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

Results: HTML CSV LaTeX

Showing element 3008 to 3057 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
1504	STARD3	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	Subtracted	219.306	223.179	3.873
1505	CCDC53	protein ad-016 (protein cgi-116) (x0009). [swissprot;acc:q9y3c0]	Divided	216.158	212.316	1.0181
	FAT2	protocadherin fat 2 precursor (hfat2) (multiple epidermal growth factor-like domains 1). [swissprot;acc:q9nyq8]	Subtracted	219.306	223.179	3.873
1506	C16orf42	c316g12.2 (novel protein similar to predicted yeast, worm and archae- bacterial proteins) (similar to und313) (s. cervisiae) (hypothetical protein). [sptrembl;acc:q9ujk0]	Divided	212.103	208.339	1.01807
	FAT	cadherin-related tumor suppressor homolog precursor (fat protein homolog). [swissprot;acc:q14517]	Subtracted	219.306	223.179	3.873
1507	PDK1	[pyruvate dehydrogenase [lipoamide]] kinase isozyme 1, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 1). [swissprot;acc:q15118]	Divided	213.274	209.5	1.01801
	STARD3NL	mln64 n-terminal domain homolog (stard3 n-terminal like protein). [swissprot;acc:o95772]	Subtracted	219.306	223.179	3.873
1508	CPSF3	cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6]		116.524	120.375	3.851
	PDK2	[pyruvate dehydrogenase [lipoamide]] kinase isozyme 2, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 2). [swissprot;acc:q15119]	Divided	213.274	209.5	1.01801
1509	ACTR1A	alpha-centractin (centractin) (centrosome-associated actin homolog) (actin-rpv) (arp1). [swissprot;acc:p42024]		225.148	221.177	1.01795
	PDHA2	pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803]	Subtracted	204.146	207.988	3.842
1510	ACTR1B	beta-centractin (actin-related protein 1b) (arp1b). [swissprot;acc:p42025]	Divided	225.148	221.177	1.01795
	CCDC53	protein ad-016 (protein cgi-116) (x0009). [swissprot;acc:q9y3c0]	Subtracted	216.158	212.316	3.842
1511	COX11	cytochrome c oxidase assembly protein cox11, mitochondrial precursor. [swissprot;acc:q9y6n1]	Divided	213.268	209.509	1.01794
	PDHA1	pyruvate dehydrogenase e1 component alpha subunit, somatic form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type i). [swissprot;acc:p08559]	Subtracted	204.133	207.967	3.834
1512	ECHS1	enoyl-coa hydratase, mitochondrial precursor (ec 4.2.1.17) (short chain enoyl-coa hydratase) (sceh) (enoyl-coa hydratase 1). [swissprot;acc:p30084]		184.656	180.823	3.833
	SURF1	surfeit locus protein 1. [swissprot;acc:q15526]	Divided	213.268	209.509	1.01794
1513	COX15	cox15 homolog isoform 2 precursor; cytochrome c oxidase subunit 15; cytochrome c oxidase assembly protein. [refseq;acc:nm_004376]
	DUT	deoxyuridine 5'-triphosphate nucleotidohydrolase, mitochondrial precursor (ec 3.6.1.23) (dutpase) (dutp pyrophosphatase). [swissprot;acc:p33316]	Subtracted	187.114	190.925	3.811
1514	COX10	protoheme ix farnesyltransferase, mitochondrial precursor (ec 2.5.1.-) (heme o synthase). [swissprot;acc:q12887]	Divided	213.268	209.509	1.01794
	PDHB	pyruvate dehydrogenase e1 component beta subunit, mitochondrial precursor (ec 1.2.4.1) (pdhe1-b). [swissprot;acc:p11177]	Subtracted	198.927	202.726	3.799
1515	DPP10	dipeptidylpeptidase 10; dipeptidyl peptidase iv-related protein 3. [refseq;acc:nm_020868]	Divided	213.267	209.511	1.01793
	TMEM91	2-oxoisovalerate dehydrogenase alpha subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component alpha chain) (bckdh e1-alpha). [swissprot;acc:p12694]	Subtracted	198.927	202.726	3.799
1516	DPP6	dipeptidyl aminopeptidase-like protein 6 (dipeptidylpeptidase vi) (dipeptidylpeptidase 6) (dipeptidyl peptidase iv like protein) (dipeptidyl aminopeptidase-related protein) (dppx). [swissprot;acc:p42658]	Divided	213.267	209.511	1.01793
	POLE2	dna polymerase epsilon subunit b (ec 2.7.7.7) (dna polymerase ii subunit b). [swissprot;acc:p56282]	Subtracted	246.38	242.596	3.784
1517	FAP	seprase (ec 3.4.21.-) (fibroblast activation protein alpha) (integral membrane serine protease) (170-kda melanoma membrane-bound gelatinase). [swissprot;acc:q12884]	Divided	213.267	209.511	1.01793
	PDK1	[pyruvate dehydrogenase [lipoamide]] kinase isozyme 1, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 1). [swissprot;acc:q15118]	Subtracted	213.274	209.5	3.774
1518	BCKDK	[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial precursor (ec 2.7.1.115) (branched-chain alpha-ketoacid dehydrogenase kinase) (bckdhkin) (bckd-kinase). [swissprot;acc:o14874]	Divided	213.259	209.524	1.01783
	PDK2	[pyruvate dehydrogenase [lipoamide]] kinase isozyme 2, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 2). [swissprot;acc:q15119]	Subtracted	213.274	209.5	3.774
1519	CRX	cone-rod homeobox protein. [swissprot;acc:o43186]	Divided	244.331	240.061	1.01779
	FOXA3	hepatocyte nuclear factor 3-gamma (hnf-3g) (forkhead box protein a3) (fork head-related protein fkh h3). [swissprot;acc:p55318]	Subtracted	217.785	214.021	3.764
1520	C16orf42	c316g12.2 (novel protein similar to predicted yeast, worm and archae- bacterial proteins) (similar to und313) (s. cervisiae) (hypothetical protein). [sptrembl;acc:q9ujk0]		212.103	208.339
	OTX1	homeobox protein otx1. [swissprot;acc:p32242]	Divided	244.367	240.098	1.01778
1521	COX11	cytochrome c oxidase assembly protein cox11, mitochondrial precursor. [swissprot;acc:q9y6n1]	Subtracted	213.268	209.509	3.759
	OTX2	homeobox protein otx2. [swissprot;acc:p32243]	Divided	244.478	240.212	1.01776
1522	MPI	mannose-6-phosphate isomerase (ec 5.3.1.8) (phosphomannose isomerase) (pmi) (phosphohexomutase). [swissprot;acc:p34949]		219.306	223.179	1.01766
	SURF1	surfeit locus protein 1. [swissprot;acc:q15526]	Subtracted	213.268	209.509	3.759
1523	no value	putative ankyrin-repeat containing protein. [refseq;acc:nm_025185]	Divided	219.306	223.179	1.01766
	COX15	cox15 homolog isoform 2 precursor; cytochrome c oxidase subunit 15; cytochrome c oxidase assembly protein. [refseq;acc:nm_004376]	Subtracted	213.268	209.509	3.759
1524	COX10	protoheme ix farnesyltransferase, mitochondrial precursor (ec 2.5.1.-) (heme o synthase). [swissprot;acc:q12887]
	STARD3	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]	Divided	219.306	223.179	1.01766
1525	DPP10	dipeptidylpeptidase 10; dipeptidyl peptidase iv-related protein 3. [refseq;acc:nm_020868]	Subtracted	213.267	209.511	3.756
	FAT2	protocadherin fat 2 precursor (hfat2) (multiple epidermal growth factor-like domains 1). [swissprot;acc:q9nyq8]	Divided	219.306	223.179	1.01766
1526	DPP6	dipeptidyl aminopeptidase-like protein 6 (dipeptidylpeptidase vi) (dipeptidylpeptidase 6) (dipeptidyl peptidase iv like protein) (dipeptidyl aminopeptidase-related protein) (dppx). [swissprot;acc:p42658]	Subtracted	213.267	209.511	3.756
	FAT	cadherin-related tumor suppressor homolog precursor (fat protein homolog). [swissprot;acc:q14517]	Divided	219.306	223.179	1.01766
1527	FAP	seprase (ec 3.4.21.-) (fibroblast activation protein alpha) (integral membrane serine protease) (170-kda melanoma membrane-bound gelatinase). [swissprot;acc:q12884]	Subtracted	213.267	209.511	3.756
	STARD3NL	mln64 n-terminal domain homolog (stard3 n-terminal like protein). [swissprot;acc:o95772]	Divided	219.306	223.179	1.01766
1528	FOXA3	hepatocyte nuclear factor 3-gamma (hnf-3g) (forkhead box protein a3) (fork head-related protein fkh h3). [swissprot;acc:p55318]		217.785	214.021	1.01759
	MLLT4	af-6 protein. [swissprot;acc:p55196]	Subtracted	218.733	214.98	3.753
1529	ACTG1	actin, cytoplasmic 2 (gamma-actin). [swissprot;acc:p02571]	Divided	216.762	213.031	1.01751

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.