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 80 to 129 of 33156 in total

Network Comparison Type  : Divided
Filtered  : 1

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

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.