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

Results: HTML CSV LaTeX

Showing element 501 to 550 of 6456 in total

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

Rank	Hugo	Network Comparison Type	description	red	green	network_comparison
251	RPS20	Subtracted	40s ribosomal protein s20. [swissprot;acc:p17075]	243.5	267.21	23.71
	SLC15A1	Divided	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
252	EIF4G1		eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]	237.292	212.457	1.11689
	MXD1	Subtracted	mad protein (max dimerizer). [swissprot;acc:q05195]	228	204.333	23.667
253		Divided				1.11583
	NFYB	Subtracted	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	MXI1		max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]	227.999	204.357
	STT3B	Divided	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]	200.691	179.88	1.11569
255	MXD4	Subtracted	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	227.999	204.366	23.633
	STT3A	Divided	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]	200.691	179.88	1.11569
256	MXI1		max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]	227.999	204.357
	RAB24	Subtracted	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]		204.37	23.629
257	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
	DDOST	Divided	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
258	AK3	Subtracted	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
	MXD4	Divided	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	227.999	204.366	1.11564
259	no value	Subtracted	adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144]	242.14	265.696	23.556
	RAB24	Divided	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	227.999	204.37	1.11562
260	HS3ST6		c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]	219.421	196.978	1.11394
	MED22	Subtracted	surfeit locus protein 5. [swissprot;acc:q15528]	242.14	265.696	23.556
261	HS3ST3A1	Divided	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042]	219.421	196.978	1.11394
	SCAPER	Subtracted	zinc finger protein 291. [swissprot;acc:q9by12]	242.14	265.696	23.556
262	HS3ST3B1	Divided	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041]	219.421	196.978	1.11394
	PEX1	Subtracted	peroxisome biogenesis factor 1 (peroxin-1) (peroxisome biogenesis disorder protein 1). [swissprot;acc:o43933]	242.14	265.696	23.556
263	HS3ST2	Divided	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043]	219.421	196.978	1.11394
	TXNDC9	Subtracted	protein 1-4 (atp binding protein associated with cell differentiation). [swissprot;acc:o14530]	242.14	265.696	23.556
264	no value		60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025]	243.24	266.796
	DCPS	Divided	mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026]	219.421	196.978	1.11394
265	no value	Subtracted	60s ribosomal protein l9. [swissprot;acc:p32969]	240.243	263.798	23.555
	SF3B1	Divided	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
266	RPL10L	Subtracted	ribosomal protein l10-like protein. [refseq;acc:nm_080746]	243.12	266.662	23.542
	SIN3A	Divided	transcriptional co-repressor sin3a; transcriptional regulator, sin3a (yeast). [refseq;acc:nm_015477]	241.07	267.88	1.11121
267	no value	Subtracted	60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635]	243.12	266.661	23.541
	DENR	Divided	density-regulated protein (drp) (drp1 protein) (smooth muscle cell associated protein-3) (smap-3). [swissprot;acc:o43583]	241.07	267.88	1.11121
268	EIF5		eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010]	271.016	244.167	1.10996
	PRMT3	Subtracted	protein arginine n-methyltransferase 3 (ec 2.1.1.-) (fragment). [swissprot;acc:o60678]	241.625	265.136	23.511
269	no value		40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880]
	PCYT1A	Divided	cholinephosphate cytidylyltransferase a (ec 2.7.7.15) (phosphorylcholine transferase a) (ctp:phosphocholine cytidylyltransferase a) (ct a) (cct a) (cct-alpha). [swissprot;acc:p49585]	241.373	267.352	1.10763
270	FLAD1		fad synthetase. [refseq;acc:nm_025207]
	RPS3	Subtracted	40s ribosomal protein s3. [swissprot;acc:p23396]	241.612	265.119	23.507
271	no value	Divided	bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 2 (paps synthethase 2) (papss 2) (sulfurylase kinase 2) (sk2) (sk 2) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o95340]	241.373	267.352	1.10763
	SEC61G	Subtracted	protein transport protein sec61 gamma subunit. [swissprot;acc:p38384]	243.072	266.559	23.487
272	LGTN	Divided	ligatin (hepatocellular carcinoma-associated antigen 56). [swissprot;acc:p41214]	241.373	267.352	1.10763
	MRPL17	Subtracted	mitochondrial ribosomal protein l17; lyst-interacting protein lip2. [refseq;acc:nm_022061]	242.83	266.248	23.418
273	PAPSS1	Divided	bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 1 (paps synthethase 1) (papss 1) (sulfurylase kinase 1) (sk1) (sk 1) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o43252]	241.373	267.352	1.10763
	POLR2B	Subtracted	dna-directed rna polymerase ii 140 kda polypeptide (ec 2.7.7.6) (rna polymerase ii subunit 2) (rpb2). [swissprot;acc:p30876]	243.208	266.617	23.409
274	MRPL36		60s ribosomal protein l36, mitochondrial precursor (l36mt) (brca1- interacting protein 1). [swissprot;acc:q9p0j6]	242.744	266.07	23.326
	POR	Divided	nadph-cytochrome p450 reductase (ec 1.6.2.4) (cpr) (p450r). [swissprot;acc:p16435]	241.373	267.352	1.10763
275	PCYT1B		cholinephosphate cytidylyltransferase b (ec 2.7.7.15) (phosphorylcholine transferase b) (ctp:phosphocholine cytidylyltransferase b) (ct b) (cct b) (cct-beta). [swissprot;acc:q9y5k3]
	RPS5	Subtracted	40s ribosomal protein s5. [swissprot;acc:p46782]	242.473	265.756	23.283

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.