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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Filtered Value Type Rank Gene description green Network Comparison Type Interaction Map red network_comparison
Results: HTML CSV LaTeX Showing element 1 to 50 of 38536 in total
Filtered	0
Value Type Measured
Network Comparison Type Divided
Rank description green Interaction Map red network_comparison 1 mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [source:swissprot;acc:q9y6g3] 0.00001 High confidence 364 36400000 1 mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [source:swissprot;acc:q9y6g3] 0.00001 Low confidence 364 36400000 2 cab2. [source:refseq;acc:nm_033419] 174 High confidence 0.00001 17400000 2 homeobox protein hox-c4 (hox-3e) (cp19). [source:swissprot;acc:p09017] 89 Low confidence 0.00001 8900000 3 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630] 89 Low confidence 0.00001 8900000 3 pyridoxine 5'-phosphate oxidase. [source:refseq;acc:nm_018129] 109 High confidence 0.00001 10900000 4 homeobox protein hox-a4 (hox-1d) (hox-1.4). [source:swissprot;acc:q00056] 89 Low confidence 0.00001 8900000 4 homeobox protein hox-c4 (hox-3e) (cp19). [source:swissprot;acc:p09017] 89 High confidence 0.00001 8900000 5 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630] 89 High confidence 0.00001 8900000 5 jumonji protein. [source:swissprot;acc:q92833] 17.5166 Low confidence 0.00001 1751660 6 homeobox protein hox-a4 (hox-1d) (hox-1.4). [source:swissprot;acc:q00056] 89 High confidence 0.00001 8900000 6 homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [source:swissprot;acc:q93099] 0.00001 Low confidence 13 1300000 7 sedlin. [source:swissprot;acc:o14582] 43 High confidence 0.00001 4300000 7 tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [source:refseq;acc:nm_007063] 0.00001 Low confidence 2.31962 231962 8 ba508n22.1 (hspc025) (fragment). [source:sptrembl;acc:q9hcw5] 6410 Low confidence 85 75.4118 8 synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [source:swissprot;acc:q9y296] 43 High confidence 0.00001 4300000 9 ba508n22.1 (hspc025) (fragment). [source:sptrembl;acc:q9hcw5] 6410 High confidence 85 75.4118 9 ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [source:swissprot;acc:o14607] 10.6048 Low confidence 383.762 36.1876 10 lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [source:swissprot;acc:p50851] 6410 High confidence 85 75.4118 10 serpin b12. [source:swissprot;acc:q96p63] 5.56738 Low confidence 199.549 35.8425 11 hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [source:swissprot;acc:q9uiv8] 5.71669 Low confidence 199.249 34.8539 11 serpin b12. [source:swissprot;acc:q96p63] 5.56738 High confidence 199.549 35.8425 12 hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [source:swissprot;acc:q9uiv8] 5.71669 High confidence 199.249 34.8539 12 mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [source:swissprot;acc:q14849] 58 Low confidence 859 14.8103 13 adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [source:swissprot;acc:q9np61] 47 High confidence 1363 29 13 fk506-binding protein 6 (ec 5.2.1.8) (peptidyl-prolyl cis-trans isomerase) (ppiase) (rotamase) (36 kda fk506 binding protein) (fkbp- 36) (immunophilin fkbp36). [source:swissprot;acc:o75344] 115.385 Low confidence 8.11997 14.21 14 cyclin h (mo15-associated protein) (p37) (p34). [source:swissprot;acc:p51946] 6.50325 High confidence 130.512 20.0687 14 guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [source:swissprot;acc:q9byb4] 59 Low confidence 0.00001 5900000 15 lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [source:swissprot;acc:p50851] 2740.13 Low confidence 485.286 5.64642 15 succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [source:swissprot;acc:o14521] 156 High confidence 10 15.6 16 protein kinase, lysine deficient 3. [source:refseq;acc:nm_020922] 704.5 Low confidence 125 5.636 16 protein transport protein sec24c (sec24-related protein c). [source:swissprot;acc:p53992] 15 High confidence 1 15 17 mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [source:swissprot;acc:q14849] 58 High confidence 859 14.8103 17 ptd016 protein. [source:refseq;acc:nm_016125] 158 Low confidence 30 5.26667 18 60s ribosomal protein l37a. [source:swissprot;acc:p12751] 26.1599 High confidence 305.45 11.6763 18 camp-regulated phosphoprotein 19 (arpp-19) [contains: camp-regulated phosphoprotein 16 (arpp-16)]. [source:swissprot;acc:p56211] 19 Low confidence 99 5.21053 19 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [source:swissprot;acc:o15528] 26.1599 High confidence 305.45 11.6763 19 fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [source:refseq;acc:nm_013402] 662 Low confidence 153 4.3268 20 beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [source:refseq;acc:nm_031938] 139 Low confidence 570 4.10072 20 ero1-like. [source:refseq;acc:nm_014584] 0.00001 High confidence 82 8200000 21 potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [source:refseq;acc:nm_012281] 434.911 Low confidence 111.278 3.90833 21 syntaxin 10 (syn10). [source:swissprot;acc:o60499] 17.6611 High confidence 118.878 6.73106 22 carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [source:refseq;acc:nm_021615] 0.00001 Low confidence 37 3700000 22 similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [source:refseq;acc:nm_032517] 0.00001 High confidence 60 6000000 23 carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [source:refseq;acc:nm_004267] 0.00001 Low confidence 37 3700000 23 guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [source:swissprot;acc:q9byb4] 59 High confidence 0.00001 5900000 24 cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [source:swissprot;acc:q9ubr2] 493 Low confidence 154 3.2013 24 ptd016 protein. [source:refseq;acc:nm_016125] 158 High confidence 30 5.26667 25 lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [source:refseq;acc:nm_003893] 39.8063 Low confidence 12.6208 3.15402 25 potential phospholipid-transporting atpase iia (ec 3.6.1.-). [source:swissprot;acc:o75110] 773 High confidence 148 5.22297 Legend: - Rank is the rank after comparing the two networks - 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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