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	network_comparison	green

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Showing element 775 to 824 of 66312 in total

Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	Interaction Map	red	network_comparison	green
49	FOSL1	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	Rooted	Divided	Low confidence	66.6623	1.1307	75.3751
	KHDRBS3	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]			High confidence	27.7254	1.58807	44.0299
	MAGEA11	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]		Subtracted		137.446	16.623	120.823
	MAGEA4	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	Squared		Low confidence	82347.8	20466.3	61881.5
	MAP1LC3B	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	Measured	Divided		13470.1	1.1558	11654.4
	NEUROD6	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]			High confidence	779.167	1.78438	1390.33
	SEPT4	septin 4 (peanut-like protein 2) (brain protein h5) (cell division control-related protein 2) (hcdcrel-2) (bradeion beta) (ce5b3 beta) (cerebral protein-7) (hucep-7). [swissprot;acc:o43236]		Subtracted	Low confidence	11141.5	1209.6	12351.1
	STAMBPL1	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	Squared	Divided	High confidence	28994.2	1.69212	17134.8
	TBX19	t-box transcription factor tbx19 (t-box protein 19). [swissprot;acc:o60806]	Ranked		Low confidence	225.438	1.11289	202.569
				Subtracted			22.869
50	no value	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Squared		High confidence	173408	69581	242989
		melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]			Low confidence	82347.8	20466.3	61881.5
	ARRB1	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	Ranked	Divided	High confidence	133	1.26667	105
	CHMP2A	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	Squared			28994.2	1.69212	17134.8
	CPD	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	Rooted		Low confidence	202.235	1.13003	178.965
	CPEB4	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Ranked	Subtracted	High confidence	350	60	290
			Rooted		Low confidence	48.8781	7.8472	56.7253
	CPSF2	cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0]	Measured		High confidence	24473.9	4346.1	20127.8
	HOXB4	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	Squared	Divided	Low confidence	122475	1.30449	159767
	JPH3	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	Ranked			234.802	1.11149	260.98
	KHDRBS1	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	Rooted		High confidence	27.7254	1.58807	44.0299
	MAGEA2B	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]		Subtracted		137.446	16.623	120.823
	MAP1LC3A	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	Measured	Divided	Low confidence	13466.8	1.15571	11652.4
	NDUFA12	nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09]	Ranked	Subtracted		233.134	22.867	210.267
	NEUROD1	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	Measured	Divided	High confidence	779.167	1.78438	1390.33
	VASP	vasodilator-stimulated phosphoprotein (vasp). [swissprot;acc:p50552]		Subtracted	Low confidence	12768	1196.6	11571.4
51	no value	ena/vasodilator stimulated phosphoprotein-like protein (ena/vasp-like protein). [swissprot;acc:q9ui08]
		hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	Rooted		High confidence	137.446	16.623	120.823
	CPEB3	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Ranked			350	60	290
	FIP1L1	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	Measured			23640.2	4160.4	19479.8
	GBAS	nipsnap2 protein (glioblastoma amplified sequence). [swissprot;acc:o75323]	Ranked		Low confidence	249.709	22.765	226.944
			Rooted	Divided		55.0884	1.12677	62.0722
	GSTO2	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]		Subtracted		62.7951	7.7799	70.575
	HOXB4	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	Squared		High confidence	173408	69581	242989
	HOXC5	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]		Divided	Low confidence	122475	1.30449	159767
	JPH2	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	Ranked			234.802	1.11149	260.98
	KHDRBS2	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	Rooted		High confidence	27.7254	1.58807	44.0299
	MAGEA10	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	Squared	Subtracted	Low confidence	82347.8	20466.3	61881.5
	NEUROD4	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]	Measured	Divided	High confidence	779.167	1.78438	1390.33
	SPATA6	spermatogenesis associated 6. [refseq;acc:nm_019073]	Ranked			133	1.26667	105
	STAMBP	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	Squared			28994.2	1.69212	17134.8
	XKR7	dj310o13.4 (novel protein similar to predicted c. elegans and c. intestinalis proteins) (fragment). [sptrembl;acc:q9nug5]	Measured		Low confidence	7563.09	1.15458	8732.2
52	no value	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Squared			122475	1.30449	159767
	AMPD2	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]	Ranked		High confidence	133	1.26667	105
	ATG4B	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Measured		Low confidence	13195.9	1.14883	11486.4
	CHD5	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]			High confidence	779.167	1.78438	1390.33
	CPSF3	cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6]		Subtracted		23422.4	4042.1	19380.3
	HOXC5	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]	Squared			173408	69581	242989
	MAGEA6	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	Rooted			137.446	16.623	120.823
	MAGEB4	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	Squared		Low confidence	82347.8	20466.3	61881.5

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.