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 description Gene green Network Comparison Type Interaction Map red network_comparison
Results: HTML CSV LaTeX Showing element 951 to 1000 of 19268 in total
Filtered  : 0
Value Type  : Ranked
Rank
description
green
Network Comparison Type
Interaction Map
red
network_comparison
238 keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184] 11573.7 Subtracted High confidence 10551.6 1022.1
similar to zinc finger protein 85 (zinc finger protein hpf4) (htf1). [refseq;acc:nm_145287] 4853.29 Divided Low confidence 4256.39 1.14024
239 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] 10927.4 Subtracted 12003.2 1075.8
keratin associated protein 1.5. [refseq;acc:nm_031957] 11573.7 High confidence 10551.6 1022.1
mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2] 9795.36 Divided 8907.41 1.09969
similar to zinc finger protein 136. [refseq;acc:nm_145295] 4853.29 Low confidence 4256.39 1.14024
240 cytochrome c oxidase polypeptide viic, mitochondrial precursor (ec 1.9.3.1). [swissprot;acc:p15954] 9049.44 Subtracted 7975.69 1073.75
keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371] 11573.7 High confidence 10551.6 1022.1
methyltransferase like 2. [refseq;acc:nm_018396] 16326 Divided 17946 1.09923
similar to dna-binding protein; zinc finger protein 253. [refseq;acc:nm_145297] 4853.29 Low confidence 4256.39 1.14024
241 keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966] 11573.7 Subtracted High confidence 10551.6 1022.1
potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110] 10994.9 Low confidence 12067.3 1072.4
secreted modular calcium-binding protein 1. [refseq;acc:nm_022137] 12743.3 Divided High confidence 14003.7 1.09891
zinc finger protein 132. [swissprot;acc:p52740] 4853.03 Low confidence 4256.15 1.14024
242 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 13895.8 High confidence 15260.6 1.09822
keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060] 11573.6 Subtracted 10551.6 1022
sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772] 8262.77 Low confidence 7190.64 1072.13
zinc finger protein 84 (zinc finger protein hpf2). [swissprot;acc:p51523] 4853.29 Divided 4256.39 1.14024
243 keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059] 11573.5 Subtracted High confidence 10551.6 1021.9
long-chain-fatty-acid--coa ligase 5 (ec 6.2.1.3) (long-chain acyl-coa synthetase 5) (lacs 5). [swissprot;acc:q9ulc5] 11406.1 Low confidence 12476.2 1070.1
polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361] 1373 Divided High confidence 1251 1.09752
zinc finger protein 121 (zinc finger protein 20) (fragment). [swissprot;acc:p58317] 4853.62 Low confidence 4256.71 1.14023
244 keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8] 11573.5 Subtracted High confidence 10551.6 1021.9
keratin associated protein 9.2. [refseq;acc:nm_031961] 11579.9 Divided 10551.1 1.09751
napsin 1 precursor (ec 3.4.23.-) (napsin a) (napa) (ta01/ta02) (aspartyl protease 4) (asp 4) (asp4). [swissprot;acc:o96009] 11424.6 Subtracted Low confidence 10354.8 1069.8
zinc finger protein af020591. [refseq;acc:nm_014480] 4853.87 Divided 4256.94 1.14023
245 cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526] 13019 High confidence 11867.6 1.09702
keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854] 11573.5 Subtracted 10551.6 1021.9
soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825] 11370.4 Low confidence 10303.5 1066.9
zinc finger protein 20 (zinc finger protein kox13) (dkfzp572p0920). [swissprot;acc:p17024] 4853.87 Divided 4256.94 1.14023
246 keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4] 11573.7 High confidence 10551.6 1.09687
potential phospholipid-transporting atpase vc (ec 3.6.3.1) (atpvc) (aminophospholipid translocase vc). [swissprot;acc:o60312] 11757.1 Subtracted Low confidence 12819.4 1062.3
star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095] 11573.5 High confidence 10551.6 1021.9
zinc finger protein 11b (fragment). [swissprot;acc:q06732] 4853.45 Divided Low confidence 4256.55 1.14023
247 espin. [refseq;acc:nm_031475] 11573.4 Subtracted High confidence 10551.6 1021.8
interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123] 14091.9 Low confidence 15147.2 1055.3
keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184] 11573.7 Divided High confidence 10551.6 1.09687
zinc finger protein 208. [swissprot;acc:o43345] 4853.87 Low confidence 4256.94 1.14023
248 keratin associated protein 1.5. [refseq;acc:nm_031957] 11573.7 High confidence 10551.6 1.09687
poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631] 9878.1 Subtracted 10899.4 1021.3
sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633] 12566.8 Low confidence 11514.3 1052.5
zinc finger protein 136. [swissprot;acc:p52737] 4853.62 Divided 4256.71 1.14023
249 gonadotropin inducible transcription repressor-1 (giot-1). [swissprot;acc:q8taf7] 4854.04 4257.1 1.14022
keratin associated protein 9-4; keratin associated protein 9.4. [refseq;acc:nm_033191] 11566.4 Subtracted High confidence 10552.2 1014.2
keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371] 11573.7 Divided 10551.6 1.09687
probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [swissprot;acc:o75185] 9653.62 Subtracted Low confidence 8603.02 1050.6
250 keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966] 11573.7 Divided High confidence 10551.6 1.09687
laminin beta-1 chain precursor (laminin b1 chain). [swissprot;acc:p07942] 16072.6 Subtracted Low confidence 15027.9 1044.7
phospholipid scramblase 3 (pl scramblase 3) (ca(2+)-dependent phospholipid scramblase 3). [swissprot;acc:q9nry6] 13514.5 High confidence 12522.7 991.8
zinc finger protein 85 (zinc finger protein hpf4) (htf1). [swissprot;acc:q03923] 4854.21 Divided Low confidence 4257.26 1.14022

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/