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 Value Type Network Comparison Type green Interaction Map red description network_comparison Filtered
Results: HTML CSV LaTeX Showing element 1213 to 1262 of 3228 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
green
red
description
network_comparison
1213 219.759 214.364 conserved oligomeric golgi complex component 2 (low density lipoprotein receptor defect c-complementing protein). [swissprot;acc:q14746] 1.02517
1214 kinesin-like protein kif13b (kinesin-like protein gakin). [swissprot;acc:q9nqt8]
1215 212.916 218.268 daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959] 1.02514
1216 212.918 218.269 retinoic acid induced 17; pias-like protein hzimp10. [refseq;acc:nm_020338] 1.02513
1217 217.258 211.959 glutaminyl-trna synthase (glutamine-hydrolyzing)-like 1. [refseq;acc:nm_018292] 1.025
1218 fatty-acid amide hydrolase (ec 3.1.-.-) (oleamide hydrolase) (anandamide amidohydrolase). [swissprot;acc:o00519]
1219 coactosin-like protein. [swissprot;acc:q14019]
1220 uracil-dna glycosylase, mitochondrial precursor (ec 3.2.2.-) (udg). [swissprot;acc:p13051]
1221 probable glutamyl-trna(gln) amidotransferase subunit b, mitochondrial precursor (ec 6.3.5.-) (glu-adt subunit b) (cytochrome oxidase assembly factor pet112 homolog). [swissprot;acc:o75879]
1222 211.936 206.774 tumor protein d53 (hd53) (d52-like 1). [swissprot;acc:q16890] 1.02496
1223 211.926 206.771 tumor protein d52 (n8 protein). [swissprot;acc:p55327] 1.02493
1224 231.524 225.906 folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [swissprot;acc:q05932] 1.02487
1225 170.989 166.846 ubiquitin-conjugating enzyme e2 e1 (ec 6.3.2.19) (ubiquitin-protein ligase e1) (ubiquitin carrier protein e1) (ubch6). [swissprot;acc:p51965] 1.02483
1226 ubiquitin-conjugating enzyme e2e 3; ubiquitin carrier protein; ubiquitin-protein ligase. [refseq;acc:nm_006357]
1227 168.219 172.365 pyrroline 5-carboxylate reductase isoform. [refseq;acc:nm_013328] 1.02465
1228 218.325 213.079 glutamate--cysteine ligase regulatory subunit (ec 6.3.2.2) (gamma- glutamylcysteine synthetase) (gamma-ecs) (gcs light chain) (glutamate--cysteine ligase modifier subunit). [swissprot;acc:p48507] 1.02462
1229 glutamate--cysteine ligase catalytic subunit (ec 6.3.2.2) (gamma- glutamylcysteine synthetase) (gamma-ecs) (gcs heavy chain). [swissprot;acc:p48506]
1230 214.288 219.55 interleukin-4 induced protein 1 precursor (fig-1 protein). [swissprot;acc:q96rq9] 1.02456
1231 207.637 212.724 putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7] 1.0245
1232 168.417 172.543 pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322]
1233 207.637 212.724 phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [swissprot;acc:p18669]
1234 phosphoglycerate mutase 2 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme m) (pgam-m) (bpg-dependent pgam 2) (muscle-specific phosphoglycerate mutase). [swissprot;acc:p15259]
1235 224.723 219.356 keratin associated protein 9-4; keratin associated protein 9.4. [refseq;acc:nm_033191] 1.02447
1236 224.699 219.354 keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060] 1.02437
1237 keratin associated protein 4-2; keratin associated protein 4.2. [refseq;acc:nm_033062]
1238 keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4]
1239 keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184]
1240 224.7 keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059]
1241 keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8]
1242 keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854]
1243 224.699 keratin associated protein 1.5. [refseq;acc:nm_031957]
1244 224.7 star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095]
1245 224.699 keratin, ultra high-sulfur matrix protein b (uhs keratin b) (uhs kerb). [swissprot;acc:o75690]
1246 keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371]
1247 224.7 star-related lipid transfer protein 5 (stard5) (start domain- containing protein 5). [swissprot;acc:q9nsy2]
1248 224.699 keratin associated protein 4.4. [refseq;acc:nm_032524]
1249 224.7 alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7]
1250 pinch protein (particularly interesting new cys-his protein) (lim and senescent cell antigen-like domains 1). [swissprot;acc:p48059]
1251 integrin-linked protein kinase 1 (ec 2.7.1.-) (ilk-1) (59 kda serine/threonine protein kinase) (p59ilk). [swissprot;acc:q13418]
1252 star-related lipid transfer protein 4 (stard4) (start domain- containing protein 4). [swissprot;acc:q96dr4]
1253 ras suppressor protein 1 (rsu-1) (rsp-1). [swissprot;acc:q15404]
1254 ras-gtpase-activating protein binding protein 1 (gap sh3-domain binding protein 1) (g3bp-1). [swissprot;acc:q13283]
1255 ras-gtpase-activating protein binding protein 2 (gap sh3-domain binding protein 2) (g3bp-2). [swissprot;acc:q9un86]
1256 224.699 keratin associated protein 1-3; keratin associated protein 1.3. [refseq;acc:nm_030966]
1257 224.7 espin. [refseq;acc:nm_031475]
1258 cytochrome p450 2d6 (ec 1.14.14.1) (cypiid6) (p450-db1) (debrisoquine 4-hydroxylase). [swissprot;acc:p10635]
1259 pleckstrin homology domain containing, family c (with ferm domain) member 1; mitogen inducible 2; kindlin 2. [refseq;acc:nm_006832]
1260 lim and senescent cell antigen-like domains 2; ilk-binding protein. [refseq;acc:nm_017980]
1261 d(4) dopamine receptor (d(2c) dopamine receptor). [swissprot;acc:p21917]
1262 224.678 219.353 keratin associated protein 9.2. [refseq;acc:nm_031961] 1.02428

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/