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

Results: HTML CSV LaTeX

Showing element 482 to 531 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	Network Comparison Type	Hugo	description	red	green	network_comparison
241	Subtracted	CDH1	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830]	241.892	265.96	24.068
242	Divided	DNAJC12	j domain containing protein 1. [swissprot;acc:q9ukb3]	227.357	254.15	1.11785
	Subtracted	no value	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	241.892	265.959	24.067
243	Divided	SNX13	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8]	227.357	254.15	1.11785
	Subtracted	no value	60s ribosomal protein l23a. [swissprot;acc:p29316]	241.884	265.945	24.061
244	Divided	GSTO2	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]	227.357	254.15	1.11785
	Subtracted	RPL5	60s ribosomal protein l5. [swissprot;acc:p46777]	241.899	265.924	24.025
245	Divided	SNRPD3	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	226.109	202.333	1.11751
	Subtracted	RPL19	60s ribosomal protein l19. [swissprot;acc:p14118]	240.73	264.729	23.999
246	Divided	EIF4G3	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]	237.312	212.363	1.11748
	Subtracted	no value	60s ribosomal protein l12 like protein. [sptrembl;acc:o60886]	243.583	267.528	23.945
247	Divided		rna-binding protein. [refseq;acc:nm_019027]	237.302	212.41	1.11719
	Subtracted		60s ribosomal protein l12. [swissprot;acc:p30050]	243.583	267.527	23.944
248	Divided		apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]	237.302	212.41	1.11719
	Subtracted		dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02]	243.583	267.527	23.944
249	Divided	SYNCRIP	ns1-associated protein 1. [refseq;acc:nm_006372]	237.302	212.41	1.11719
	Subtracted	SNRPD3	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	226.109	202.333	23.776
250	Divided	HNRNPR	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	237.302	212.41	1.11719
	Subtracted	PLDN	pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388]	210.693	186.95	23.743
251	Divided	SLC15A1	oligopeptide transporter, small intestine isoform (peptide transporter 1) (intestinal h+/peptide cotransporter) (solute carrier family 15, member 1). [swissprot;acc:p46059]	186.172	166.661	1.11707
	Subtracted	RPS20	40s ribosomal protein s20. [swissprot;acc:p17075]	243.5	267.21	23.71
252	Divided	EIF4G1	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]	237.292	212.457	1.11689
	Subtracted	MXD1	mad protein (max dimerizer). [swissprot;acc:q05195]	228	204.333	23.667
253	Divided					1.11583
	Subtracted	NFYB	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]	251.679	228.037	23.642
254	Divided	STT3B	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]	200.691	179.88	1.11569
	Subtracted	MXI1	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]	227.999	204.357	23.642
255	Divided	STT3A	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]	200.691	179.88	1.11569
	Subtracted	MXD4	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	227.999	204.366	23.633
256	Divided	MXI1	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]		204.357	1.11569
	Subtracted	RAB24	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]		204.37	23.629
257	Divided	DDOST	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]	200.691	179.88	1.11569
	Subtracted	CMPK	ump-cmp kinase (ec 2.7.4.14) (cytidylate kinase) (deoxycytidylate kinase) (cytidine monophosphate kinase). [swissprot;acc:p30085]	242.14	265.697	23.557
258	Divided	MXD4	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	227.999	204.366	1.11564
	Subtracted	AK3	gtp:amp phosphotransferase mitochondrial (ec 2.7.4.10) (ak3) (adenylate kinase 3 alpha like 1). [swissprot;acc:q9uij7]	242.14	265.697	23.557
259	Divided	RAB24	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	227.999	204.37	1.11562
	Subtracted	no value	adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144]	242.14	265.696	23.556
260	Divided	HS3ST6	c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]	219.421	196.978	1.11394
	Subtracted	MED22	surfeit locus protein 5. [swissprot;acc:q15528]	242.14	265.696	23.556
261	Divided	HS3ST3A1	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042]	219.421	196.978	1.11394
	Subtracted	SCAPER	zinc finger protein 291. [swissprot;acc:q9by12]	242.14	265.696	23.556
262	Divided	HS3ST3B1	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041]	219.421	196.978	1.11394
	Subtracted	PEX1	peroxisome biogenesis factor 1 (peroxin-1) (peroxisome biogenesis disorder protein 1). [swissprot;acc:o43933]	242.14	265.696	23.556
263	Divided	HS3ST2	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043]	219.421	196.978	1.11394
	Subtracted	TXNDC9	protein 1-4 (atp binding protein associated with cell differentiation). [swissprot;acc:o14530]	242.14	265.696	23.556
264	Divided	DCPS	mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026]	219.421	196.978	1.11394
	Subtracted	no value	60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025]	243.24	266.796	23.556
265	Divided	SF3B1	splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533]	225.217	202.459	1.11241
	Subtracted	no value	60s ribosomal protein l9. [swissprot;acc:p32969]	240.243	263.798	23.555
266	Divided	SIN3A	transcriptional co-repressor sin3a; transcriptional regulator, sin3a (yeast). [refseq;acc:nm_015477]	241.07	267.88	1.11121

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.