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

Results: HTML CSV LaTeX

Showing element 5786 to 5835 of 66312 in total

Filtered  : 1

Rank	Network Comparison Type	Hugo	description	Value Type	Interaction Map	red	network_comparison	green
362	Subtracted	no value	secreted modular calcium-binding protein 1. [refseq;acc:nm_022137]	Ranked	Low confidence	204.231	7.458	196.773
		CAPN1	calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384]	Rooted	High confidence	46.8525	6.6791	53.5316
		DVL3	segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997]	Measured		4981.52	983.06	5964.58
		KATNB1	katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [refseq;acc:nm_005886]	Ranked		232.382	19.784	252.166
		RRAGC	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	Squared	Low confidence	51553.8	3336.4	54890.2
		TMED10	transmembrane protein tmp21 precursor (21 kda transmembrane trafficking protein) (p24delta) (s31iii125) (s31i125) (tmp-21-i). [swissprot;acc:p49755]	Rooted		85.3761	3.6078	88.9839
		YPEL4	yippee-like protein 5. [swissprot;acc:q96ns1]	Measured		8940.99	447.35	9388.34
363	Divided	BOP1	block of proliferation 1. [swissprot;acc:q14137]	Rooted	High confidence	49.4884	1.10477	54.6735
		CDC2	cell division control protein 2 homolog (ec 2.7.1.-) (p34 protein kinase) (cyclin-dependent kinase 1) (cdk1). [swissprot;acc:p06493]	Measured		12780.7	1.17509	10876.4
		CHDH	choline dehydrogenase. [refseq;acc:nm_018397]	Ranked	Low confidence	204.231	1.0379	196.773
		IPO13	importin 13; ran binding protein 13. [refseq;acc:nm_014652]	Squared		47602.7	1.07149	44426.5
		PARL	presenilins associated rhomboid-like protein. [refseq;acc:nm_018622]	Measured		9099.15	1.05433	9593.54
		PRPF19	nuclear matrix protein nmp200 related to splicing factor prp19. [refseq;acc:nm_014502]	Rooted		71.4038	1.05019	74.9877
		SHROOM3	shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [refseq;acc:nm_020859]	Ranked	High confidence	231.481	1.09639	211.131
		TAF7L	tata box binding protein-associated factor, rna polymerase ii, q; taf7-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 50 kd; tbp-associated factor, rna polymerase ii, q. [refseq;acc:nm_024885]	Squared		57579.2	1.23834	46497.2
	Subtracted	no value	alpha-nac protein. [sptrembl;acc:q9h009]			34069.4	6263.6	40333
		AQP6	aquaporin 6 (aquaporin-2 like) (hkid). [swissprot;acc:q13520]	Measured	Low confidence	8858.26	447.22	9305.48
		CBLB	signal transduction protein cbl-b (sh3-binding protein cbl-b). [swissprot;acc:q13191]		High confidence	6856.71	981.59	7838.3
		LSM6	u6 snrna-associated sm-like protein lsm6 (sm protein f). [swissprot;acc:q9y4y8]	Rooted		56.48	6.639	63.119
		PACSIN3	protein kinase c and casein kinase substrate in neurons protein 3 (sh3 domain-containing protein 6511) (endophilin i). [swissprot;acc:q9uks6]	Squared	Low confidence	52878.8	3330.8	49548
		PFDN1	prefoldin subunit 1. [swissprot;acc:o60925]	Ranked		204.231	7.458	196.773
		PIGB	phosphatidylinositol glycan, class b. [refseq;acc:nm_004855]	Rooted		85.3761	3.6078	88.9839
		SETMAR	set domain and mariner transposase fusion gene. [refseq;acc:nm_006515]	Ranked	High confidence	233.539	19.658	253.197
364	Divided	DDX31	dead (asp-glu-ala-asp) box polypeptide 31 isoform 1; dead/dexh helicase ddx31. [refseq;acc:nm_022779]	Rooted		50.0785	1.1047	55.3215
		DGCR14	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	Ranked	Low confidence	212.235	1.03785	204.495
		GULP1	ptb domain adaptor protein ced-6; engulfment adapter protein. [refseq;acc:nm_016315]	Measured	High confidence	5189	1.17334	6088.47
		LUC7L2	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]		Low confidence	7711.11	1.05423	8129.27
		MPP2	maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168]	Squared		47813.3	1.07136	44628.6
		POLR2B	dna-directed rna polymerase ii 140 kda polypeptide (ec 2.7.7.6) (rna polymerase ii subunit 2) (rpb2). [swissprot;acc:p30876]	Ranked	High confidence	243.208	1.09625	266.617
		SH2D3C	sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489]	Squared		17957.2	1.23817	22234.1
		SYNJ1	synaptojanin 1 (ec 3.1.3.36) (synaptic inositol-1,4,5-trisphosphate 5- phosphatase 1). [swissprot;acc:o43426]	Rooted	Low confidence	72.885	1.05009	76.5357
	Subtracted	no value	dok-like protein. [refseq;acc:nm_024872]	Measured	High confidence	6102.59	978.87	7081.46
		CLEC4M	cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257]	Ranked		233.539	19.658	253.197
		DIRAS1	small gtp-binding tumor suppressor 1. [refseq;acc:nm_145173]	Squared		34068.1	6262.7	40330.8
		GIPC1	rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [swissprot;acc:o14908]	Rooted		60.594	6.6304	67.2244
		KHDRBS3	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]		Low confidence	69.1548	3.6062	72.761
		PACSIN1	protein kinase c and casein kinase substrate in neurons protein 1. [swissprot;acc:q9by11]	Squared		52878.8	3330.8	49548
		SMOC2	secreted modular calcium-binding protein 2; smooth muscle associated protein 2. [refseq;acc:nm_022138]	Ranked		204.231	7.458	196.773
		WAS	wiskott-aldrich syndrome protein (wasp). [swissprot;acc:p42768]	Measured		8140.28	446.33	8586.61
365	Divided	no value	pnas-129. [sptrembl;acc:q9bxv8]	Squared		47804.5	1.07131	44622.6
		BCAR3	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]		High confidence	17965.8	1.23807	22243
		CAPS	calcyphosine. [swissprot;acc:q13938]	Measured		5189	1.17334	6088.47
		MRPL36	60s ribosomal protein l36, mitochondrial precursor (l36mt) (brca1- interacting protein 1). [swissprot;acc:q9p0j6]	Ranked		242.744	1.09609	266.07
		NOL1	proliferating-cell nucleolar antigen p120 (proliferation-associated nucleolar protein p120). [swissprot;acc:p46087]	Rooted		49.7541	1.10428	54.9425
		PRPF40B	huntingtin interacting protein c. [refseq;acc:nm_012272]		Low confidence	71.3292	1.04991	74.8889
		SLC26A9	solute carrier family 26, member 9 isoform b; anion transporter/exchanger-9. [refseq;acc:nm_134325]	Measured		8452.93	1.05419	8910.99
		SPAG7	sperm associated antigen 7. [refseq;acc:nm_004890]	Ranked		117.525	1.03773	121.959
	Subtracted	no value	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	Rooted		71.2844	3.6038	74.8882
		CHDH	choline dehydrogenase. [refseq;acc:nm_018397]	Ranked		204.231	7.458	196.773
		DIRAS2	di-ras2. [refseq;acc:nm_017594]	Squared	High confidence	34068	6262.7	40330.7

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.