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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison

Results: HTML CSV LaTeX

Showing element 1751 to 1800 of 6456 in total

Value Type	Ranked
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
876	5'-amp-activated protein kinase, catalytic alpha-1 chain (ec 2.7.1.-) (ampk alpha-1 chain). [source:swissprot;acc:q13131]	Divided	212.002	203.954	1.03946	
876	tax interaction protein 1. [source:refseq;acc:nm_014604]	Subtracted	223.906	215.653	8.253	
877	5'-amp-activated protein kinase, beta-2 subunit (ampk beta-2 chain). [source:swissprot;acc:o43741]	Divided	212.002	203.954	1.03946	
877	zinc finger protein 444; endothelial zinc finger protein 2. [source:refseq;acc:nm_018337]	Subtracted	269.896	278.093	8.197	
878	5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [source:swissprot;acc:q9ugi9]	Divided	212.002	203.954	1.03946	
878	syntaxin 7. [source:swissprot;acc:o15400]	Subtracted	217.181	209.012	8.169	
879	5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [source:swissprot;acc:q9y478]	Divided	212.002	203.954	1.03946	
879	phenylalanyl-trna synthetase alpha chain (ec 6.1.1.20) (phenylalanine- -trna ligase alpha chain) (phers) (cml33). [source:swissprot;acc:q9y285]	Subtracted	217.491	209.323	8.168	
880	5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [source:swissprot;acc:q9ugj0]	Divided	212.002	203.954	1.03946	
880	phenylalanine-trna synthetase. [source:refseq;acc:nm_006567]	Subtracted	217.491	209.323	8.168	
881	l-myc-1 proto-oncogene protein. [source:swissprot;acc:p12524]	Divided	227.604	219.001	1.03928	
881	transcription factor btf3 (rna polymerase b transcription factor 3). [source:swissprot;acc:p20290]	Subtracted	211.961	203.814	8.147	
882	mitochondrial import receptor subunit tom20 homolog (mitochondrial 20 kda outer membrane protein) (outer mitochondrial membrane receptor tom20). [source:swissprot;acc:q15388]	Subtracted	198.781	190.66	8.121	
882	n-myc proto-oncogene protein. [source:swissprot;acc:p04198]	Divided	227.601	219.008	1.03924	
883	ga binding protein alpha chain (gabp-alpha subunit) (transcription factor e4tf1-60) (nuclear respiratory factor-2 subunit alpha). [source:swissprot;acc:q06546]	Divided	227.596	219.017	1.03917	
883	peroxisomal farnesylated protein (33 kda housekeeping protein) (peroxin 19). [source:swissprot;acc:p40855]	Subtracted	198.781	190.66	8.121	
884	ga binding protein beta-2 chain (gabp-beta-2 subunit) (transcription factor e4tf1-47) (gapbp-2) (nuclear respiratory factor-2 subunit gamma). [source:swissprot;acc:q06545]	Divided	227.596	219.017	1.03917	
884	sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [source:refseq;acc:nm_016538]	Subtracted	232.473	224.372	8.101	
885	casein kinase ii beta chain (ck ii) (phosvitin) (g5a). [source:swissprot;acc:p13862]	Subtracted	232.473	224.372	8.101	
885	nadh-ubiquinone oxidoreductase 23 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-23kd) (ci-23kd) (tyky subunit). [source:swissprot;acc:o00217]	Divided	227.596	219.017	1.03917	
886	elongation of very long chain fatty acids protein 1 (cgi-88). [source:swissprot;acc:q9bw60]	Divided	227.596	219.018	1.03917	
886	transcription factor btf3 homolog 3. [source:swissprot;acc:q13892]	Subtracted	211.908	203.832	8.076	
887	5'-amp-activated protein kinase, gamma-1 subunit (ampk gamma-1 chain) (ampkg). [source:swissprot;acc:p54619]	Subtracted	212.002	203.954	8.048	
887	transducin beta-like 3; wd-repeat protein sazd. [source:refseq;acc:nm_006453]	Divided	244.155	234.96	1.03913	
888	5'-amp-activated protein kinase, catalytic alpha-2 chain (ec 2.7.1.-) (ampk alpha-2 chain). [source:swissprot;acc:p54646]	Subtracted	212.002	203.954	8.048	
888	nascent-polypeptide-associated complex alpha polypeptide. [source:refseq;acc:nm_005594]	Divided	212.027	204.05	1.03909	
889	5'-amp-activated protein kinase, catalytic alpha-1 chain (ec 2.7.1.-) (ampk alpha-1 chain). [source:swissprot;acc:q13131]	Subtracted	212.002	203.954	8.048	
889	alpha-nac protein. [source:sptrembl;acc:q9h009]	Divided	212.028	204.053	1.03908	
890	5'-amp-activated protein kinase, beta-2 subunit (ampk beta-2 chain). [source:swissprot;acc:o43741]	Subtracted	212.002	203.954	8.048	
890	syntaxin 7. [source:swissprot;acc:o15400]	Divided	217.181	209.012	1.03908	
891	5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [source:swissprot;acc:q9ugi9]	Subtracted	212.002	203.954	8.048	
891	small gtp-binding tumor suppressor 1. [source:refseq;acc:nm_145173]	Divided	212.028	204.055	1.03907	
892	5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [source:swissprot;acc:q9y478]	Subtracted	212.002	203.954	8.048	
892	di-ras2. [source:refseq;acc:nm_017594]	Divided	212.028	204.055	1.03907	
893	5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [source:swissprot;acc:q9ugj0]	Subtracted	212.002	203.954	8.048	
893	myc proto-oncogene protein (c-myc). [source:swissprot;acc:p01106]	Divided	227.585	219.037	1.03903	
894	mitochondrial 60s ribosomal protein l27 (l27mt) (hspc250). [source:swissprot;acc:q9p0m9]	Subtracted	231.163	239.205	8.042	
894	phenylalanyl-trna synthetase alpha chain (ec 6.1.1.20) (phenylalanine- -trna ligase alpha chain) (phers) (cml33). [source:swissprot;acc:q9y285]	Divided	217.491	209.323	1.03902	
895	acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [source:swissprot;acc:p49748]	Subtracted	164	155.961	8.039	
895	phenylalanine-trna synthetase. [source:refseq;acc:nm_006567]	Divided	217.491	209.323	1.03902	
896	dna-directed rna polymerase ii 13.3 kda polypeptide (ec 2.7.7.6) (rpb11). [source:swissprot;acc:p52435]	Divided	230.811	239.785	1.03888	
896	t-cell activation wd repeat protein. [source:refseq;acc:nm_139281]	Subtracted	243.34	235.322	8.018	
897	3-phosphoinositide dependent protein kinase-1 (ec 2.7.1.37) (hpdk1). [source:swissprot;acc:o15530]	Divided	272.878	283.472	1.03882	
897	prip-interacting protein pipmt; prip-interacting protein with methyltransferase domain. [source:refseq;acc:nm_024831]	Subtracted	210.863	218.878	8.015	
898	60s acidic ribosomal protein p1. [source:swissprot;acc:p05386]	Divided	229.171	238.048	1.03874	
898	pdz/coiled-coil domain binding partner for the rho-family gtpase tc10; fused in glioblastoma; golgi associated pdz and coiled-coil motif containing protein; cftr-associated ligand. [source:refseq;acc:nm_020399]	Subtracted	210.863	218.878	8.015	
899	nascent-polypeptide-associated complex alpha polypeptide. [source:refseq;acc:nm_005594]	Subtracted	212.027	204.05	7.977	
899	thioredoxin domain-containing 2; sperm-specific thioredoxin; thioredoxin domain-containing 2 (spermatozoa). [source:refseq;acc:nm_032243]	Divided	229.171	238.048	1.03874	
900	alpha-nac protein. [source:sptrembl;acc:q9h009]	Subtracted	212.028	204.053	7.975	
900	thioredoxin (atl-derived factor) (adf) (surface associated sulphydryl protein) (sasp). [source:swissprot;acc:p10599]	Divided	229.171	238.048	1.03874	

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/