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

Results: HTML CSV LaTeX

Showing element 980 to 1029 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	Interaction Map	red	network_comparison	green
245	trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [refseq;acc:nm_014317]	PDSS1	Subtracted	Low confidence	211.794	9.312	202.482
246	60s ribosomal protein l12 like protein. [sptrembl;acc:o60886]	no value		High confidence	243.583	23.945	267.528
	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]	EIF4G3	Divided		237.312	1.11748	212.363
	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]	HOXA5		Low confidence	162.755	1.04682	155.476
	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	OSR1	Subtracted		217.69	9.269	208.421
247	60s ribosomal protein l12. [swissprot;acc:p30050]	no value		High confidence	243.583	23.944	267.527
	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]		Divided	Low confidence	162.755	1.04682	155.476
	phosphorylase b kinase gamma catalytic chain, skeletal muscle isoform (ec 2.7.1.38) (phosphorylase kinase gamma subunit 1). [swissprot;acc:q16816]	PHKG1	Subtracted		217.957	9.252	227.209
	rna-binding protein. [refseq;acc:nm_019027]	no value	Divided	High confidence	237.302	1.11719	212.41
248	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]
	dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02]		Subtracted		243.583	23.944	267.527
	lbp-9. [refseq;acc:nm_014553]	TFCP2L1		Low confidence	219.758	9.249	210.509
	retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	HSD17B14	Divided		162.755	1.04682	155.476
249	dual oxidase 1 precursor; nadph thyroid oxidase 1; flavoprotein nadph oxidase; nicotinamide adenine dinucleotide phosphate oxidase. [refseq;acc:nm_017434]	DUOX1			210.487	1.0468	201.076
	ns1-associated protein 1. [refseq;acc:nm_006372]	SYNCRIP		High confidence	237.302	1.11719	212.41
	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	SNRPD3	Subtracted		226.109	23.776	202.333
	transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653]	TFCP2		Low confidence	219.749	9.246	210.503
250	alpha-amylase, salivary precursor (ec 3.2.1.1) (1,4-alpha-d-glucan glucanohydrolase). [swissprot;acc:p04745]	AMY1C			219.742	9.244	210.498
	diacylglycerol o-acyltransferase 1 (ec 2.3.1.20) (diglyceride acyltransferase) (acat related gene product 1). [swissprot;acc:o75907]	DGAT1	Divided		210.443	1.04671	201.051
	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	HNRNPR		High confidence	237.302	1.11719	212.41
	pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388]	PLDN	Subtracted		210.693	23.743	186.95
251	40s ribosomal protein s20. [swissprot;acc:p17075]	RPS20			243.5	23.71	267.21
	nadph oxidase, ef hand calcium-binding domain 5. [refseq;acc:nm_024505]	NOX5	Divided	Low confidence	210.415	1.04666	201.035
	oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [swissprot;acc:p46059]	SLC15A1		High confidence	186.172	1.11707	166.661
	upstream binding protein 1 (lbp-1a). [refseq;acc:nm_014517]	UBP1	Subtracted	Low confidence	219.722	9.238	210.484
252	cytochrome b-245 heavy chain (p22 phagocyte b-cytochrome) (neutrophil cytochrome b, 91 kda polypeptide) (cgd91-phox) (gp91-phox) (heme binding membrane glycoprotein gp91phox) (cytochrome b(558) beta chain) (superoxide-generating nadph oxidase heavy chain subunit). [swissprot;acc:p04839]	CYBB	Divided		210.414	1.04665	201.035
	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]	EIF4G1		High confidence	237.292	1.11689	212.457
	mad protein (max dimerizer). [swissprot;acc:q05195]	MXD1	Subtracted		228	23.667	204.333
	u2 small nuclear ribonucleoprotein b". [swissprot;acc:p08579]	SNRPB2		Low confidence	202.654	9.124	193.53
253	mad protein (max dimerizer). [swissprot;acc:q05195]	MXD1	Divided	High confidence	228	1.11583	204.333
	nadph oxidase 4. [refseq;acc:nm_016931]	NOX4		Low confidence	210.413	1.04665	201.035
	nuclear transcription factor y subunit beta (nf-y protein chain b) (nf-yb) (ccaat-binding transcription factor subunit a) (cbf-a) (caat- box dna binding protein subunit b). [swissprot;acc:p25208]	NFYB	Subtracted	High confidence	251.679	23.642	228.037
	parafibromin. [refseq;acc:nm_024529]	CDC73		Low confidence	214.015	9.099	204.916
254	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]	MXI1		High confidence	227.999	23.642	204.357
	nadph oxidase 3; nadph oxidase catalytic subunit-like 3. [refseq;acc:nm_015718]	NOX3	Divided	Low confidence	210.414	1.04665	201.035
	probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [swissprot;acc:o75185]	ATP2C2	Subtracted		218.785	9.022	209.763
	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]	STT3B	Divided	High confidence	200.691	1.11569	179.88
255	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	MXD4	Subtracted		227.999	23.633	204.366
	nadph oxidase homolog 1 (nox-1) (noh-1) (nadh/nadph mitogenic oxidase subunit p65-mox) (mitogenic oxidase 1) (mox1). [swissprot;acc:q9y5s8]	NOX1	Divided	Low confidence	210.413	1.04665	201.035
	nucleotide binding protein 2 (nbp 2). [swissprot;acc:q9y5y2]	NUBP2	Subtracted		200.699	9.021	191.678
	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]	STT3A	Divided	High confidence	200.691	1.11569	179.88
256	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	RAB24	Subtracted		227.999	23.629	204.37
	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]	MXI1	Divided			1.11569	204.357
	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]	STT3A		Low confidence	199.376	1.04648	190.521
	sterol o-acyltransferase 2 (ec 2.3.1.26) (cholesterol acyltransferase 2) (acyl coenzyme a:cholesterol acyltransferase 2) (acat-2). [swissprot;acc:o75908]	SOAT2	Subtracted		208.469	9.014	199.455
257	dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kda subunit precursor (ec 2.4.1.119) (oligosaccharyl transferase 48 kda subunit) (ddost 48 kda subunit). [swissprot;acc:p39656]	DDOST	Divided	High confidence	200.691	1.11569	179.88
	jagged 2 precursor (jagged2) (hj2). [swissprot;acc:q9y219]	JAG2	Subtracted	Low confidence	218.715	9.005	209.71
	tropomyosin alpha 3 chain (tropomyosin 3) (tropomyosin gamma). [swissprot;acc:p06753]	TPM3	Divided		201.316	1.04632	192.404
	ump-cmp kinase (ec 2.7.4.14) (cytidylate kinase) (deoxycytidylate kinase) (cytidine monophosphate kinase). [swissprot;acc:p30085]	CMPK	Subtracted	High confidence	242.14	23.557	265.697
258	gtp:amp phosphotransferase mitochondrial (ec 2.7.4.10) (ak3) (adenylate kinase 3 alpha like 1). [swissprot;acc:q9uij7]	AK3

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.