MK5 Microarray Data

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

Results: HTML CSV LaTeX

Showing element 877 to 926 of 3228 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	red	network_comparison	green
877	5'-amp-activated protein kinase, beta-2 subunit (ampk beta-2 chain). [swissprot;acc:o43741]	212.002	1.03946	203.954
878	5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [swissprot;acc:q9ugi9]
879	5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478]
880	5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [swissprot;acc:q9ugj0]
881	l-myc-1 proto-oncogene protein. [swissprot;acc:p12524]	227.604	1.03928	219.001
882	n-myc proto-oncogene protein. [swissprot;acc:p04198]	227.601	1.03924	219.008
883	ga binding protein alpha chain (gabp-alpha subunit) (transcription factor e4tf1-60) (nuclear respiratory factor-2 subunit alpha). [swissprot;acc:q06546]	227.596	1.03917	219.017
884	ga binding protein beta-2 chain (gabp-beta-2 subunit) (transcription factor e4tf1-47) (gapbp-2) (nuclear respiratory factor-2 subunit gamma). [swissprot;acc:q06545]
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). [swissprot;acc:o00217]
886	elongation of very long chain fatty acids protein 1 (cgi-88). [swissprot;acc:q9bw60]			219.018
887	transducin beta-like 3; wd-repeat protein sazd. [refseq;acc:nm_006453]	244.155	1.03913	234.96
888	nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594]	212.027	1.03909	204.05
889	alpha-nac protein. [sptrembl;acc:q9h009]	212.028	1.03908	204.053
890	syntaxin 7. [swissprot;acc:o15400]	217.181		209.012
891	small gtp-binding tumor suppressor 1. [refseq;acc:nm_145173]	212.028	1.03907	204.055
892	di-ras2. [refseq;acc:nm_017594]
893	myc proto-oncogene protein (c-myc). [swissprot;acc:p01106]	227.585	1.03903	219.037
894	phenylalanyl-trna synthetase alpha chain (ec 6.1.1.20) (phenylalanine- -trna ligase alpha chain) (phers) (cml33). [swissprot;acc:q9y285]	217.491	1.03902	209.323
895	phenylalanine-trna synthetase. [refseq;acc:nm_006567]
896	dna-directed rna polymerase ii 13.3 kda polypeptide (ec 2.7.7.6) (rpb11). [swissprot;acc:p52435]	230.811	1.03888	239.785
897	3-phosphoinositide dependent protein kinase-1 (ec 2.7.1.37) (hpdk1). [swissprot;acc:o15530]	272.878	1.03882	283.472
898	60s acidic ribosomal protein p1. [swissprot;acc:p05386]	229.171	1.03874	238.048
899	thioredoxin domain-containing 2; sperm-specific thioredoxin; thioredoxin domain-containing 2 (spermatozoa). [refseq;acc:nm_032243]
900	thioredoxin (atl-derived factor) (adf) (surface associated sulphydryl protein) (sasp). [swissprot;acc:p10599]
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). [swissprot;acc:q08945]	237.62	1.03872	228.762
902	chromatin-specific transcription elongation factor large subunit. [refseq;acc:nm_007192]
903	eukaryotic translation initiation factor 3 subunit 4 (eif-3 delta) (eif3 p44) (eif-3 rna-binding subunit) (eif3 p42) (eif3g). [swissprot;acc:o75821]	246.354	1.03849	237.223
904	eukaryotic translation initiation factor 3 subunit 10 (eif-3 theta) (eif3 p167) (eif3 p180) (eif3 p185) (eif3a). [swissprot;acc:q14152]
905	dna directed rna polymerase ii polypeptide j-related gene isoform 3; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_032959]	230.768	1.03841	239.632
906	dna directed rna polymerase ii polypeptide j-related gene isoform 1; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_145325]	230.764	1.03838	239.62
907	junction plakoglobin (desmoplakin iii). [swissprot;acc:p14923]	223.906	1.03827	215.653
908	tax interaction protein 1. [refseq;acc:nm_014604]
909	septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6]	142.077	1.03823	136.846
910	uba/ubx 33.3 kda protein. [swissprot;acc:q04323]	217.168	1.03805	209.207
911	ero1-like. [refseq;acc:nm_014584]
912	wd-repeat protein 3. [swissprot;acc:q9unx4]	243.896	1.03803	234.96
913	prip-interacting protein pipmt; prip-interacting protein with methyltransferase domain. [refseq;acc:nm_024831]	210.863	1.03801	218.878
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. [refseq;acc:nm_020399]
915	trna (5-methylaminomethyl-2-thiouridylate)-methyltransferase (ec 2.1.1.61). [swissprot;acc:o75648]	146.036	1.03798	140.692
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). [swissprot;acc:q9nyq3]	232.512	1.03774	241.288
917	parafibromin. [refseq;acc:nm_024529]	239.704	1.03772	230.991
918	ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385]	212.952	1.03731	205.292
919	midasin (midas-containing protein). [swissprot;acc:q9nu22]	237.218	1.03725	228.698
920	deformed epidermal autoregulatory factor 1 homolog (nuclear deaf-1 related transcriptional regulator) (nudr) (suppressin) (zinc finger mynd domain containing protein 5). [swissprot;acc:o75398]	236.741	1.0372	245.547
921	rio kinase 1 isoform 1; ad034 protein. [refseq;acc:nm_031480]
922	map/microtubule affinity-regulating kinase 1. [refseq;acc:nm_018650]
923	map/microtubule affinity-regulating kinase 2 isoform b; elkl motif kinase 1; elkl motif kinase. [refseq;acc:nm_004954]
924	meiotic recombination protein spo11. [swissprot;acc:q9y5k1]
925	pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392]	215.665	1.03714	207.942
926	imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549]	217.942	1.03713	210.139

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
- 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.