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 Network Comparison Type Value Type description Interaction Map Filtered network_comparison green red
Results: HTML CSV LaTeX Showing element 877 to 926 of 3228 in total 
Network Comparison Type	Divided
Value Type	Ranked
Interaction Map	High confidence
Filtered	1

Rank	description	network_comparison	green	red	
877	5'-amp-activated protein kinase, beta-2 subunit (ampk beta-2 chain). [source:swissprot;acc:o43741]	1.03946	203.954	212.002	
878	5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [source:swissprot;acc:q9ugi9]	1.03946	203.954	212.002	
879	5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [source:swissprot;acc:q9y478]	1.03946	203.954	212.002	
880	5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [source:swissprot;acc:q9ugj0]	1.03946	203.954	212.002	
881	l-myc-1 proto-oncogene protein. [source:swissprot;acc:p12524]	1.03928	219.001	227.604	
882	n-myc proto-oncogene protein. [source:swissprot;acc:p04198]	1.03924	219.008	227.601	
883	ga binding protein alpha chain (gabp-alpha subunit) (transcription factor e4tf1-60) (nuclear respiratory factor-2 subunit alpha). [source:swissprot;acc:q06546]	1.03917	219.017	227.596	
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]	1.03917	219.017	227.596	
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]	1.03917	219.017	227.596	
886	elongation of very long chain fatty acids protein 1 (cgi-88). [source:swissprot;acc:q9bw60]	1.03917	219.018	227.596	
887	transducin beta-like 3; wd-repeat protein sazd. [source:refseq;acc:nm_006453]	1.03913	234.96	244.155	
888	nascent-polypeptide-associated complex alpha polypeptide. [source:refseq;acc:nm_005594]	1.03909	204.05	212.027	
889	alpha-nac protein. [source:sptrembl;acc:q9h009]	1.03908	204.053	212.028	
890	syntaxin 7. [source:swissprot;acc:o15400]	1.03908	209.012	217.181	
891	small gtp-binding tumor suppressor 1. [source:refseq;acc:nm_145173]	1.03907	204.055	212.028	
892	di-ras2. [source:refseq;acc:nm_017594]	1.03907	204.055	212.028	
893	myc proto-oncogene protein (c-myc). [source:swissprot;acc:p01106]	1.03903	219.037	227.585	
894	phenylalanyl-trna synthetase alpha chain (ec 6.1.1.20) (phenylalanine- -trna ligase alpha chain) (phers) (cml33). [source:swissprot;acc:q9y285]	1.03902	209.323	217.491	
895	phenylalanine-trna synthetase. [source:refseq;acc:nm_006567]	1.03902	209.323	217.491	
896	dna-directed rna polymerase ii 13.3 kda polypeptide (ec 2.7.7.6) (rpb11). [source:swissprot;acc:p52435]	1.03888	239.785	230.811	
897	3-phosphoinositide dependent protein kinase-1 (ec 2.7.1.37) (hpdk1). [source:swissprot;acc:o15530]	1.03882	283.472	272.878	
898	60s acidic ribosomal protein p1. [source:swissprot;acc:p05386]	1.03874	238.048	229.171	
899	thioredoxin domain-containing 2; sperm-specific thioredoxin; thioredoxin domain-containing 2 (spermatozoa). [source:refseq;acc:nm_032243]	1.03874	238.048	229.171	
900	thioredoxin (atl-derived factor) (adf) (surface associated sulphydryl protein) (sasp). [source:swissprot;acc:p10599]	1.03874	238.048	229.171	
901	structure-specific recognition protein 1 (ssrp1) (recombination signal sequence recognition protein) (t160) (chromatin-specific transcription elongation factor 80 kda subunit) (fact 80 kda subunit). [source:swissprot;acc:q08945]	1.03872	228.762	237.62	
902	chromatin-specific transcription elongation factor large subunit. [source:refseq;acc:nm_007192]	1.03872	228.762	237.62	
903	eukaryotic translation initiation factor 3 subunit 4 (eif-3 delta) (eif3 p44) (eif-3 rna-binding subunit) (eif3 p42) (eif3g). [source:swissprot;acc:o75821]	1.03849	237.223	246.354	
904	eukaryotic translation initiation factor 3 subunit 10 (eif-3 theta) (eif3 p167) (eif3 p180) (eif3 p185) (eif3a). [source:swissprot;acc:q14152]	1.03849	237.223	246.354	
905	dna directed rna polymerase ii polypeptide j-related gene isoform 3; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [source:refseq;acc:nm_032959]	1.03841	239.632	230.768	
906	dna directed rna polymerase ii polypeptide j-related gene isoform 1; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [source:refseq;acc:nm_145325]	1.03838	239.62	230.764	
907	junction plakoglobin (desmoplakin iii). [source:swissprot;acc:p14923]	1.03827	215.653	223.906	
908	tax interaction protein 1. [source:refseq;acc:nm_014604]	1.03827	215.653	223.906	
909	septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [source:swissprot;acc:q8wyj6]	1.03823	136.846	142.077	
910	uba/ubx 33.3 kda protein. [source:swissprot;acc:q04323]	1.03805	209.207	217.168	
911	ero1-like. [source:refseq;acc:nm_014584]	1.03805	209.207	217.168	
912	wd-repeat protein 3. [source:swissprot;acc:q9unx4]	1.03803	234.96	243.896	
913	prip-interacting protein pipmt; prip-interacting protein with methyltransferase domain. [source:refseq;acc:nm_024831]	1.03801	218.878	210.863	
914	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]	1.03801	218.878	210.863	
915	trna (5-methylaminomethyl-2-thiouridylate)-methyltransferase (ec 2.1.1.61). [source:swissprot;acc:o75648]	1.03798	140.692	146.036	
916	hydroxyacid oxidase 2 (ec 1.1.3.15) (haox2) ((s)-2-hydroxy-acid oxidase, peroxisomal) (long chain alpha-hydroxy acid oxidase) (long- chain l-2-hydroxy acid oxidase). [source:swissprot;acc:q9nyq3]	1.03774	241.288	232.512	
917	parafibromin. [source:refseq;acc:nm_024529]	1.03772	230.991	239.704	
918	ponsin; sh3-domain protein 5 (ponsin). [source:refseq;acc:nm_015385]	1.03731	205.292	212.952	
919	midasin (midas-containing protein). [source:swissprot;acc:q9nu22]	1.03725	228.698	237.218	
920	deformed epidermal autoregulatory factor 1 homolog (nuclear deaf-1 related transcriptional regulator) (nudr) (suppressin) (zinc finger mynd domain containing protein 5). [source:swissprot;acc:o75398]	1.0372	245.547	236.741	
921	rio kinase 1 isoform 1; ad034 protein. [source:refseq;acc:nm_031480]	1.0372	245.547	236.741	
922	map/microtubule affinity-regulating kinase 1. [source:refseq;acc:nm_018650]	1.0372	245.547	236.741	
923	map/microtubule affinity-regulating kinase 2 isoform b; elkl motif kinase 1; elkl motif kinase. [source:refseq;acc:nm_004954]	1.0372	245.547	236.741	
924	meiotic recombination protein spo11. [source:swissprot;acc:q9y5k1]	1.0372	245.547	236.741	
925	pef protein with a long n-terminal hydrophobic domain (peflin). [source:refseq;acc:nm_012392]	1.03714	207.942	215.665	
926	imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [source:refseq;acc:nm_032549]	1.03713	210.139	217.942	

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/