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 582 to 631 of 66312 in total

Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	Interaction Map	red	green	network_comparison
37	GNAT1	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488]	Rooted	Divided	High confidence	40.2805	24.3691	1.65293
	GNB1	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901]	Ranked	Subtracted		266.716	333.165	66.449
	JPH3	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]			Low confidence	234.802	260.98	26.178
	KIAA1012	trs85 homolog. [swissprot;acc:q9y2l5]	Squared		High confidence	227160	146079	81081
	MAGEA11	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]			Low confidence	82347.8	61881.5	20466.3
	MAGEF1	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]		Divided				1.33073
	MFAP4	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	Rooted	Subtracted	High confidence	26.0288	43.1914	17.1626
	PANK2	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	Squared	Divided		106226	192141	1.80879
	PPP1R14A	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	Ranked			322	253	1.27273
	RHBDL1	rhomboid-related protein 1 (ec 3.4.21.-) (rrp) (rhomboid-like protein 1). [swissprot;acc:o75783]	Measured	Subtracted	Low confidence	23239.9	21503.3	1736.6
	TEX28P2	testis-specific protein tex28. [swissprot;acc:o15482]	Rooted	Divided		51.7058	59.166	1.14428
38	no value	jun dimerization protein. [refseq;acc:nm_130469]		Subtracted		66.5831	75.4064	8.8233
	ATG4B	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Measured			13195.9	11486.4	1709.5
	GNAT2	guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087]		Divided	High confidence	1836.76	907.774	2.02337
			Rooted			40.2804	24.3692	1.65292
	GNB4	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0]	Ranked	Subtracted		266.933	333.281	66.348
	GNPDA2	glucosamine-6-phosphate isomerase. [refseq;acc:nm_138335]		Divided	Low confidence	247.202	282.937	1.14456
	GOSR2	27 kda golgi snare protein (golgi snap receptor complex member 2) (membrin). [swissprot;acc:o14653]	Rooted			51.7058	59.166	1.14428
	JPH2	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	Ranked	Subtracted		234.802	260.98	26.178
	MAGEA10	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	Measured		High confidence	23693.7	18263	5430.7
	MAGEA2B	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	Squared		Low confidence	82347.8	61881.5	20466.3
	MAGEB6B	melanoma antigen, family b, 6. [refseq;acc:nm_173523]		Divided				1.33073
	MFAP4	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	Ranked		High confidence	322	253	1.27273
	PANK3	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	Squared			106226	192141	1.80879
	PPP1R14D	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	Rooted	Subtracted		26.0288	43.1914	17.1626
	RAB11FIP4	rab11-family interacting protein 4. [refseq;acc:nm_032932]	Measured	Divided	Low confidence	7407.56	8696.7	1.17403
	WDR33	wd-repeat protein wdc146. [swissprot;acc:q9c0j8]	Squared	Subtracted	High confidence	226186	145568	80618
39	no value	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]			Low confidence	82347.8	61881.5	20466.3
		melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]		Divided				1.33073
	CPSF1	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]		Subtracted	High confidence	226186	145568	80618
	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]	Rooted			26.0288	43.1914	17.1626
	FOSL2	fos-related antigen 2. [swissprot;acc:p15408]			Low confidence	66.6469	75.3812	8.7343
	GNAI2	guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899]	Measured	Divided	High confidence	1836.8	907.903	2.02312
			Rooted			40.28	24.37	1.65285
	GNB3	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520]	Ranked	Subtracted		268.565	334.483	65.918
	GNPDA1	glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]		Divided	Low confidence	247.202	282.937	1.14456
	MAGEB4	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	Measured	Subtracted	High confidence	23693.7	18263	5430.7
	MAP2K4	dual specificity mitogen-activated protein kinase kinase 4 (ec 2.7.1.-) (map kinase kinase 4) (jnk activating kinase 1) (c-jun n- terminal kinase kinase 1) (jnkk) (sapk/erk kinase 1) (sek1). [swissprot;acc:p45985]	Rooted	Divided	Low confidence	63.4164	55.8176	1.13614
	NFU1	hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0]	Measured	Subtracted		12176.9	13781.8	1604.9
	PPP1R14D	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	Ranked	Divided	High confidence	322	253	1.27273
	RAB11FIP3	eferin. [swissprot;acc:o75154]	Measured		Low confidence	7407.56	8696.7	1.17403
	SLC25A43	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Squared		High confidence	106226	192141	1.80879
	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]	Ranked	Subtracted	Low confidence	234.802	260.98	26.178
40	no value	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	Rooted		High confidence	26.0288	43.1914	17.1626
	ATG4A	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Squared	Divided		144940	81169.7	1.78564
	CPSF2	cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0]		Subtracted		222655	143584	79071
	DTX2	deltex 2. [refseq;acc:nm_020892]	Ranked			333.144	267.393	65.751
	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]		Divided		322	253	1.27273
	FOSB	protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]	Rooted	Subtracted	Low confidence	66.6504	75.3798	8.7294
	FOSL2	fos-related antigen 2. [swissprot;acc:p15408]	Measured	Divided		6480.59	7600.25	1.17277

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.