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 2908 to 2957 of 66312 in total

Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	Interaction Map	red	network_comparison	green
182	PPP1R14A	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	Measured	Subtracted	Low confidence	5334.13	599.27	5933.4
	PRKAG1	5'-amp-activated protein kinase, gamma-1 subunit (ampk gamma-1 chain) (ampkg). [swissprot;acc:p54619]	Squared	Divided		54678.1	1.11042	49240.7
	PXK	px serine/threonine kinase. [refseq;acc:nm_017771]	Ranked			196.372	1.05385	206.947
	RBM15B	chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286]	Rooted	Subtracted	High confidence	47.6504	10.72	36.9304
	SFRS8	splicing factor, arginine/serine-rich 8 (suppressor of white apricot protein homolog). [swissprot;acc:q12872]	Squared			64739.9	14439.3	50300.6
183	no value	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]	Measured	Divided		4069.83	1.29051	5252.17
		bromodomain adjacent to zinc finger domain protein 1a (atp-utilizing chromatin assembly and remodeling factor 1) (hacf1) (atp-dependent chromatin remodelling protein) (williams syndrome transcription factor-related chromatin remodeling factor 180) (wcrf180) (hwalp1) (chrac subunit acf1) (hspc317). [swissprot;acc:q9nrl2]	Ranked		Low confidence	196.372	1.05385	206.947
	ACADVL	acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748]	Squared		High confidence	79779.8	1.35478	108084
	ANAPC2	anaphase-promoting complex subunit 2; anaphase-promoting complex 2. [refseq;acc:nm_013366]		Subtracted		69124.3	14226.9	54897.4
	ATP1B1	sodium/potassium-transporting atpase beta-1 chain (sodium/potassium- dependent atpase beta-1 subunit). [swissprot;acc:p05026]		Divided	Low confidence	52767.9	1.11042	47520.7
	DNALI1	axonemal dynein light intermediate polypeptide 1 (inner dynein arm light chain, axonemal) (hp28). [swissprot;acc:o14645]	Rooted			67.0706	1.06257	71.2671
	GSTO1	glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417]	Ranked	Subtracted	High confidence	227.357	26.793	254.15
	HSPB6	heat-shock 20 kda like-protein p20. [swissprot;acc:o14558]			Low confidence	219.606	10.702	208.904
	JPH2	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	Rooted			57.5193	4.4228	53.0965
	MFAP4	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	Measured			5334.13	599.27	5933.4
	NCBP2	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	Ranked	Divided	High confidence	228.306	1.153	198.011
	NEDD9	enhancer of filamentation 1 (hef1) (crk-associated substrate-related protein) (cas-l) (casl) (pp105) (neural precursor cell expressed developmentally down-regulated 9). [swissprot;acc:q14511]	Rooted			57.4586	1.15446	66.3336
	PAPOLG	poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3]	Squared	Subtracted	Low confidence	51730.2	5171	46559.2
	PBLD	mawd binding protein (unknown protein 32 from 2d-page of liver tissue). [swissprot;acc:p30039]	Measured	Divided		10087.8	1.07763	10870.9
	RGS19	regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795]	Rooted	Subtracted	High confidence	47.6504	10.72	36.9304
	ZC3H14	nuclear protein ukp68. [refseq;acc:nm_024824]	Measured			4241.57	1569.22	5810.79
184	no value	small glutamine rich protein with tetratricopeptide repeats 2. [refseq;acc:nm_019072]	Squared	Divided		72886.3	1.35203	98544.5
		spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813]	Measured		Low confidence	7764.08	1.07749	8365.72
	AIG1	androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108]	Ranked	Subtracted	High confidence	227.357	26.793	254.15
	ATG4A	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Rooted	Divided		153.602	1.15321	133.195
	CLEC3B	tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [swissprot;acc:p05452]	Measured	Subtracted		10804.7	1558.9	12363.6
	CRYAA	alpha crystallin a chain. [swissprot;acc:p02489]	Ranked		Low confidence	219.589	10.694	208.895
	OSR1	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]		Divided	High confidence	274.027	1.15239	237.79
	PC	pyruvate carboxylase, mitochondrial precursor (ec 6.4.1.1) (pyruvic carboxylase) (pcb). [swissprot;acc:p11498]	Squared	Subtracted		48127.9	14117.7	62245.6
	PPP1R14D	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	Measured		Low confidence	5334.13	599.27	5933.4
	RBM15	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37]	Rooted		High confidence	47.6504	10.72	36.9304
	SMPD2	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]			Low confidence	57.5193	4.4228	53.0965
	SNRPB2	u2 small nuclear ribonucleoprotein b". [swissprot;acc:p08579]		Divided		70.6712	1.06257	75.0934
	SRM	spermidine synthase (ec 2.5.1.16) (putrescine aminopropyltransferase) (spdsy). [swissprot;acc:p19623]	Squared			54936	1.11039	49474.7
	SYNCRIP	ns1-associated protein 1. [refseq;acc:nm_006372]	Measured		High confidence	4069.83	1.29051	5252.17
	TMF1	tata element modulatory factor (tmf). [swissprot;acc:p82094]	Squared	Subtracted	Low confidence	54650.6	5149.1	49501.5
	TSGA10	testis specific, 10. [refseq;acc:nm_025244]	Ranked	Divided		196.373	1.05384	206.946
185	no value	f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755]				212.589	1.0537	201.755
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]		Subtracted		211.457	10.681	222.138
		putative adenosylhomocysteinase 3 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:q96hn2]	Measured	Divided		6852.7	1.07736	6360.64
	ADIPOR2	adiponectin receptor 2. [refseq;acc:nm_024551]	Ranked		High confidence	281.582	1.14292	246.371
	ATP5F1	atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539]		Subtracted		227.357	26.793	254.15
	BRD2	bromodomain-containing protein 2 (ring3 protein) (o27.1.1). [swissprot;acc:p25440]	Squared		Low confidence	53878.5	5137.9	48740.6
	FCN2	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]	Measured			5334.13	599.27	5933.4
	HGS	hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712]	Squared		High confidence	70830.5	14008.5	56822
	HNRNPR	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	Measured	Divided		4069.83	1.29051	5252.17
	HS3ST6	c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]	Squared			41502.9	1.34589	30836.8
	MAP1LC3B	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	Rooted			153.578	1.1532	133.176
	PPP2R1B	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [swissprot;acc:p30154]	Measured	Subtracted		4599.26	1540.69	3058.57
	PRKAG3	5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [swissprot;acc:q9ugi9]	Squared	Divided	Low confidence	54659.6	1.11029	49230.2

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.