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

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Showing element 832 to 881 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	description	Network Comparison Type	Hugo	Interaction Map	red	green	network_comparison
208	s-phase kinase-associated protein 1a (cyclin a/cdk2-associated protein p19) (p19a) (p19skp1) (rna polymerase ii elongation factor-like protein) (organ of corti protein 2) (ocp-ii protein) (ocp-2) (transcription elongation factor b) (siii). [swissprot;acc:p34991]	Divided	SKP1A	High confidence	285.684	252.234	1.13261
209	brca2 and cdkn1a-interacting protein isoform bccipalpha; brca2 and cdkn1a-interacting protein; cdk inhibitor p21 binding protein; bccipalpha; bccipbeta; tok-1alpha; tok-1beta. [refseq;acc:nm_016567]	Subtracted	BCCIP		240.782	265.717	24.935
	dimethylaniline monooxygenase [n-oxide forming] 3 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 3) (fmo 3) (dimethylaniline oxidase 3) (fmo form 2) (fmo ii). [swissprot;acc:p31513]	Divided	FMO3	Low confidence	209.778	199.757	1.05017
	f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315]		FBXW7	High confidence	285.684	252.234	1.13261
	jm1 protein. [refseq;acc:nm_014008]	Subtracted	CCDC22	Low confidence	216.308	206.292	10.016
210	cullin homolog 2 (cul-2). [swissprot;acc:q13617]	Divided	CUL2	High confidence	285.684	252.234	1.13261
	dimethylaniline monooxygenase [n-oxide forming] 1 (ec 1.14.13.8) (fetal hepatic flavin-containing monooxygenase 1) (fmo 1) (dimethylaniline oxidase 1). [swissprot;acc:q01740]	Subtracted	FMO1	Low confidence	209.768	199.756	10.012
	dimethylaniline monooxygenase [n-oxide forming] 2 (ec 1.14.13.8) (pulmonary flavin-containing monooxygenase 2) (fmo 2) (dimethylaniline oxidase 2) (fmo 1b1). [swissprot;acc:q99518]	Divided	FMO2		209.782	199.761	1.05016
	rna-binding protein. [refseq;acc:nm_019027]	Subtracted	no value	High confidence	237.302	212.41	24.892
211	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]
	dimethylaniline monooxygenase [n-oxide forming] 1 (ec 1.14.13.8) (fetal hepatic flavin-containing monooxygenase 1) (fmo 1) (dimethylaniline oxidase 1). [swissprot;acc:q01740]	Divided	FMO1	Low confidence	209.768	199.756	1.05012
	dimethylaniline monooxygenase [n-oxide forming] 4 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 4) (fmo 4) (dimethylaniline oxidase 4). [swissprot;acc:p31512]	Subtracted	FMO4		209.765	199.755	10.01
	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	Divided	PSEN1	High confidence	285.684	252.234	1.13261
212	cullin homolog 1 (cul-1). [swissprot;acc:q13616]		CUL1
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152]		GNG11	Low confidence	211.383	221.976	1.05011
	ns1-associated protein 1. [refseq;acc:nm_006372]	Subtracted	SYNCRIP	High confidence	237.302	212.41	24.892
	oligopeptide transporter, kidney isoform (peptide transporter 2) (kidney h+/peptide cotransporter) (solute carrier family 15, member 2). [swissprot;acc:q16348]		SLC15A2	Low confidence	201.43	191.43	10
213	a kindred of iglon. [refseq;acc:nm_173808]		NEGR1		199.671	209.654	9.983
	dimethylaniline monooxygenase [n-oxide forming] 4 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 4) (fmo 4) (dimethylaniline oxidase 4). [swissprot;acc:p31512]	Divided	FMO4		209.765	199.755	1.05011
	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	Subtracted	HNRNPR	High confidence	237.302	212.41	24.892
	pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388]	Divided	PLDN		210.693	186.95	1.127
214	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]		LASS2		191.644	170.192	1.12605
	mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956]	Subtracted	MRPL4		241.282	266.12	24.838
	neuromedin-b receptor (nmb-r) (neuromedin-b-preferring bombesin receptor). [swissprot;acc:p28336]		NMBR	Low confidence	199.671	209.654	9.983
	udp-n-acetylglucosamine--peptide n-acetylglucosaminyltransferase 110 kda subunit (ec 2.4.1.-) (o-glcnac transferase p110 subunit). [swissprot;acc:o15294]	Divided	OGT		206.583	196.743	1.05001
215	a kindred of iglon. [refseq;acc:nm_173808]		NEGR1		199.671	209.654	1.05
	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]	Subtracted	EIF4G1	High confidence	237.292	212.457	24.835
	gastrin-releasing peptide receptor (grp-r) (grp-preferring bombesin receptor). [swissprot;acc:p30550]		GRPR	Low confidence	199.671	209.654	9.983
	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	Divided	no value	High confidence	112	126	1.125
216	bombesin receptor subtype-3 (brs-3). [swissprot;acc:p32247]	Subtracted	BRS3	Low confidence	199.671	209.654	9.983
	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]	Divided	MYH4	High confidence	112	126	1.125
	neuromedin-b receptor (nmb-r) (neuromedin-b-preferring bombesin receptor). [swissprot;acc:p28336]		NMBR	Low confidence	199.671	209.654	1.05
	small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330]	Subtracted	SNRPD2	High confidence	226.471	201.769	24.702
217	60s ribosomal protein l26. [swissprot;acc:q02877]		RPL26		242.326	267.008	24.682
	gastrin-releasing peptide receptor (grp-r) (grp-preferring bombesin receptor). [swissprot;acc:p30550]	Divided	GRPR	Low confidence	199.671	209.654	1.05
	myosin heavy chain, skeletal muscle, perinatal (myhc-perinatal). [swissprot;acc:p13535]		MYH8	High confidence	112	126	1.125
	udp-n-acetylglucosamine--peptide n-acetylglucosaminyltransferase 110 kda subunit (ec 2.4.1.-) (o-glcnac transferase p110 subunit). [swissprot;acc:o15294]	Subtracted	OGT	Low confidence	206.583	196.743	9.84
218	60s ribosomal protein l35. [swissprot;acc:p42766]		RPL35	High confidence	242.333	266.999	24.666
	bombesin receptor subtype-3 (brs-3). [swissprot;acc:p32247]	Divided	BRS3	Low confidence	199.671	209.654	1.05
	lymphoid enhancer binding factor 1 (lef-1) (t cell-specific transcription factor 1-alpha) (tcf1-alpha). [swissprot;acc:q9uju2]	Subtracted	LEF1		208.289	198.538	9.751
	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]	Divided	MYH2	High confidence	112	126	1.125
219	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	Subtracted	no value		242.339	266.986	24.647
	ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]		NFYA	Low confidence	214.032	204.284	9.748
	myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]	Divided	MYH3	High confidence	112	126	1.125
	transcription regulator protein bach1 (btb and cnc homolog 1) (ha2303). [swissprot;acc:o14867]		BACH1	Low confidence	172.647	164.44	1.04991
220	mitochondrial ribosomal protein l2. [refseq;acc:nm_015950]	Subtracted	MRPL2	High confidence	242.339	266.986	24.647
	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]	Divided	MYH1		112	126	1.125
	nuclear factor erythroid 2 related factor 2 (nf-e2 related factor 2) (nfe2-related factor 2) (nuclear factor, erythroid derived 2, like 2) (hebp1). [swissprot;acc:q16236]		NFE2L2	Low confidence	172.647	164.44	1.04991
	toll-like receptor 2 precursor (toll/interleukin 1 receptor-like protein 4). [swissprot;acc:o60603]	Subtracted	TLR2		207.926	198.276	9.65
221	myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]	Divided	no value	High confidence	112	126	1.125

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.