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

Results: HTML CSV LaTeX

Showing element 808 to 857 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	red	network_comparison	green
101	SEPT6	septin 6. [swissprot;acc:q14141]	Squared	Subtracted	88953.6	35900.4	124854
102	CLP1	pre-mrna cleavage complex ii protein clp1. [swissprot;acc:q92989]			121200	35726.6	85473.4
	CPEB4	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Rooted		19.9625	15.8355	35.798
	FIP1L1	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	Squared	Divided	214143	1.54798	138337
	FOSL1	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	Ranked	Subtracted	204.642	43.574	161.068
	MAGED2	melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1]		Divided	88.2482	1.24949	110.265
	PSEN1	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	Measured		2353.63	1.3705	3225.65
	RAP1GAP	rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736]	Rooted		47.6504	1.29028	36.9304
	STAMBPL1	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	Measured	Subtracted	11068	2559.5	8508.5
103	no value	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]	Squared	Divided	407289	1.54656	263351
	CHMP2A	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]	Measured	Subtracted	11068	2559.5	8508.5
	CPEB3	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Rooted		19.9625	15.8355	35.798
	CUL1	cullin homolog 1 (cul-1). [swissprot;acc:q13616]	Measured	Divided	2353.63	1.3705	3225.65
	FOS	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]	Rooted		60.8365	1.27758	77.7233
	JUNB	transcription factor jun-b. [swissprot;acc:p17275]	Ranked	Subtracted	201.144	42.276	158.868
	SYMPK	symplekin. [swissprot;acc:q92797]	Squared		124118	35449.2	88668.8
	TRO	trophinin. [swissprot;acc:q12816]	Ranked	Divided	88.2482	1.24949	110.265
104	no value	jun dimerization protein. [refseq;acc:nm_130469]	Rooted		60.8365	1.27758	77.7233
	CSTF2T	likely ortholog of mouse variant polyadenylation protein cstf-64. [refseq;acc:nm_015235]	Squared	Subtracted	121579	34319.7	87259.3
	HOMER2	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839]	Ranked	Divided	252.371	1.24926	202.016
	MSI2	musashi 2 isoform a. [refseq;acc:nm_138962]	Measured		4241.57	1.36996	5810.79
	PSCD1	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	Squared		407289	1.54656	263351
	RASAL2	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	Rooted	Subtracted	19.9625	15.8355	35.798
	STAMBP	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	Measured		11068	2559.5	8508.5
	TARDBP	tar dna-binding protein-43 (tdp-43). [swissprot;acc:q13148]	Ranked		256.228	42.21	298.438
105	no value	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007]	Rooted		63.7477	15.5889	48.1588
	FOSL2	fos-related antigen 2. [swissprot;acc:p15408]		Divided	60.8675	1.27682	77.7168
	GNB1	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901]	Ranked		266.716	1.24914	333.165
	JUND	transcription factor jun-d. [swissprot;acc:p17535]		Subtracted	200.941	42	158.941
	MSI1	musashi 1. [refseq;acc:nm_002442]	Measured	Divided	4241.57	1.36996	5810.79
	PSCD2	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	Squared		407289	1.54656	263351
	RALGDS	ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967]		Subtracted	90432.9	34128.7	56304.2
	VPS24	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	Measured		11068	2559.5	8508.5
106	CHMP4A	protein hspc134 (protein cda04). [swissprot;acc:q9by43]
	COQ7	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807]	Ranked	Divided	252.329	1.24913	202.004
	FOSB	protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]	Rooted		60.8692	1.27678	77.7165
	NOSTRIN	nostrin. [refseq;acc:nm_052946]	Ranked	Subtracted	209.299	39.888	249.187
	PPP2R2D	uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48]	Rooted		63.7477	15.5888	48.1589
	PSCD4	cytohesin 4. [swissprot;acc:q9uia0]	Squared	Divided	407289	1.54656	263351
	SEPT4	septin 4 (peanut-like protein 2) (brain protein h5) (cell division control-related protein 2) (hcdcrel-2) (bradeion beta) (ce5b3 beta) (cerebral protein-7) (hucep-7). [swissprot;acc:o43236]		Subtracted	82624.3	32436.7	115061
	ZC3H14	nuclear protein ukp68. [refseq;acc:nm_024824]	Measured	Divided	4241.57	1.36996	5810.79
107	FOSL1	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	Rooted		60.875	1.27664	77.7152
	HOMER1	homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272]	Ranked		252.309	1.24907	201.998
	NCBP2	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	Measured		4266.04	1.36977	5843.51
	PPP2R2B	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [swissprot;acc:q00005]	Rooted	Subtracted	63.7477	15.5883	48.1594
	PSCD3	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Squared	Divided	407289	1.54656	263351
	RGL1	ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [swissprot;acc:q9nzl6]		Subtracted	84857.8	31455.4	53402.4
	SEPT1	septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6]	Measured		14229.2	2551.5	16780.7
	SNF8	eap30 subunit of ell complex. [refseq;acc:nm_007241]	Ranked		209.299	39.888	249.187
108	no value	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	Squared	Divided	19321	1.54043	12542.6

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.