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	green	network_comparison

Results: HTML CSV LaTeX

Showing element 462 to 511 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	Hugo	description	Interaction Map	red	green	network_comparison
231	TIMM23	mitochondrial import inner membrane translocase subunit tim23. [swissprot;acc:o14925]	Low confidence	220.722	210.645	1.04784
232	CSRP2	smooth muscle cell lim protein (cysteine-rich protein 2) (crp2) (lim-only protein 5). [swissprot;acc:q16527]	High confidence	239.336	267.879	1.11926
	NFYA	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]	Low confidence	214.032	204.284	1.04772
233	CSRP3	lim domain protein, cardiac (muscle lim protein) (cysteine-rich protein 3) (crp3). [swissprot;acc:p50461]	High confidence	239.32	267.842	1.11918
	NFYC	nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952]	Low confidence	209.649	200.129	1.04757
234	CHRAC1	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	High confidence	287.41	256.835	1.11905
	CYP51A1	cytochrome p450 51a1 (ec 1.14.13.70) (cypli) (p450li) (sterol 14-alpha demethylase) (lanosterol 14-alpha demethylase) (ldm) (p450-14dm). [swissprot;acc:q16850]	Low confidence	208.851	199.38	1.0475
235	PAH	phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439]	High confidence	227.357	254.15	1.11785
	SNRPB2	u2 small nuclear ribonucleoprotein b". [swissprot;acc:p08579]	Low confidence	202.654	193.53	1.04715
236	CASK	peripheral plasma membrane protein cask (ec 2.7.1.-) (hcask) (calcium/calmodulin-dependent serine protein kinase) (lin-2 homolog). [swissprot;acc:o14936]		212.056	202.524	1.04707
	DUS1L	pp3111 protein. [refseq;acc:nm_022156]	High confidence	227.357	254.15	1.11785
237	SIM1	single-minded homolog 1. [swissprot;acc:p81133]	Low confidence	212.056	202.524	1.04707
	STX18	syntaxin 18. [swissprot;acc:q9p2w9]	High confidence	227.357	254.15	1.11785
238	no value	rd protein. [swissprot;acc:p18615]
	NUBP2	nucleotide binding protein 2 (nbp 2). [swissprot;acc:q9y5y2]	Low confidence	200.699	191.678	1.04706
239	DUOX2	dual oxidase 2 precursor; dual oxidase-like domains 2; nicotinamide adenine dinucleotide phosphate oxidase; flavoprotein nadph oxidase; nadph thyroid oxidase 2; nadh/nadph thyroid oxidase p138-tox; nadph oxidase/peroxidase duox2. [refseq;acc:nm_014080]		210.504	201.086	1.04684
	GSTO1	glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417]	High confidence	227.357	254.15	1.11785
240	no value	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Low confidence	162.755	155.476	1.04682
	AIG1	androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108]	High confidence	227.357	254.15	1.11785
241	ATP5F1	atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539]
	HOXB4	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	Low confidence	162.755	155.476	1.04682
242	DNAJC12	j domain containing protein 1. [swissprot;acc:q9ukb3]	High confidence	227.357	254.15	1.11785
	HOXC5	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]	Low confidence	162.755	155.476	1.04682
243	no value	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
	SNX13	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8]	High confidence	227.357	254.15	1.11785
244	GSTO2	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]
	HOXD4	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	Low confidence	162.755	155.476	1.04682
245	HOXB5	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067]
	SNRPD3	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	High confidence	226.109	202.333	1.11751
246	EIF4G3	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]		237.312	212.363	1.11748
	HOXA5	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]	Low confidence	162.755	155.476	1.04682
247	no value	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]
		rna-binding protein. [refseq;acc:nm_019027]	High confidence	237.302	212.41	1.11719
248		apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]
	HSD17B14	retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	Low confidence	162.755	155.476	1.04682
249	DUOX1	dual oxidase 1 precursor; nadph thyroid oxidase 1; flavoprotein nadph oxidase; nicotinamide adenine dinucleotide phosphate oxidase. [refseq;acc:nm_017434]		210.487	201.076	1.0468
	SYNCRIP	ns1-associated protein 1. [refseq;acc:nm_006372]	High confidence	237.302	212.41	1.11719
250	DGAT1	diacylglycerol o-acyltransferase 1 (ec 2.3.1.20) (diglyceride acyltransferase) (acat related gene product 1). [swissprot;acc:o75907]	Low confidence	210.443	201.051	1.04671
	HNRNPR	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	High confidence	237.302	212.41	1.11719
251	NOX5	nadph oxidase, ef hand calcium-binding domain 5. [refseq;acc:nm_024505]	Low confidence	210.415	201.035	1.04666
	SLC15A1	oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [swissprot;acc:p46059]	High confidence	186.172	166.661	1.11707
252	CYBB	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]	Low confidence	210.414	201.035	1.04665
	EIF4G1	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]	High confidence	237.292	212.457	1.11689
253	MXD1	mad protein (max dimerizer). [swissprot;acc:q05195]		228	204.333	1.11583
	NOX4	nadph oxidase 4. [refseq;acc:nm_016931]	Low confidence	210.413	201.035	1.04665
254	NOX3	nadph oxidase 3; nadph oxidase catalytic subunit-like 3. [refseq;acc:nm_015718]		210.414
	STT3B	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]	High confidence	200.691	179.88	1.11569
255	NOX1	nadph oxidase homolog 1 (nox-1) (noh-1) (nadh/nadph mitogenic oxidase subunit p65-mox) (mitogenic oxidase 1) (mox1). [swissprot;acc:q9y5s8]	Low confidence	210.413	201.035	1.04665
	STT3A	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]	High confidence	200.691	179.88	1.11569
256	MXI1	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]		227.999	204.357

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.