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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

Results: HTML CSV LaTeX

Showing element 1762 to 1811 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	red	green	network_comparison
881	transcription factor btf3 (rna polymerase b transcription factor 3). [swissprot;acc:p20290]	BTF3	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). [swissprot;acc:q15388]	TOMM20		198.781	190.66	8.121
	n-myc proto-oncogene protein. [swissprot;acc:p04198]	MYCN	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). [swissprot;acc:q06546]	GABPA		227.596	219.017	1.03917
	peroxisomal farnesylated protein (33 kda housekeeping protein) (peroxin 19). [swissprot;acc:p40855]	PEX19	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). [swissprot;acc:q06545]	no value	Divided	227.596	219.017	1.03917
	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). [refseq;acc:nm_016538]		Subtracted	232.473	224.372	8.101
885	casein kinase ii beta chain (ck ii) (phosvitin) (g5a). [swissprot;acc:p13862]
	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]	NDUFS8	Divided	227.596	219.017	1.03917
886	elongation of very long chain fatty acids protein 1 (cgi-88). [swissprot;acc:q9bw60]	ELOVL1			219.018
	transcription factor btf3 homolog 3. [swissprot;acc:q13892]	no value	Subtracted	211.908	203.832	8.076
887	5'-amp-activated protein kinase, gamma-1 subunit (ampk gamma-1 chain) (ampkg). [swissprot;acc:p54619]	PRKAG1		212.002	203.954	8.048
	transducin beta-like 3; wd-repeat protein sazd. [refseq;acc:nm_006453]	TBL3	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). [swissprot;acc:p54646]	PRKAA2	Subtracted	212.002	203.954	8.048
	nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594]	no value	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). [swissprot;acc:q13131]	PRKAA1	Subtracted	212.002	203.954	8.048
	alpha-nac protein. [sptrembl;acc:q9h009]	no value	Divided	212.028	204.053	1.03908
890	5'-amp-activated protein kinase, beta-2 subunit (ampk beta-2 chain). [swissprot;acc:o43741]	PRKAB2	Subtracted	212.002	203.954	8.048
	syntaxin 7. [swissprot;acc:o15400]	STX7	Divided	217.181	209.012	1.03908
891	5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [swissprot;acc:q9ugi9]	PRKAG3	Subtracted	212.002	203.954	8.048
	small gtp-binding tumor suppressor 1. [refseq;acc:nm_145173]	DIRAS1	Divided	212.028	204.055	1.03907
892	5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478]	PRKAB1	Subtracted	212.002	203.954	8.048
	di-ras2. [refseq;acc:nm_017594]	DIRAS2	Divided	212.028	204.055	1.03907
893	5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [swissprot;acc:q9ugj0]	PRKAG2	Subtracted	212.002	203.954	8.048
	myc proto-oncogene protein (c-myc). [swissprot;acc:p01106]	MYC	Divided	227.585	219.037	1.03903
894	mitochondrial 60s ribosomal protein l27 (l27mt) (hspc250). [swissprot;acc:q9p0m9]	MRPL27	Subtracted	231.163	239.205	8.042
	phenylalanyl-trna synthetase alpha chain (ec 6.1.1.20) (phenylalanine- -trna ligase alpha chain) (phers) (cml33). [swissprot;acc:q9y285]	FARSA	Divided	217.491	209.323	1.03902
895	acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748]	ACADVL	Subtracted	164	155.961	8.039
	phenylalanine-trna synthetase. [refseq;acc:nm_006567]	FARS2	Divided	217.491	209.323	1.03902
896	dna-directed rna polymerase ii 13.3 kda polypeptide (ec 2.7.7.6) (rpb11). [swissprot;acc:p52435]	POLR2J		230.811	239.785	1.03888
	t-cell activation wd repeat protein. [refseq;acc:nm_139281]	WDR36	Subtracted	243.34	235.322	8.018
897	3-phosphoinositide dependent protein kinase-1 (ec 2.7.1.37) (hpdk1). [swissprot;acc:o15530]	PDPK1	Divided	272.878	283.472	1.03882
	prip-interacting protein pipmt; prip-interacting protein with methyltransferase domain. [refseq;acc:nm_024831]	TGS1	Subtracted	210.863	218.878	8.015
898	60s acidic ribosomal protein p1. [swissprot;acc:p05386]	no value	Divided	229.171	238.048	1.03874
	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]	GOPC	Subtracted	210.863	218.878	8.015
899	nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594]	no value		212.027	204.05	7.977
	thioredoxin domain-containing 2; sperm-specific thioredoxin; thioredoxin domain-containing 2 (spermatozoa). [refseq;acc:nm_032243]	TXNDC2	Divided	229.171	238.048	1.03874
900	alpha-nac protein. [sptrembl;acc:q9h009]	no value	Subtracted	212.028	204.053	7.975
	thioredoxin (atl-derived factor) (adf) (surface associated sulphydryl protein) (sasp). [swissprot;acc:p10599]	TXN	Divided	229.171	238.048	1.03874
901	small gtp-binding tumor suppressor 1. [refseq;acc:nm_145173]	DIRAS1	Subtracted	212.028	204.055	7.973
	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]	SSRP1	Divided	237.62	228.762	1.03872
902	chromatin-specific transcription elongation factor large subunit. [refseq;acc:nm_007192]	SUPT16H
	di-ras2. [refseq;acc:nm_017594]	DIRAS2	Subtracted	212.028	204.055	7.973
903	eukaryotic translation initiation factor 3 subunit 4 (eif-3 delta) (eif3 p44) (eif-3 rna-binding subunit) (eif3 p42) (eif3g). [swissprot;acc:o75821]	EIF3G	Divided	246.354	237.223	1.03849
	uba/ubx 33.3 kda protein. [swissprot;acc:q04323]	no value	Subtracted	217.168	209.207	7.961
904	cirhin; testis expressed gene 292; cirrhosis, autosomal recessive 1a. [refseq;acc:nm_032830]	CIRH1A		243.312	235.351
	eukaryotic translation initiation factor 3 subunit 10 (eif-3 theta) (eif3 p167) (eif3 p180) (eif3 p185) (eif3a). [swissprot;acc:q14152]	EIF3A	Divided	246.354	237.223	1.03849
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]	no value		230.768	239.632	1.03841
	ero1-like. [refseq;acc:nm_014584]		Subtracted	217.168	209.207	7.961
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]		Divided	230.764	239.62	1.03838

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.