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

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 575 to 624 of 66312 in total

Filtered  : 1

Rank	description	Hugo	Network Comparison Type	Value Type	Interaction Map	red	green	network_comparison
36	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583]	SON	Subtracted	Rooted	Low confidence	51.3588	60.737	9.3782
	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	TOB1	Divided	Ranked		296.837	258.33	1.14906
37	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	CHRAC1				250.244	217.843	1.14874
	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901]	GNB1	Subtracted		High confidence	266.716	333.165	66.449
	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488]	GNAT1	Divided	Measured		1836.76	907.763	2.02339
				Rooted		40.2805	24.3691	1.65293
	jun dimerization protein. [refseq;acc:nm_130469]	no value		Measured	Low confidence	6462.09	7593.77	1.17513
	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	JPH3	Subtracted	Ranked		234.802	260.98	26.178
	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]	no value		Measured	High confidence	23693.7	18263	5430.7
	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	MAGEA11		Squared	Low confidence	82347.8	61881.5	20466.3
	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	MAGEF1	Divided					1.33073
	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	MFAP4	Subtracted	Rooted	High confidence	26.0288	43.1914	17.1626
	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	PANK2	Divided	Squared		106226	192141	1.80879
	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	PPP1R14A		Ranked		322	253	1.27273
	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]	FOS	Subtracted	Rooted	Low confidence	66.5831	75.4064	8.8233
	rhomboid-related protein 1 (ec 3.4.21.-) (rrp) (rhomboid-like protein 1). [swissprot;acc:o75783]	RHBDL1		Measured		23239.9	21503.3	1736.6
	testis-specific protein tex28. [swissprot;acc:o15482]	TEX28P2	Divided	Rooted		51.7058	59.166	1.14428
	trs85 homolog. [swissprot;acc:q9y2l5]	KIAA1012	Subtracted	Squared	High confidence	227160	146079	81081
38	27 kda golgi snare protein (golgi snap receptor complex member 2) (membrin). [swissprot;acc:o14653]	GOSR2	Divided	Rooted	Low confidence	51.7058	59.166	1.14428
	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	ATG4B	Subtracted	Measured		13195.9	11486.4	1709.5
	glucosamine-6-phosphate isomerase. [refseq;acc:nm_138335]	GNPDA2	Divided	Ranked		247.202	282.937	1.14456
	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0]	GNB4	Subtracted		High confidence	266.933	333.281	66.348
	guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087]	GNAT2	Divided	Measured		1836.76	907.774	2.02337
				Rooted		40.2804	24.3692	1.65292
	jun dimerization protein. [refseq;acc:nm_130469]	no value	Subtracted		Low confidence	66.5831	75.4064	8.8233
	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	JPH2		Ranked		234.802	260.98	26.178
	melanoma antigen, family b, 6. [refseq;acc:nm_173523]	MAGEB6B	Divided	Squared		82347.8	61881.5	1.33073
	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	MAGEA10	Subtracted	Measured	High confidence	23693.7	18263	5430.7
	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	MAGEA2B		Squared	Low confidence	82347.8	61881.5	20466.3
	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	MFAP4	Divided	Ranked	High confidence	322	253	1.27273
	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	PANK3		Squared		106226	192141	1.80879
	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	PPP1R14D	Subtracted	Rooted		26.0288	43.1914	17.1626
	rab11-family interacting protein 4. [refseq;acc:nm_032932]	RAB11FIP4	Divided	Measured	Low confidence	7407.56	8696.7	1.17403
	wd-repeat protein wdc146. [swissprot;acc:q9c0j8]	WDR33	Subtracted	Squared	High confidence	226186	145568	80618
39	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]	CPSF1
	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]	MAP2K4	Divided	Rooted	Low confidence	63.4164	55.8176	1.13614
	eferin. [swissprot;acc:o75154]	RAB11FIP3		Measured		7407.56	8696.7	1.17403
	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]	FCN2	Subtracted	Rooted	High confidence	26.0288	43.1914	17.1626
	fos-related antigen 2. [swissprot;acc:p15408]	FOSL2			Low confidence	66.6469	75.3812	8.7343
	glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]	GNPDA1	Divided	Ranked		247.202	282.937	1.14456
	guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899]	GNAI2		Measured	High confidence	1836.8	907.903	2.02312
				Rooted		40.28	24.37	1.65285
	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520]	GNB3	Subtracted	Ranked		268.565	334.483	65.918
	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	no value		Squared	Low confidence	82347.8	61881.5	20466.3
	hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0]	NFU1		Measured		12176.9	13781.8	1604.9
	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	no value	Divided	Squared		82347.8	61881.5	1.33073
	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	MAGEB4	Subtracted	Measured	High confidence	23693.7	18263	5430.7
	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	SLC25A43	Divided	Squared		106226	192141	1.80879
	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	PPP1R14D		Ranked		322	253	1.27273
	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]	SMPD2	Subtracted		Low confidence	234.802	260.98	26.178

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.