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

Results: HTML CSV LaTeX

Showing element 57924 to 57973 of 66312 in total

Network Comparison Type  : Subtracted
Filtered  : 1

Rank	description	Value Type	Hugo	Interaction Map	network_comparison	red	green
3096	ubiquinol-cytochrome c reductase complex core protein 2, mitochondrial precursor (ec 1.10.2.2) (complex iii subunit ii). [swissprot;acc:p22695]	Rooted	UQCRC2	Low confidence	2.2921	71.1765	73.4686
3097	acyl-coa-binding protein (acbp) (diazepam binding inhibitor) (dbi) (endozepine) (ep). [swissprot;acc:p07108]	Squared	DBI		1507.8	45124.6	43616.8
	mitogen-activated protein kinase kinase kinase 7 (ec 2.7.1.-) (transforming growth factor-beta-activated kinase 1) (tgf-beta- activated kinase 1). [swissprot;acc:o43318]	Rooted	MAP3K7		2.2921	71.1765	73.4686
	placental thrombin inhibitor (cytoplasmic antiproteinase) (cap) (protease inhibitor 6) (pi-6). [swissprot;acc:p35237]	Measured	SERPINB6		220.11	7924.59	8144.7
	scy1-like 1; telomerase regulation-associated protein; ht019 protein; telomerase regulation-associated protein; n-terminal kinase-like protein; teratoma-associated tyrosine kinase; n-terminal kinase-like. [refseq;acc:nm_020680]	Ranked	SCYL1		3.246	193.976	190.73
	sec23-interacting protein p125; phospholipase. [refseq;acc:nm_007190]	Measured	SEC23IP	High confidence	0	0	0
		Ranked
		Squared
		Rooted
3098	cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]	Measured	no value	Low confidence	220.11	7924.59	8144.7
	enhancer of zeste homolog 2 (enx-1). [swissprot;acc:q15910]		EZH2	High confidence	0	0	0
		Ranked
		Squared
		Rooted
	exportin 7 (ran-binding protein 16). [swissprot;acc:q9uia9]	Ranked	XPO7	Low confidence	3.246	193.976	190.73
	sequestosome 1; ubiquitin-binding protein p62; phosphotyrosine independent ligand for the lck sh2 domain p62. [refseq;acc:nm_003900]	Rooted	SQSTM1		2.292	72.7432	75.0352
	supervillin isoform 1; membrane-associated f-actin binding protein p205; archvillin. [refseq;acc:nm_003174]	Squared	no value		1507.8	45124.6	43616.8
3099	caveolin-1. [swissprot;acc:q03135]	Measured	CAV1	High confidence	0	0	0
		Ranked
		Squared
		Rooted
	gamma-tubulin complex component 2 (gcp-2) (spindle pole body protein spc97 homolog) (hspc97) (hgcp2) (h103p). [swissprot;acc:q9bsj2]		TUBGCP2	Low confidence	2.2917	72.3466	74.6383
	leukocyte elastase inhibitor (lei) (monocyte/neutrophil elastase inhibitor) (m/nei) (ei). [swissprot;acc:p30740]	Measured	SERPINB1		220.11	7924.59	8144.7
	symplekin. [swissprot;acc:q92797]	Ranked	SYMPK		3.246	200.109	196.863
	thymidylate synthase (ec 2.1.1.45) (ts) (tsase). [swissprot;acc:p04818]	Squared	TYMS		1507.7	43461.9	41954.2
3100	40s ribosomal protein s10. [swissprot;acc:p46783]	Rooted	no value		2.2916	71.7722	74.0638
	adp-ribosylation factor binding protein gga1 (golgi-localized, gamma ear-containing, arf-binding protein 1) (gamma-adaptin related protein 1). [swissprot;acc:q9ujy5]	Squared	GGA1		1507.7	45352	43844.3
	folliculin isoform 1. [refseq;acc:nm_144997]	Measured	FLCN		220.03	8016.02	8236.05
	gle1-like, rna export mediator; gle1 (yeast homolog)-like, rna export mediator; hgle1. [refseq;acc:nm_001499]	Ranked	GLE1L		3.246	198.893	195.647
	presenilin enhancer 2; hematopoietic stem/progenitor cells protein mds033. [refseq;acc:nm_172341]	Measured	no value	High confidence	0	0	0
		Ranked
		Squared
		Rooted
3101	destrin (actin-depolymerizing factor) (adf). [swissprot;acc:p18282]	Squared	DSTN	Low confidence	1507	45740	44233
	gamma-interferon inducible lysosomal thiol reductase precursor (gamma-interferon-inducible protein ip-30). [swissprot;acc:p13284]	Measured	no value	High confidence	0	0	0
		Ranked
		Squared
		Rooted
	myosin heavy chain, smooth muscle isoform (smmhc). [swissprot;acc:p35749]	Measured	MYH11	Low confidence	220.02	8039.06	8259.08
	nuclear pore complex protein nup98 (nucleoporin nup98) (98 kda nucleoporin). [swissprot;acc:p52948]	Ranked	NUP98		3.246	193.976	190.73
	sorting nexin 17. [swissprot;acc:q15036]	Rooted	SNX17		2.2916	71.9631	74.2547
3102	ammecr1 protein. [refseq;acc:nm_015365]	Ranked	AMMECR1		3.246	193.976	190.73
	myosin heavy chain, nonmuscle type a (cellular myosin heavy chain, type a) (nonmuscle myosin heavy chain-a) (nmmhc-a). [swissprot;acc:p35579]	Measured	MYH9		220.02	8038.97	8258.99
	protein cgi-140 (protein ptd008) (my006 protein). [swissprot;acc:q9y284]		C19orf56	High confidence	0	0	0
		Ranked
		Squared
		Rooted
	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]		LYZL1	Low confidence	2.2905	71.7354	74.0259
	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8]	Squared	SNX13		1506	44136.9	42630.9
3103	65 kda yes-associated protein (yap65). [swissprot;acc:p46937]	Rooted	YAP1		2.2904	71.6066	73.897

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.