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

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/