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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Rank Gene Hugo description Network Comparison Type Value Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2101 to 2150 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
description
Network Comparison Type
red
green
network_comparison
1051 no value 17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034] Divided 211.449 217.998 1.03097
ANXA11 annexin a11 (annexin xi) (calcyclin-associated annexin 50) (cap-50) (56 kda autoantigen). [swissprot;acc:p50995] Subtracted 219.673 213.378 6.295
1052 KARS lysyl-trna synthetase (ec 6.1.1.6) (lysine--trna ligase) (lysrs). [swissprot;acc:q15046] 220.291 226.584 6.293
RDH8 retinol dehydrogenase 8 (all-trans); photoreceptor outer segment all-trans retinol dehydrogenase. [refseq;acc:nm_015725] Divided 211.449 217.998 1.03097
1053 ANXA7 annexin a7 (annexin vii) (synexin). [swissprot;acc:p20073] Subtracted 219.655 213.385 6.27
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] Divided 207.04 200.84 1.03087
1054 no value 60s ribosomal protein l21. [swissprot;acc:p46778] 223.958 217.263 1.03082
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] Subtracted 207.04 200.84 6.2
1055 ASNSD1 hcv ns3-transactivated protein 1. [refseq;acc:nm_019048] Divided 219.01 212.468 1.03079
NFU1 hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0] Subtracted 138.705 132.538 6.167
1056 no value methyltransferase like 2. [refseq;acc:nm_018396] 147.211 153.371 6.16
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] Divided 219.01 212.468 1.03079
1057 ASNS asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243]
DYNLT1 cytoplasmic dynein light chain (t-complex testis-specific protein 1 homolog) (protein cw-1). [swissprot;acc:q15763] Subtracted 147.211 153.371 6.16
1058 ATXN2L ataxin 2 related protein isoform a; ataxin-2 domain protein. [refseq;acc:nm_007245] Divided 228.105 221.293 1.03078
FZR1 fzr1 protein; fizzy-related protein; cdc20-like 1b. [refseq;acc:nm_016263] Subtracted 147.211 153.371 6.16
1059 no value ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973] Divided 228.105 221.293 1.03078
PCSK5 proprotein convertase subtilisin/kexin type 5 precursor (ec 3.4.21.-) (proprotein convertase pc5) (subtilisin/kexin-like protease pc5) (convertase pc5) (pc6) (hpc6). [swissprot;acc:q92824] Subtracted 147.211 153.371 6.16
1060 NLK nemo-like kinase; likely ortholog of mouse nemo like kinase. [refseq;acc:nm_016231] Divided 218.162 211.648 1.03078
SEPT6 septin 6. [swissprot;acc:q14141] Subtracted 126.604 120.463 6.141
1061 AP3M1 adapter-related protein complex 3 mu 1 subunit (mu-adaptin 3a) (ap-3 adapter complex mu3a subunit). [swissprot;acc:q9y2t2] 217.323 211.185 6.138
ERC1 elks protein. [refseq;acc:nm_015064] Divided 218.162 211.648 1.03078
1062 BRP44 brain protein 44. [swissprot;acc:o95563] Subtracted 126.215 120.078 6.137
ZNF174 zinc finger protein 174 (aw-1). [swissprot;acc:q15697] Divided 269.963 278.239 1.03066
1063 no value zinc finger imprinted 2. [swissprot;acc:q9nzv7] 269.96 278.232 1.03064
SEPT7 septin 7 (cdc10 protein homolog). [swissprot;acc:q16181] Subtracted 126.215 120.078 6.137
1064 AP3M2 adapter-related protein complex 3 mu 2 subunit (clathrin coat assembly protein ap47 homolog 2) (clathrin coat associated protein ap47 homolog 2) (golgi adaptor ap-1 47 kda protein homolog 2) (ha1 47 kda subunit homolog 2) (clathrin assembly protein assembly protein complex 1 medium chain homolog 2) (p47b). [swissprot;acc:p53677] 217.315 211.183 6.132
ZNF24 zinc finger protein 24 (zinc finger protein 191) (zinc finger protein kox17) (retinoic acid suppression protein a) (rsg-a). [swissprot;acc:p17028] Divided 269.955 278.221 1.03062
1065 SEPT10 septin 10 isoform 1. [refseq;acc:nm_144710] Subtracted 125.526 119.402 6.124
ZSCAN12 zinc finger protein 305. [swissprot;acc:o43309] Divided 269.954 278.219 1.03062
1066 SEPT8 septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599] Subtracted 124.434 118.318 6.116
ZNF18 zinc finger protein 18 (zinc finger protein kox11) (fragment). [swissprot;acc:p17022] Divided 269.956 278.223 1.03062
1067 GTPBP3 mitochondrial gtp binding protein isoform v. [refseq;acc:nm_032620] Subtracted 213.552 207.463 6.089
ZNF215 zinc finger protein 215 (bwscr2 associated zinc-finger protein 2) (baz 2). [swissprot;acc:q9ul58] Divided 269.956 278.223 1.03062
1068 NDUFB9 nadh-ubiquinone oxidoreductase b22 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b22) (ci-b22). [swissprot;acc:q9y6m9] Subtracted 212.345 206.339 6.006
ZNF274 zinc finger protein 274 (zinc finger protein sp2114) (zinc finger protein hfb101) (zinc finger protein zfp2) (zf2). [swissprot;acc:q96gc6] Divided 269.953 278.215 1.03061
1069 DPH1 candidate tumor suppressor in ovarian cancer 2. [refseq;acc:nm_080822] Subtracted 229.243 235.246 6.003
ZNF232 zinc finger protein 232. [swissprot;acc:q9uny5] Divided 269.954 278.218 1.03061
1070 GIT2 arf gtpase-activating protein git2 (g protein-coupled receptor kinase- interactor 2). [swissprot;acc:q14161] Subtracted 216.78 222.782 6.002
ZNF394 zinc finger protein 99. [refseq;acc:nm_032164] Divided 269.954 278.218 1.03061
1071 no value dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [swissprot;acc:q9y2s0] 231.277 238.356
MPHOSPH10 u3 small nucleolar ribonucleoprotein protein mpp10 (m phase phosphoprotein 10). [swissprot;acc:o00566] Subtracted 241.496 235.508 5.988
1072 PPA1 inorganic pyrophosphatase (ec 3.6.1.1) (pyrophosphate phospho- hydrolase) (ppase). [swissprot;acc:q15181] 224.307 230.242 5.935
ZNF213 zinc finger protein 213 (putative transcription factor cr53). [swissprot;acc:o14771] Divided 269.954 278.217 1.03061
1073 PPA2 inorganic pyrophosphatase 2 isoform 1. [refseq;acc:nm_176869] Subtracted 224.307 230.242 5.935
WBP2 ww domain binding protein 2 (wbp-2). [swissprot;acc:q969t9] Divided 216.901 210.485 1.03048
1074 AIPL1 aryl-hydrocarbon interacting protein-like 1. [swissprot;acc:q9nzn9] Subtracted 224.307 230.242 5.935
COPB2 coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606] Divided 174.387 179.697 1.03045
1075 AIP ah receptor-interacting protein (aip) (immunophilin homolog ara9) (hbv-x associated protein 2). [swissprot;acc:o00170] Subtracted 224.307 230.242 5.935
COPG coatomer gamma subunit (gamma-coat protein) (gamma-cop). [swissprot;acc:q9y678] Divided 174.387 179.697 1.03045

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/