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

Results: HTML CSV LaTeX

Showing element 1808 to 1857 of 6456 in total

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

Rank	description	Hugo	Network Comparison Type	red	green	network_comparison
904	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
	pbk1 protein. [sptrembl;acc:o76021]	RSL1D1	Subtracted	243.312	235.353	7.959
907	junction plakoglobin (desmoplakin iii). [swissprot;acc:p14923]	JUP	Divided	223.906	215.653	1.03827
	peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570]	MTRF1	Subtracted	225.976	218.017	7.959
908	sedlin. [swissprot;acc:o14582]	ZNF547		129.219	121.261	7.958
	tax interaction protein 1. [refseq;acc:nm_014604]	no value	Divided	223.906	215.653	1.03827
909	septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6]	SEPT1		142.077	136.846	1.03823
	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	no value	Subtracted	129.219	121.261	7.958
910	bet3 homolog. [swissprot;acc:o43617]	TRAPPC3
	uba/ubx 33.3 kda protein. [swissprot;acc:q04323]	no value	Divided	217.168	209.207	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]	MPDU1	Subtracted	225.955	218.015	7.94
912	mitochondrial translational release factor 1-like. [refseq;acc:nm_019041]	MTRF1L		225.939	218.013	7.926
	wd-repeat protein 3. [swissprot;acc:q9unx4]	WDR3	Divided	243.896	234.96	1.03803
913	atp-dependent rna helicase rok1; atp-dependent rna helicase. [refseq;acc:nm_007010]	DDX52	Subtracted	243.297	235.373	7.924
	prip-interacting protein pipmt; prip-interacting protein with methyltransferase domain. [refseq;acc:nm_024831]	TGS1	Divided	210.863	218.878	1.03801
914	guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388]	no value	Subtracted	237.558	229.677	7.881
	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	Divided	210.863	218.878	1.03801
915	trna (5-methylaminomethyl-2-thiouridylate)-methyltransferase (ec 2.1.1.61). [swissprot;acc:o75648]	TRMU		146.036	140.692	1.03798
	zuotin related factor-1 (m-phase phosphoprotein 11). [swissprot;acc:q99543]	ZRF1	Subtracted	237.558	229.677	7.881
916	histone h4. [swissprot;acc:p02304]	no value		227.765	219.902	7.863
	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]	HAO2	Divided	232.512	241.288	1.03774
917	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	DNASE2B	Subtracted	86.7483	78.8995	7.8488
	parafibromin. [refseq;acc:nm_024529]	CDC73	Divided	239.704	230.991	1.03772
918	imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549]	IMMP2L	Subtracted	217.942	210.139	7.803
	ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385]	SORBS1	Divided	212.952	205.292	1.03731
919	microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378]	no value	Subtracted	217.942	210.139	7.803
	midasin (midas-containing protein). [swissprot;acc:q9nu22]	MDN1	Divided	237.218	228.698	1.03725
920	breast cancer type 1 susceptibility protein. [swissprot;acc:p38398]	BRCA1	Subtracted	216.501	224.27	7.769
	deformed epidermal autoregulatory factor 1 homolog (nuclear deaf-1 related transcriptional regulator) (nudr) (suppressin) (zinc finger mynd domain containing protein 5). [swissprot;acc:o75398]	DEAF1	Divided	236.741	245.547	1.0372
921	rio kinase 1 isoform 1; ad034 protein. [refseq;acc:nm_031480]	RIOK1
	wd-repeat protein bing4. [swissprot;acc:o15213]	WDR46	Subtracted	243.227	235.475	7.752
922	map/microtubule affinity-regulating kinase 1. [refseq;acc:nm_018650]	MARK1	Divided	236.741	245.547	1.0372
	pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392]	PEF1	Subtracted	215.665	207.942	7.723
923	hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [swissprot;acc:p00492]	HPRT1		193.114	185.412	7.702
	map/microtubule affinity-regulating kinase 2 isoform b; elkl motif kinase 1; elkl motif kinase. [refseq;acc:nm_004954]	MARK2	Divided	236.741	245.547	1.0372
924	meiotic recombination protein spo11. [swissprot;acc:q9y5k1]	SPO11
	sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633]	no value	Subtracted	238.725	231.059	7.666
925	pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392]	PEF1	Divided	215.665	207.942	1.03714
	protein bap28. [swissprot;acc:q9h583]	HEATR1	Subtracted	244.312	236.647	7.665
926	imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549]	IMMP2L	Divided	217.942	210.139	1.03713
	ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385]	SORBS1	Subtracted	212.952	205.292	7.66
927	microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378]	no value	Divided	217.942	210.139	1.03713
	splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874]	SF3A3	Subtracted	220.246	212.618	7.628
928	peptide chain release factor 1, mitochondrial precursor (mrf-1). [swissprot;acc:o75570]	MTRF1	Divided	225.976	218.017	1.03651
	splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459]	SF3A1	Subtracted	220.246	212.618	7.628
929	apoptosis antagonizing transcription factor. [refseq;acc:nm_012138]	AATF		243.045	235.422	7.623

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.