
green
network_comparison
757 Divided bactericidal permeability-increasing protein precursor (bpi) (cap 57). [swissprot;acc:p17213] 224.434 235.583 1.04968
Subtracted cytoplasmic antiproteinase 3 (cap3) (cap-3) (protease inhibitor 9) (serpin b9). [swissprot;acc:p50453] 224.244 234.511 10.267
758 Divided phospholipid transfer protein precursor (lipid transfer protein ii). [swissprot;acc:p55058] 224.434 235.583 1.04968
Subtracted maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] 224.244 234.511 10.267
759 Divided osteoclast stimulating factor 1. [swissprot;acc:q92882] 231.809 243.289 1.04952
Subtracted bomapin (protease inhibitor 10) (serpin b10). [swissprot;acc:p48595] 224.244 234.511 10.267
760 Divided upf0202 protein kiaa1709. [swissprot;acc:q9h0a0] 246.055 234.458 1.04946
Subtracted plasminogen activator inhibitor-2 precursor (pai-2) (placental plasminogen activator inhibitor) (monocyte arg-serpin) (urokinase inhibitor). [swissprot;acc:p05120] 224.244 234.511 10.267
761 Divided signal transduction protein cbl-b (sh3-binding protein cbl-b). [swissprot;acc:q13191] 213.325 203.303 1.0493
Subtracted serpin b11. [swissprot;acc:q96p15] 224.244 234.511 10.267
762 Divided cbl e3 ubiquitin protein ligase (ec 6.3.2.-) (signal transduction protein cbl) (proto-oncogene c-cbl). [swissprot;acc:p22681] 213.256 203.237 1.0493
Subtracted placental thrombin inhibitor (cytoplasmic antiproteinase) (cap) (protease inhibitor 6) (pi-6). [swissprot;acc:p35237] 224.244 234.511 10.267
763 Divided putative n6-dna-methyltransferase (ec 2.1.1.-) (protein pred28) (m.hsahemk2p). [swissprot;acc:q9y5n5] 228.78 218.091 1.04901
Subtracted cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452] 224.244 234.511 10.267
764 Divided u4/u6-associated rna splicing factor. [refseq;acc:nm_004698] 222.082 211.707 1.04901
Subtracted leukocyte elastase inhibitor (lei) (monocyte/neutrophil elastase inhibitor) (m/nei) (ei). [swissprot;acc:p30740] 224.244 234.511 10.267
765 Divided hemk protein homolog (ec 2.1.1.-) (m.hsahemkp). [swissprot;acc:q9y5r4] 229.045 218.343 1.04901
Subtracted eukaryotic translation initiation factor 3 subunit 9 (eif-3 eta) (eif3 p116) (eif3 p110) (eif3b). [swissprot;acc:p55884] 243.067 232.805 10.262
766 Divided protein tara (trio-associated repeat on actin) (hrihfb2122). [swissprot;acc:q9h2d6] 213.804 224.226 1.04875
Subtracted sorting nexin 6 (traf4-associated factor 2). [swissprot;acc:q9unh7] 209.191 219.332 10.141
767 Divided rho interacting protein 3. [refseq;acc:nm_015134] 213.803 224.224 1.04874
Subtracted dna-directed rna polymerase ii 14.5 kda polypeptide (ec 2.7.7.6) (rpb9) (rpb14.5). [swissprot;acc:p36954] 228.563 238.668 10.105
768 Divided dnaj homolog subfamily b member 4 (heat shock 40 kda protein 1 homolog) (heat shock protein 40 homolog) (hsp40 homolog). [swissprot;acc:q9udy4] 210.946 221.225 1.04873
Subtracted signal transduction protein cbl-b (sh3-binding protein cbl-b). [swissprot;acc:q13191] 213.325 203.303 10.022
769 Divided cab2. [refseq;acc:nm_033419] 210.946 221.225 1.04873
Subtracted cbl e3 ubiquitin protein ligase (ec 6.3.2.-) (signal transduction protein cbl) (proto-oncogene c-cbl). [swissprot;acc:p22681] 213.256 203.237 10.019
770 Divided dnaj homolog subfamily b member 5 (heat shock protein hsp40-3) (heat shock protein cognate 40) (hsc40) (hsp40-2). [swissprot;acc:o75953] 210.946 221.225 1.04873
Subtracted ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570] 59 49 10
771 Divided dnaj homolog subfamily b member 1 (heat shock 40 kda protein 1) (heat shock protein 40) (hsp40) (dnaj protein homolog 1) (hdj-1). [swissprot;acc:p25685] 210.946 221.225 1.04873
Subtracted ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157] 59 49 10
772 Divided eukaryotic peptide chain release factor subunit 1 (erf1) (eukaryotic release factor 1) (tb3-1) (c11 protein). [swissprot;acc:p46055] 210.946 221.225 1.04873
Subtracted ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064] 59 49 10
773 Divided suppressor of actin mutations 2-like isoform b; dj1033b10.5. [refseq;acc:nm_022553] 210.946 221.225 1.04873
Subtracted anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685] 59 49 10
774 Divided multiple coagulation factor deficiency 2; neural stem cell derived neuronal survival protein; multiple coagulation factor deficiency protein 2. [refseq;acc:nm_139279] 225.996 215.535 1.04854
Subtracted mitochondrial 28s ribosomal protein s2 (mrp-s2) (cgi-91). [swissprot;acc:q9y399] 221.716 231.501 9.785
775 Divided histone deacetylase 2 (hd2). [swissprot;acc:q92769] 226.003 215.541 1.04854
Subtracted u3 snornp protein 4 homolog. [refseq;acc:nm_033416] 221.676 231.453 9.777
776 Divided dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8] 225.996 215.535 1.04854
Subtracted sequestosome 1; ubiquitin-binding protein p62; phosphotyrosine independent ligand for the lck sh2 domain p62. [refseq;acc:nm_003900] 221.965 212.404 9.561
777 Divided histone deacetylase 1 (hd1). [swissprot;acc:q13547] 225.989 215.53 1.04853
Subtracted nonspecific lipid-transfer protein, mitochondrial precursor (nsl-tp) (sterol carrier protein 2) (scp-2) (sterol carrier protein x) (scp-x) (scpx). [swissprot;acc:p22307] 221.965 212.404 9.561
778 Divided sorting nexin 6 (traf4-associated factor 2). [swissprot;acc:q9unh7] 209.191 219.332 1.04848
Subtracted beta-catenin (pro2286). [swissprot;acc:p35222] 224.445 214.894 9.551
779 Divided deoxycytidylate deaminase (ec 3.5.4.12) (dcmp deaminase). [swissprot;acc:p32321] 230.516 241.641 1.04826
Subtracted parkinson disease (autosomal recessive, juvenile) 2, parkin isoform 1; parkin. [refseq;acc:nm_004562] 231.734 222.222 9.512
780 Divided dna-directed rna polymerase ii 14.4 kda polypeptide (ec 2.7.7.6) (rpb6) (rpb14.4) (rpabc2). [swissprot;acc:p41584] 232.762 243.933 1.04799
Subtracted hepatoma-derived growth factor-related protein 2. [refseq;acc:nm_032631] 231.734 222.222 9.512
781 Divided ribosomal protein p0-like protein; 60s acidic ribosomal protein po; ribosomal protein, large, p0-like. [refseq;acc:nm_016183] 245.84 257.636 1.04798
Subtracted cgi-142; hepatoma-derived growth factor 2. [refseq;acc:nm_016073] 231.734 222.222 9.512

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.
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