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

Navigation/Query Panel:
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	Network Comparison Type	Value Type	Interaction Map	Filtered	green	red	network_comparison

Results: HTML CSV LaTeX

Showing element 1777 to 1826 of 6456 in total

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

Rank	description	Network Comparison Type	green	red	network_comparison
889	5'-amp-activated protein kinase, catalytic alpha-1 chain (ec 2.7.1.-) (ampk alpha-1 chain). [swissprot;acc:q13131]	Subtracted	203.954	212.002	8.048
	alpha-nac protein. [sptrembl;acc:q9h009]	Divided	204.053	212.028	1.03908
890	5'-amp-activated protein kinase, beta-2 subunit (ampk beta-2 chain). [swissprot;acc:o43741]	Subtracted	203.954	212.002	8.048
	syntaxin 7. [swissprot;acc:o15400]	Divided	209.012	217.181	1.03908
891	5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [swissprot;acc:q9ugi9]	Subtracted	203.954	212.002	8.048
	small gtp-binding tumor suppressor 1. [refseq;acc:nm_145173]	Divided	204.055	212.028	1.03907
892	5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478]	Subtracted	203.954	212.002	8.048
	di-ras2. [refseq;acc:nm_017594]	Divided	204.055	212.028	1.03907
893	5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [swissprot;acc:q9ugj0]	Subtracted	203.954	212.002	8.048
	myc proto-oncogene protein (c-myc). [swissprot;acc:p01106]	Divided	219.037	227.585	1.03903
894	mitochondrial 60s ribosomal protein l27 (l27mt) (hspc250). [swissprot;acc:q9p0m9]	Subtracted	239.205	231.163	8.042
	phenylalanyl-trna synthetase alpha chain (ec 6.1.1.20) (phenylalanine- -trna ligase alpha chain) (phers) (cml33). [swissprot;acc:q9y285]	Divided	209.323	217.491	1.03902
895	acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748]	Subtracted	155.961	164	8.039
	phenylalanine-trna synthetase. [refseq;acc:nm_006567]	Divided	209.323	217.491	1.03902
896	dna-directed rna polymerase ii 13.3 kda polypeptide (ec 2.7.7.6) (rpb11). [swissprot;acc:p52435]		239.785	230.811	1.03888
	t-cell activation wd repeat protein. [refseq;acc:nm_139281]	Subtracted	235.322	243.34	8.018
897	3-phosphoinositide dependent protein kinase-1 (ec 2.7.1.37) (hpdk1). [swissprot;acc:o15530]	Divided	283.472	272.878	1.03882
	prip-interacting protein pipmt; prip-interacting protein with methyltransferase domain. [refseq;acc:nm_024831]	Subtracted	218.878	210.863	8.015
898	60s acidic ribosomal protein p1. [swissprot;acc:p05386]	Divided	238.048	229.171	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]	Subtracted	218.878	210.863	8.015
899	nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594]		204.05	212.027	7.977
	thioredoxin domain-containing 2; sperm-specific thioredoxin; thioredoxin domain-containing 2 (spermatozoa). [refseq;acc:nm_032243]	Divided	238.048	229.171	1.03874
900	alpha-nac protein. [sptrembl;acc:q9h009]	Subtracted	204.053	212.028	7.975
	thioredoxin (atl-derived factor) (adf) (surface associated sulphydryl protein) (sasp). [swissprot;acc:p10599]	Divided	238.048	229.171	1.03874
901	small gtp-binding tumor suppressor 1. [refseq;acc:nm_145173]	Subtracted	204.055	212.028	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]	Divided	228.762	237.62	1.03872
902	chromatin-specific transcription elongation factor large subunit. [refseq;acc:nm_007192]
	di-ras2. [refseq;acc:nm_017594]	Subtracted	204.055	212.028	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]	Divided	237.223	246.354	1.03849
	uba/ubx 33.3 kda protein. [swissprot;acc:q04323]	Subtracted	209.207	217.168	7.961
904	cirhin; testis expressed gene 292; cirrhosis, autosomal recessive 1a. [refseq;acc:nm_032830]		235.351	243.312
	eukaryotic translation initiation factor 3 subunit 10 (eif-3 theta) (eif3 p167) (eif3 p180) (eif3 p185) (eif3a). [swissprot;acc:q14152]	Divided	237.223	246.354	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]		239.632	230.768	1.03841
	ero1-like. [refseq;acc:nm_014584]	Subtracted	209.207	217.168	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	239.62	230.764	1.03838
	pbk1 protein. [sptrembl;acc:o76021]	Subtracted	235.353	243.312	7.959
907	junction plakoglobin (desmoplakin iii). [swissprot;acc:p14923]	Divided	215.653	223.906	1.03827
	peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570]	Subtracted	218.017	225.976	7.959
908	sedlin. [swissprot;acc:o14582]		121.261	129.219	7.958
	tax interaction protein 1. [refseq;acc:nm_014604]	Divided	215.653	223.906	1.03827
909	septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6]		136.846	142.077	1.03823
	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	Subtracted	121.261	129.219	7.958
910	bet3 homolog. [swissprot;acc:o43617]
	uba/ubx 33.3 kda protein. [swissprot;acc:q04323]	Divided	209.207	217.168	1.03805
911	ero1-like. [refseq;acc:nm_014584]
	mannose-p-dolichol utilization defect 1 protein (suppressor of lec15 and lec35 glycosylation mutation homolog) (sl15). [swissprot;acc:o75352]	Subtracted	218.015	225.955	7.94
912	mitochondrial translational release factor 1-like. [refseq;acc:nm_019041]		218.013	225.939	7.926
	wd-repeat protein 3. [swissprot;acc:q9unx4]	Divided	234.96	243.896	1.03803
913	atp-dependent rna helicase rok1; atp-dependent rna helicase. [refseq;acc:nm_007010]	Subtracted	235.373	243.297	7.924
	prip-interacting protein pipmt; prip-interacting protein with methyltransferase domain. [refseq;acc:nm_024831]	Divided	218.878	210.863	1.03801

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.