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 Value Type description Network Comparison Type Interaction Map red Filtered network_comparison green
Results: HTML CSV LaTeX Showing element 1058 to 1107 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	network_comparison	green	
1058	ataxin 2 related protein isoform a; ataxin-2 domain protein. [source:refseq;acc:nm_007245]	228.105	1.03078	221.293	
1059	ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [source:refseq;acc:nm_002973]	228.105	1.03078	221.293	
1060	nemo-like kinase; likely ortholog of mouse nemo like kinase. [source:refseq;acc:nm_016231]	218.162	1.03078	211.648	
1061	elks protein. [source:refseq;acc:nm_015064]	218.162	1.03078	211.648	
1062	zinc finger protein 174 (aw-1). [source:swissprot;acc:q15697]	269.963	1.03066	278.239	
1063	zinc finger imprinted 2. [source:swissprot;acc:q9nzv7]	269.96	1.03064	278.232	
1064	zinc finger protein 24 (zinc finger protein 191) (zinc finger protein kox17) (retinoic acid suppression protein a) (rsg-a). [source:swissprot;acc:p17028]	269.955	1.03062	278.221	
1065	zinc finger protein 305. [source:swissprot;acc:o43309]	269.954	1.03062	278.219	
1066	zinc finger protein 18 (zinc finger protein kox11) (fragment). [source:swissprot;acc:p17022]	269.956	1.03062	278.223	
1067	zinc finger protein 215 (bwscr2 associated zinc-finger protein 2) (baz 2). [source:swissprot;acc:q9ul58]	269.956	1.03062	278.223	
1068	zinc finger protein 274 (zinc finger protein sp2114) (zinc finger protein hfb101) (zinc finger protein zfp2) (zf2). [source:swissprot;acc:q96gc6]	269.953	1.03061	278.215	
1069	zinc finger protein 232. [source:swissprot;acc:q9uny5]	269.954	1.03061	278.218	
1070	zinc finger protein 99. [source:refseq;acc:nm_032164]	269.954	1.03061	278.218	
1071	dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [source:swissprot;acc:q9y2s0]	231.277	1.03061	238.356	
1072	zinc finger protein 213 (putative transcription factor cr53). [source:swissprot;acc:o14771]	269.954	1.03061	278.217	
1073	ww domain binding protein 2 (wbp-2). [source:swissprot;acc:q969t9]	216.901	1.03048	210.485	
1074	coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [source:swissprot;acc:p35606]	174.387	1.03045	179.697	
1075	coatomer gamma subunit (gamma-coat protein) (gamma-cop). [source:swissprot;acc:q9y678]	174.387	1.03045	179.697	
1076	coatomer zeta-1 subunit (zeta-1 coat protein) (zeta-1 cop) (cgi-120) (hspc181). [source:swissprot;acc:q9y3c3]	174.387	1.03045	179.697	
1077	coatomer delta subunit (delta-coat protein) (delta-cop) (archain). [source:swissprot;acc:p48444]	174.387	1.03045	179.697	
1078	peptidyl-prolyl cis-trans isomerase e (ec 5.2.1.8) (ppiase e) (rotamase e) (cyclophilin e) (cyclophilin 33). [source:swissprot;acc:q9unp9]	174.387	1.03045	179.697	
1079	coatomer zeta-2 subunit (zeta-2 coat protein) (zeta-2 cop). [source:swissprot;acc:q9p299]	174.387	1.03045	179.697	
1080	zinc finger protein 444; endothelial zinc finger protein 2. [source:refseq;acc:nm_018337]	269.896	1.03037	278.093	
1081	40s ribosomal protein s30. [source:swissprot;acc:q05472]	223.44	1.03027	216.875	
1082	phafin 2; ph and fyve domain-containing protein 2. [source:refseq;acc:nm_024613]	220.118	1.03011	213.685	
1083	3-oxo-5-alpha-steroid 4-dehydrogenase 1 (ec 1.3.99.5) (steroid 5-alpha-reductase 1) (sr type 1) (s5ar). [source:swissprot;acc:p18405]	220.118	1.03011	213.685	
1084	3-oxo-5-alpha-steroid 4-dehydrogenase 2 (ec 1.3.99.5) (steroid 5-alpha-reductase 2) (sr type 2) (5 alpha-sr2). [source:swissprot;acc:p31213]	220.118	1.03011	213.685	
1085	dyskerin (nucleolar protein nap57) (cbf5 homolog). [source:swissprot;acc:o60832]	231.007	1.02968	237.864	
1086	similar to zinc finger protein 277. [source:sptrembl;acc:q8wwa6]	236.679	1.02958	243.679	
1087	zinc finger protein 277. [source:swissprot;acc:q9nrm2]	236.679	1.02958	243.679	
1088	annexin a11 (annexin xi) (calcyclin-associated annexin 50) (cap-50) (56 kda autoantigen). [source:swissprot;acc:p50995]	219.673	1.0295	213.378	
1089	cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [source:refseq;acc:nm_001326]	121.428	1.02945	125.004	
1090	similar to ribosomal protein, large, p0. [source:sptrembl;acc:q96fq9]	226.218	1.02945	232.88	
1091	block 23. [source:sptrembl;acc:q8nhw5]	226.205	1.02941	232.858	
1092	60s acidic ribosomal protein p0 (l10e). [source:swissprot;acc:p05388]	226.203	1.02941	232.855	
1093	coatomer alpha subunit (alpha-coat protein) (alpha-cop) (hepcop) (hep-cop) [contains: xenin (xenopsin-related peptide); proxenin]. [source:swissprot;acc:p53621]	177.432	1.02939	182.647	
1094	annexin a7 (annexin vii) (synexin). [source:swissprot;acc:p20073]	219.655	1.02938	213.385	
1095	mitochondrial gtp binding protein isoform v. [source:refseq;acc:nm_032620]	213.552	1.02935	207.463	
1096	nadh-ubiquinone oxidoreductase b22 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b22) (ci-b22). [source:swissprot;acc:q9y6m9]	212.345	1.02911	206.339	
1097	probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [source:swissprot;acc:o75185]	209.123	1.02911	203.208	
1098	adapter-related protein complex 3 mu 1 subunit (mu-adaptin 3a) (ap-3 adapter complex mu3a subunit). [source:swissprot;acc:q9y2t2]	217.323	1.02906	211.185	
1099	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). [source:swissprot;acc:p53677]	217.315	1.02904	211.183	
1100	calcium-transporting atpase type 2c, member 1 (ec 3.6.3.8) (atpase 2c1) (atp-dependent ca(2+) pump pmr1) (hussy-28). [source:swissprot;acc:p98194]	209.052	1.02889	203.183	
1101	lysyl-trna synthetase (ec 6.1.1.6) (lysine--trna ligase) (lysrs). [source:swissprot;acc:q15046]	220.291	1.02857	226.584	
1102	40s ribosomal protein s27 (metallopan-stimulin 1) (mps-1). [source:swissprot;acc:p42677]	229.442	1.02847	235.974	
1103	ribosomal protein s27-like protein; 40s ribosomal protein s27 isoform. [source:refseq;acc:nm_015920]	229.441	1.02846	235.972	
1104	hydroxyacid oxidase 1 (ec 1.1.3.15) (haox1) (glycolate oxidase) (gox). [source:swissprot;acc:q9ujm8]	231.922	1.0283	238.486	
1105	adrenodoxin, mitochondrial precursor (adrenal ferredoxin) (hepatoredoxin) (ferredoxin 1). [source:swissprot;acc:p10109]	191.139	1.02828	185.882	
1106	pxr2b protein. [source:refseq;acc:nm_016559]	212.945	1.02818	207.109	
1107	serine palmitoyltransferase 2 (ec 2.3.1.50) (long chain base biosynthesis protein 2) (lcb 2) (serine-palmitoyl-coa transferase 2) (spt 2). [source:swissprot;acc:o15270]	204.603	1.02796	210.324	

Legend:
- Rank is the rank after comparing the two networks
- 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/