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 4758 to 4807 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Value Type	red	green	network_comparison
1190	SPTBN2	spectrin beta chain, brain 2 (spectrin, non-erythroid beta chain 2) (beta-iii spectrin). [swissprot;acc:o15020]	Squared	21634.8	24608.1	1.13743
	UBB	ubiquitin. [swissprot;acc:p02248]	Ranked	209.6	204.372	1.02558
	ZIC1	zinc finger protein zic 1 (zinc finger protein of the cerebellum 1). [swissprot;acc:q15915]	Rooted	61.4873	64.3719	1.04691
1191	ATP13A2	probable cation-transporting atpase 1 (ec 3.6.1.-). [swissprot;acc:q9nq11]	Measured	6599.84	7174.29	1.08704
	SPTBN1	spectrin beta chain, brain 1 (spectrin, non-erythroid beta chain 1) (beta-ii spectrin) (fodrin beta chain). [swissprot;acc:q01082]	Squared	21634.8	24608.1	1.13743
	UBP1	upstream binding protein 1 (lbp-1a). [refseq;acc:nm_014517]	Ranked	220.742	215.237	1.02558
	ZIC3	zinc finger protein zic 3 (zinc finger protein of the cerebellum 3). [swissprot;acc:o60481]	Rooted	61.4869	64.3691	1.04688
1192	MTAP	5'-methylthioadenosine phosphorylase (ec 2.4.2.28) (mta phosphorylase) (mtapase). [swissprot;acc:q13126]	Squared	21639	24612.9	1.13743
	TBP	tata box binding protein (transcription initiation factor tfiid) (tata-box factor) (tata sequence-binding protein) (tbp). [swissprot;acc:p20226]	Measured	6599.84	7174.29	1.08704
	TFCP2	transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653]	Ranked	220.742	215.237	1.02558
	ZIC2	zinc finger protein zic 2 (zinc finger protein of the cerebellum 2). [swissprot;acc:o95409]	Rooted	61.4866	64.3673	1.04685
1193	C10orf83	44050 protein. [refseq;acc:nm_178832]		108.34	103.501	1.04675
	FTSJ1	putative ribosomal rna methyltransferase 1 (ec 2.1.1.-) (rrna (uridine-2'-o-)-methyltransferase) (jm23 protein). [swissprot;acc:q9uet6]	Squared	21639	24612.9	1.13743
	KIAA0664	putative eukaryotic translation initiation factor 3 subunit (eif-3) (fragment). [swissprot;acc:o75153]	Measured	5464.9	5940.16	1.08697
	TFCP2L1	lbp-9. [refseq;acc:nm_014553]	Ranked	220.742	215.237	1.02558
1194	CCT5	t-complex protein 1, epsilon subunit (tcp-1-epsilon) (cct-epsilon). [swissprot;acc:p48643]	Measured	8425.35	7751.57	1.08692
	PGM3	phosphoacetylglucosamine mutase (ec 5.4.2.3) (pagm) (acetylglucosamine phosphomutase) (n-acetylglucosamine-phosphate mutase) (phosphoglucomutase 3). [swissprot;acc:o95394]	Squared	21634.8	24608.1	1.13743
	PPP1R8	nuclear inhibitor of protein phosphatase-1 (nipp-1) (protein phosphatase 1, regulatory inhibitor subunit 8) [includes: activator of rna decay (ec 3.1.4.-) (ard-1)]. [swissprot;acc:q12972]	Rooted	108.34	103.501	1.04675
	SFRS3	splicing factor, arginine/serine-rich 3 (pre-mrna splicing factor srp20) (x16 protein). [swissprot;acc:p23152]	Ranked	220.742	215.237	1.02558
1195	CREB5	camp response element-binding protein cre-bpa. [refseq;acc:nm_004904]	Rooted	61.4842	64.3512	1.04663
	FAU	40s ribosomal protein s30. [swissprot;acc:q05472]	Squared	28134.5	31984.1	1.13683
	FHL2	skeletal muscle lim-protein 3 (slim 3) (lim-domain protein dral) (four and a half lim domains protein 2) (fhl-2). [swissprot;acc:q14192]	Ranked	269.608	276.493	1.02554
	PARS2	similar to trna synthetase class ii. [refseq;acc:nm_152268]	Measured	5439.56	5911.24	1.08671
1196	no value	kappa b-ras 1. [refseq;acc:nm_020345]		5721.19	6217.2	1.0867
	KIF2B	kinesin protein. [refseq;acc:nm_032559]	Ranked	224.858	219.264	1.02551
	MYB	myb proto-oncogene protein (c-myb). [swissprot;acc:p10242]	Rooted	60.0873	62.8865	1.04659
	MYCL1	l-myc-1 proto-oncogene protein. [swissprot;acc:p12524]	Squared	20812.4	23659.7	1.13681
1197	no value	heat shock factor binding protein 1. [swissprot;acc:o75506]	Rooted	62.6382	65.5533	1.04654
	KCTD10	mstp028 protein. [refseq;acc:nm_031954]	Ranked	219.042	213.6	1.02548
	NEK1	serine/threonine-protein kinase nek1 (ec 2.7.1.37) (nima-related protein kinase 1) (ny-ren-55 antigen). [swissprot;acc:q96py6]	Squared	26914.1	30594.2	1.13674
	NKIRAS2	i-kappa-b-interacting ras-like protein 2. [refseq;acc:nm_017595]	Measured	5721.19	6217.2	1.0867
1198	FHL3	skeletal muscle lim-protein 2 (slim 2) (four and a half lim domains protein 3) (fhl-3). [swissprot;acc:q13643]	Ranked	269.59	276.454	1.02546
	NEK3	serine/threonine-protein kinase nek3 (ec 2.7.1.37) (nima-related protein kinase 3) (hspk 36). [swissprot;acc:p51956]	Squared	26914.1	30594.2	1.13674
	OTX2	homeobox protein otx2. [swissprot;acc:p32243]	Rooted	56.0239	58.6274	1.04647
	SNAPAP	snare associated protein snapin. [refseq;acc:nm_012437]	Measured	5721.19	6217.2	1.0867
1199	MPHOSPH10	u3 small nucleolar ribonucleoprotein protein mpp10 (m phase phosphoprotein 10). [swissprot;acc:o00566]	Ranked	241.496	235.508	1.02543
	MYCN	n-myc proto-oncogene protein. [swissprot;acc:p04198]	Squared	20816.6	23663.1	1.13674
	PEX5L	pxr2b protein. [refseq;acc:nm_016559]	Rooted	66.7327	69.832	1.04644
	SHMT2	serine hydroxymethyltransferase, mitochondrial precursor (ec 2.1.2.1) (serine methylase) (glycine hydroxymethyltransferase) (shmt). [swissprot;acc:p34897]	Measured	5449.48	5921.77	1.08667
1200	GAPDH	glyceraldehyde 3-phosphate dehydrogenase, liver (ec 1.2.1.12) (gapdh). [swissprot;acc:p04406]	Squared	26914.1	30594.2	1.13674
	OTX1	homeobox protein otx1. [swissprot;acc:p32242]	Rooted	56.0736	58.677	1.04643
	SMARCB1	swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily b member 1 (integrase interactor 1 protein) (hsnf5) (baf47). [swissprot;acc:q12824]	Ranked	219.03	213.604	1.0254
	XYLB	xylulokinase homolog; xylulokinase (h. influenzae) homolog. [refseq;acc:nm_005108]	Measured	5950.27	6465.72	1.08663
1201	CRX	cone-rod homeobox protein. [swissprot;acc:o43186]	Rooted	56.0896	58.6931	1.04642
	DTYMK	thymidylate kinase (ec 2.7.4.9) (dtmp kinase). [swissprot;acc:p23919]	Measured	6042.31	6565.03	1.08651
	MIZF	mbd2 (methyl-cpg-binding protein)-interacting zinc finger protein. [refseq;acc:nm_015517]	Squared	19317.7	21958.6	1.13671
	SDHA	succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial precursor (ec 1.3.5.1) (fp) (flavoprotein subunit of complex ii). [swissprot;acc:p31040]	Ranked	210.986	216.344	1.0254
1202	DPH2	diphthamide biosynthesis-like protein 2. [refseq;acc:nm_001384]		227.274	233.041	1.02537
	HMBS	porphobilinogen deaminase (ec 4.3.1.8) (hydroxymethylbilane synthase) (hmbs) (pre-uroporphyrinogen synthase) (pbg-d). [swissprot;acc:p08397]	Measured	4913.07	5337.95	1.08648
	MYBL2	myb-related protein b (b-myb). [swissprot;acc:p10244]	Rooted	60.1108	62.9002	1.0464

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.