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

Results: HTML CSV LaTeX

Showing element 3180 to 3229 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Hugo	Value Type	red	network_comparison	green
795	serpin b11. [swissprot;acc:q96p15]	no value	Ranked	224.244	1.04578	234.511
796	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]		Measured	6834.54	1.11061	7590.49
	placental thrombin inhibitor (cytoplasmic antiproteinase) (cap) (protease inhibitor 6) (pi-6). [swissprot;acc:p35237]	SERPINB6	Ranked	224.244	1.04578	234.511
	set domain and mariner transposase fusion gene. [refseq;acc:nm_006515]	SETMAR	Rooted	54.765	1.06481	51.4319
	xpmc2 prevents mitotic catastrophe 2 homolog; xenopus prevents mitotic catastrophe 2 homolog. [refseq;acc:nm_020385]	REXO4	Squared	25842.1	1.16451	30093.4
797	cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]	no value	Ranked	224.244	1.04578	234.511
	importin beta-1 subunit (karyopherin beta-1 subunit) (nuclear factor p97) (importin 90). [swissprot;acc:q14974]	KPNB1	Measured	6834.54	1.11061	7590.49
	limbic system-associated membrane protein precursor (lsamp). [swissprot;acc:q13449]	LSAMP	Squared	22535.2	1.16433	26238.4
	structure-specific recognition protein 1 (ssrp1) (recombination signal sequence recognition protein) (t160) (chromatin-specific transcription elongation factor 80 kda subunit) (fact 80 kda subunit). [swissprot;acc:q08945]	SSRP1	Rooted	54.1622	1.06481	57.6725
798	cd209 antigen-like; putative type ii membrane protein. [refseq;acc:nm_014257]	CLEC4M		54.765		51.4319
	leukocyte elastase inhibitor (lei) (monocyte/neutrophil elastase inhibitor) (m/nei) (ei). [swissprot;acc:p30740]	SERPINB1	Ranked	224.244	1.04578	234.511
	opioid binding protein/cell adhesion molecule precursor (obcam) (opioid-binding cell adhesion molecule) (opcml). [swissprot;acc:q14982]	OPCML	Squared	22587.2	1.1642	26296.1
	transducin beta-like 1x protein (transducin-beta-like 1, x-linked). [swissprot;acc:o60907]	TBL1X	Measured	6834.54	1.11061	7590.49
799	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734]	FCER2	Rooted	54.765	1.06481	51.4319
	neurotrimin precursor (hnt). [swissprot;acc:q9p121]	no value	Squared	22623.7	1.16412	26336.8
	sequestosome 1; ubiquitin-binding protein p62; phosphotyrosine independent ligand for the lck sh2 domain p62. [refseq;acc:nm_003900]	SQSTM1	Ranked	221.965	1.04501	212.404
	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	TBL1Y	Measured	6834.54	1.11061	7590.49
800	chromatin-specific transcription elongation factor large subunit. [refseq;acc:nm_007192]	SUPT16H	Rooted	54.1622	1.06481	57.6725
	nonspecific lipid-transfer protein, mitochondrial precursor (nsl-tp) (sterol carrier protein 2) (scp-2) (sterol carrier protein x) (scp-x) (scpx). [swissprot;acc:p22307]	SCP2	Ranked	221.965	1.04501	212.404
	orphan nuclear receptor nr6a1 (germ cell nuclear factor) (gcnf) (retinoid receptor-related testis specific receptor) (rtr). [swissprot;acc:q15406]	NR6A1	Measured	6075.55	1.1105	6746.92
	phosphomannomutase 2 (ec 5.4.2.8) (pmm 2). [swissprot;acc:o15305]	PMM2	Squared	22210.6	1.1634	25839.9
801	beta-catenin (pro2286). [swissprot;acc:p35222]	CTNNB1	Ranked	224.445	1.04445	214.894
	cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [refseq;acc:nm_021155]	CD209	Rooted	54.765	1.06481	51.4319
	importin alpha-3 subunit (karyopherin alpha-3 subunit) (srp1-gamma). [swissprot;acc:o00505]	KPNA3	Measured	6456.35	1.1105	7169.75
	phosphomannomutase 1 (ec 5.4.2.8) (pmm 1) (pmmh-22). [swissprot;acc:q92871]	PMM1	Squared	22208.7	1.16322	25833.6
802	pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [refseq;acc:nm_015629]	PRPF31		20131.3	1.16319	23416.5
	target of egr1, member 1 (nuclear); target of egr1, member 1. [refseq;acc:nm_025077]	TOE1	Measured	6455.66	1.11047	7168.82
	testis-specific protein tex28. [swissprot;acc:o15482]	TEX28P2	Ranked	212.386	1.04425	221.785
	tfiih basal transcription factor complex p44 subunit (basic transcription factor 2 44 kda subunit) (btf2-p44) (general transcription factor iih polypeptide 2). [swissprot;acc:q13888]	no value	Rooted	54.6759	1.06474	51.3516
803	bifunctional aminoacyl-trna synthetase [includes: glutamyl-trna synthetase (ec 6.1.1.17) (glutamate--trna ligase); prolyl-trna synthetase (ec 6.1.1.15) (proline--trna ligase)]. [swissprot;acc:p07814]	EPRS	Squared	22573.3	1.16308	26254.5
	importin alpha-4 subunit (karyopherin alpha-4 subunit) (qip1 protein). [swissprot;acc:o00629]	KPNA4	Measured	6455.02	1.11045	7167.96
	similar to nuclear protein e3-3 orf1. [sptrembl;acc:q9bu61]	C3orf60	Ranked	212.386	1.04425	221.785
	tfiih basal transcription factor complex p62 subunit (basic transcription factor 62 kda subunit) (btf2-p62) (general transcription factor iih polypeptide 1). [swissprot;acc:p32780]	GTF2H1	Rooted	54.6759	1.06474	51.3516
804	1-acyl-sn-glycerol-3-phosphate acyltransferase beta (ec 2.3.1.51) (1- agp acyltransferase 2) (1-agpat 2) (lysophosphatidic acid acyltransferase-beta) (lpaat-beta) (1-acylglycerol-3-phosphate o- acyltransferase 2). [swissprot;acc:o15120]	AGPAT2		74.3877	1.0646	79.1931
	a kindred of iglon. [refseq;acc:nm_173808]	NEGR1	Ranked	212.386	1.04425	221.785
	nadh-ubiquinone oxidoreductase b22 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b22) (ci-b22). [swissprot;acc:q9y6m9]	NDUFB9	Measured	6770.78	1.11036	7517.97
	transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [swissprot;acc:p51854]	TKTL1	Squared	24954.5	1.16302	29022.6
805	1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (ec 2.3.1.51) (1- agp acyltransferase 1) (1-agpat 1) (lysophosphatidic acid acyltransferase-alpha) (lpaat-alpha) (1-acylglycerol-3-phosphate o- acyltransferase 1) (g15 protein). [swissprot;acc:q99943]	no value	Rooted	74.3557	1.0645	79.1513
	60s ribosomal protein l39. [swissprot;acc:p02404]		Measured	4708.61	1.11003	5226.71
	ankyrin-repeat family a protein 2 (rfxank-like 2). [swissprot;acc:q9h9e1]	ANKRA2	Ranked	212.386	1.04425	221.785
	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]	POLE	Squared	15384.8	1.16284	17890
806	40s ribosomal protein s26. [swissprot;acc:p02383]	no value	Rooted	62.4161	1.06435	58.6426
	60s ribosomal protein l18a. [swissprot;acc:q02543]		Measured	4708.61	1.11003	5226.71
	inflammation-related g protein-coupled receptor ex33. [refseq;acc:nm_020370]	GPR84	Ranked	212.386	1.04425	221.785
	inositol-1(or 4)-monophosphatase (ec 3.1.3.25) (impase) (imp) (inositol monophosphatase) (lithium-sensitive myo-inositol monophosphatase a1). [swissprot;acc:p29218]	IMPA1	Squared	25555.4	1.16278	29715.4
807	40s ribosomal protein s19. [swissprot;acc:p39019]	RPS19	Measured	4708.61	1.11003	5226.71
	inositol-1(or 4)-monophosphatase 2 (ec 3.1.3.25) (impase 2) (imp 2) (inositol monophosphatase 2) (myo-inositol monophosphatase a2). [swissprot;acc:o14732]	IMPA2	Squared	25560.1	1.16277	29720.6
	mitochondrial import inner membrane translocase subunit tim22. [swissprot;acc:q9y584]	TIMM22	Rooted	62.416	1.06435	58.6426
	palmitoyl-protein thioesterase 1 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 1). [swissprot;acc:p50897]	PPT1	Ranked	212.386	1.04425	221.785
808	60s ribosomal protein l31. [swissprot;acc:p12947]	RPL31	Measured	4708.61	1.11003	5226.71

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.