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 Hugo description Value Type Network Comparison Type Interaction Map Filtered red network_comparison green
Results: HTML CSV LaTeX Showing element 1047 to 1096 of 3228 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
description
red
network_comparison
green
1047 ESRRA steroid hormone receptor err1 (estrogen-related receptor, alpha) (err-alpha) (estrogen receptor-like 1). [swissprot;acc:p11474] 187.022 1.03104 181.391
1048 AGPAT4 1-acyl-sn-glycerol-3-phosphate acyltransferase delta (ec 2.3.1.51) (1- agp acyltransferase 4) (1-agpat 4) (lysophosphatidic acid acyltransferase-delta) (lpaat-delta) (1-acylglycerol-3-phosphate o- acyltransferase 4). [swissprot;acc:q9nrz5] 187.96 1.031 182.308
1049 no value adenine phosphoribosyltransferase (ec 2.4.2.7) (aprt). [swissprot;acc:p07741] 211.449 1.03097 217.998
1050 HSD17B1 estradiol 17 beta-dehydrogenase 1 (ec 1.1.1.62) (17-beta-hsd 1) (placental 17-beta-hydroxysteroid dehydrogenase) (20 alpha- hydroxysteroid dehydrogenase) (20-alpha-hsd) (e2dh). [swissprot;acc:p14061]
1051 no value 17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034]
1052 RDH8 retinol dehydrogenase 8 (all-trans); photoreceptor outer segment all-trans retinol dehydrogenase. [refseq;acc:nm_015725]
1053 PSMA5 proteasome subunit alpha type 5 (ec 3.4.25.1) (proteasome zeta chain) (macropain zeta chain) (multicatalytic endopeptidase complex zeta chain). [swissprot;acc:p28066] 207.04 1.03087 200.84
1054 no value 60s ribosomal protein l21. [swissprot;acc:p46778] 223.958 1.03082 217.263
1055 ASNSD1 hcv ns3-transactivated protein 1. [refseq;acc:nm_019048] 219.01 1.03079 212.468
1056 ATP6V1A vacuolar atp synthase catalytic subunit a, ubiquitous isoform (ec 3.6.3.14) (v-atpase a subunit 1) (vacuolar proton pump alpha subunit 1) (v-atpase 69 kda subunit 1) (isoform va68). [swissprot;acc:p38606]
1057 ASNS asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243]
1058 ATXN2L ataxin 2 related protein isoform a; ataxin-2 domain protein. [refseq;acc:nm_007245] 228.105 1.03078 221.293
1059 no value ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973]
1060 NLK nemo-like kinase; likely ortholog of mouse nemo like kinase. [refseq;acc:nm_016231] 218.162 211.648
1061 ERC1 elks protein. [refseq;acc:nm_015064]
1062 ZNF174 zinc finger protein 174 (aw-1). [swissprot;acc:q15697] 269.963 1.03066 278.239
1063 no value zinc finger imprinted 2. [swissprot;acc:q9nzv7] 269.96 1.03064 278.232
1064 ZNF24 zinc finger protein 24 (zinc finger protein 191) (zinc finger protein kox17) (retinoic acid suppression protein a) (rsg-a). [swissprot;acc:p17028] 269.955 1.03062 278.221
1065 ZSCAN12 zinc finger protein 305. [swissprot;acc:o43309] 269.954 278.219
1066 ZNF18 zinc finger protein 18 (zinc finger protein kox11) (fragment). [swissprot;acc:p17022] 269.956 278.223
1067 ZNF215 zinc finger protein 215 (bwscr2 associated zinc-finger protein 2) (baz 2). [swissprot;acc:q9ul58]
1068 ZNF274 zinc finger protein 274 (zinc finger protein sp2114) (zinc finger protein hfb101) (zinc finger protein zfp2) (zf2). [swissprot;acc:q96gc6] 269.953 1.03061 278.215
1069 ZNF232 zinc finger protein 232. [swissprot;acc:q9uny5] 269.954 278.218
1070 ZNF394 zinc finger protein 99. [refseq;acc:nm_032164]
1071 no value dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [swissprot;acc:q9y2s0] 231.277 238.356
1072 ZNF213 zinc finger protein 213 (putative transcription factor cr53). [swissprot;acc:o14771] 269.954 278.217
1073 WBP2 ww domain binding protein 2 (wbp-2). [swissprot;acc:q969t9] 216.901 1.03048 210.485
1074 COPB2 coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606] 174.387 1.03045 179.697
1075 COPG coatomer gamma subunit (gamma-coat protein) (gamma-cop). [swissprot;acc:q9y678]
1076 COPZ1 coatomer zeta-1 subunit (zeta-1 coat protein) (zeta-1 cop) (cgi-120) (hspc181). [swissprot;acc:q9y3c3]
1077 ARCN1 coatomer delta subunit (delta-coat protein) (delta-cop) (archain). [swissprot;acc:p48444]
1078 PPIE peptidyl-prolyl cis-trans isomerase e (ec 5.2.1.8) (ppiase e) (rotamase e) (cyclophilin e) (cyclophilin 33). [swissprot;acc:q9unp9]
1079 COPZ2 coatomer zeta-2 subunit (zeta-2 coat protein) (zeta-2 cop). [swissprot;acc:q9p299]
1080 ZNF444 zinc finger protein 444; endothelial zinc finger protein 2. [refseq;acc:nm_018337] 269.896 1.03037 278.093
1081 FAU 40s ribosomal protein s30. [swissprot;acc:q05472] 223.44 1.03027 216.875
1082 PLEKHF2 phafin 2; ph and fyve domain-containing protein 2. [refseq;acc:nm_024613] 220.118 1.03011 213.685
1083 SRD5A1 3-oxo-5-alpha-steroid 4-dehydrogenase 1 (ec 1.3.99.5) (steroid 5-alpha-reductase 1) (sr type 1) (s5ar). [swissprot;acc:p18405]
1084 SRD5A2 3-oxo-5-alpha-steroid 4-dehydrogenase 2 (ec 1.3.99.5) (steroid 5-alpha-reductase 2) (sr type 2) (5 alpha-sr2). [swissprot;acc:p31213]
1085 DKC1 dyskerin (nucleolar protein nap57) (cbf5 homolog). [swissprot;acc:o60832] 231.007 1.02968 237.864
1086 no value similar to zinc finger protein 277. [sptrembl;acc:q8wwa6] 236.679 1.02958 243.679
1087 zinc finger protein 277. [swissprot;acc:q9nrm2]
1088 ANXA11 annexin a11 (annexin xi) (calcyclin-associated annexin 50) (cap-50) (56 kda autoantigen). [swissprot;acc:p50995] 219.673 1.0295 213.378
1089 CSTF3 cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326] 121.428 1.02945 125.004
1090 no value similar to ribosomal protein, large, p0. [sptrembl;acc:q96fq9] 226.218 232.88
1091 block 23. [sptrembl;acc:q8nhw5] 226.205 1.02941 232.858
1092 RPLP0 60s acidic ribosomal protein p0 (l10e). [swissprot;acc:p05388] 226.203 232.855
1093 COPA coatomer alpha subunit (alpha-coat protein) (alpha-cop) (hepcop) (hep-cop) [contains: xenin (xenopsin-related peptide); proxenin]. [swissprot;acc:p53621] 177.432 1.02939 182.647
1094 ANXA7 annexin a7 (annexin vii) (synexin). [swissprot;acc:p20073] 219.655 1.02938 213.385
1095 GTPBP3 mitochondrial gtp binding protein isoform v. [refseq;acc:nm_032620] 213.552 1.02935 207.463
1096 NDUFB9 nadh-ubiquinone oxidoreductase b22 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b22) (ci-b22). [swissprot;acc:q9y6m9] 212.345 1.02911 206.339

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
- Hugo is the HGNC identifier if it exists
- 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/