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

Results: HTML CSV LaTeX

Showing element 80 to 129 of 33156 in total

Network Comparison Type  : Divided
Filtered  : 1

Rank	Hugo	description	Value Type	Interaction Map	red	network_comparison	green
10	TOB1	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Rooted	High confidence	19.9625	1.79326	35.798
11	BEST1	bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090]	Ranked	Low confidence	37.318	1.30966	28.4944
	DAB2IP	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	Measured	High confidence	398.5	3.21581	1281.5
			Squared		37.5863	10.3414	388.696
			Rooted		19.9625	1.79326	35.798
	JMJD1C	thyroid receptor interacting protein 8 (trip-8) (fragment). [swissprot;acc:q15652]	Measured	Low confidence	1917.64	1.53861	2950.5
	MRPS17	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Squared		106226	1.80879	192141
	PRSS3	trypsin iii precursor (ec 3.4.21.4) (brain trypsinogen) (mesotrypsinogen) (trypsin iv). [swissprot;acc:p35030]	Rooted		32.2231	1.48738	47.928
	RINT1	rad50-interacting protein 1. [refseq;acc:nm_021930]	Ranked	High confidence	337	1.45259	232
12	BEST4	vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274]		Low confidence	37.3475	1.30933	28.5242
	CPEB4	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Measured	High confidence	398.5	3.21581	1281.5
			Squared		37.5863	10.3414	388.696
			Rooted		19.9625	1.79326	35.798
	PRSS1	trypsin i precursor (ec 3.4.21.4) (cationic trypsinogen). [swissprot;acc:p07477]		Low confidence	32.2966	1.48549	47.9763
	RHOBTB2	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Ranked	High confidence	337	1.45259	232
	SLC25A43	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Squared	Low confidence	106226	1.80879	192141
	TMEM132A	gbp protein isoform a. [refseq;acc:nm_017870]	Measured		1921.96	1.5371	2954.24
13	no value	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Ranked		37.9984	1.30207	29.1831
	CPD	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	Squared		395912	1.63062	242799
	CPEB3	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Measured	High confidence	398.5	3.21581	1281.5
			Squared		37.5863	10.3414	388.696
			Rooted		19.9625	1.79326	35.798
	CYP27B1	25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]		Low confidence	39.2301	1.33896	52.5277
	JMJD1A	jumonji domain containing 1; zinc finger protein; testis-specific protein a. [refseq;acc:nm_018433]	Measured		1927.68	1.5351	2959.19
	UFC1	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	Ranked	High confidence	288.754	1.3585	212.554
14	no value	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]	Squared	Low confidence	7744.68	1.56161	4959.41
	ATG4A	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Ranked	High confidence	56.6768	1.32952	75.3531
	BEST2	vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682]		Low confidence	37.9984	1.30207	29.1831
	CYP27A1	cytochrome p450 27, mitochondrial precursor (ec 1.14.-.-) (cytochrome p-450c27/25) (sterol 26-hydroxylase) (sterol 27-hydroxylase) (vitamin d(3) 25-hydroxylase) (5-beta-cholestane-3-alpha,7-alpha,12-alpha-triol 27-hydroxylase). [swissprot;acc:q02318]	Rooted		39.2489	1.33864	52.5401
	PRSS3	trypsin iii precursor (ec 3.4.21.4) (brain trypsinogen) (mesotrypsinogen) (trypsin iv). [swissprot;acc:p35030]	Measured		1972.65	1.51983	2998.1
	RASAL2	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]		High confidence	398.5	3.21581	1281.5
			Squared		37.5863	10.3414	388.696
			Rooted		19.9625	1.79326	35.798
15	CYP24A1	cytochrome p450 24a1, mitochondrial precursor (ec 1.14.-.-) (p450- cc24) (vitamin d(3) 24-hydroxylase) (1,25-dihydroxyvitamin d(3) 24- hydroxylase) (24-ohase). [swissprot;acc:q07973]		Low confidence	39.8493	1.32836	52.9343
	MAP1LC3B	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	Ranked	High confidence	56.7244	1.32914	75.3948
	PRSS1	trypsin i precursor (ec 3.4.21.4) (cationic trypsinogen). [swissprot;acc:p07477]	Measured	Low confidence	1983.91	1.51612	3007.85
	SPAG7	sperm associated antigen 7. [refseq;acc:nm_004890]	Squared		209554	1.53438	136572
	TMEM132A	gbp protein isoform a. [refseq;acc:nm_017870]	Rooted	High confidence	23.9771	1.77158	42.4773
	UFC1	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	Ranked	Low confidence	255.046	1.26035	202.362
	XAB1	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Measured	High confidence	2671	3.06659	871
			Squared		1688.58	9.40399	179.56
16	ATPBD1C	protein x 0004. [refseq;acc:nm_016301]	Measured		2671	3.06659	871
			Squared		1688.58	9.40399	179.56
	BEST1	bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090]		Low confidence	333556	1.42441	475119
	JMJD1C	thyroid receptor interacting protein 8 (trip-8) (fragment). [swissprot;acc:q15652]	Ranked		305.472	1.2355	247.246
	MAP1LC3A	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]		High confidence	56.7252	1.32913	75.3954
	MRPS17	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Measured	Low confidence	21185	1.34491	28492
	TOB2	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Rooted		38.4152	1.27952	49.1529
	XAB1	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]		High confidence	51.6817	1.75117	29.5127
17	ATG4B	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Ranked		56.7841	1.32866	75.447

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.