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	network_comparison	green

Results: HTML CSV LaTeX

Showing element 508 to 557 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	network_comparison	green
254	STT3B	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]	Divided	200.691	1.11569	179.88
255	MXD4	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	Subtracted	227.999	23.633	204.366
	STT3A	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]	Divided	200.691	1.11569	179.88
256	MXI1	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]		227.999		204.357
	RAB24	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	Subtracted		23.629	204.37
257	CMPK	ump-cmp kinase (ec 2.7.4.14) (cytidylate kinase) (deoxycytidylate kinase) (cytidine monophosphate kinase). [swissprot;acc:p30085]		242.14	23.557	265.697
	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]	Divided	200.691	1.11569	179.88
258	AK3	gtp:amp phosphotransferase mitochondrial (ec 2.7.4.10) (ak3) (adenylate kinase 3 alpha like 1). [swissprot;acc:q9uij7]	Subtracted	242.14	23.557	265.697
	MXD4	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	Divided	227.999	1.11564	204.366
259	no value	adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144]	Subtracted	242.14	23.556	265.696
	RAB24	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	Divided	227.999	1.11562	204.37
260	HS3ST6	c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]		219.421	1.11394	196.978
	MED22	surfeit locus protein 5. [swissprot;acc:q15528]	Subtracted	242.14	23.556	265.696
261	HS3ST3A1	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042]	Divided	219.421	1.11394	196.978
	SCAPER	zinc finger protein 291. [swissprot;acc:q9by12]	Subtracted	242.14	23.556	265.696
262	HS3ST3B1	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041]	Divided	219.421	1.11394	196.978
	PEX1	peroxisome biogenesis factor 1 (peroxin-1) (peroxisome biogenesis disorder protein 1). [swissprot;acc:o43933]	Subtracted	242.14	23.556	265.696
263	HS3ST2	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043]	Divided	219.421	1.11394	196.978
	TXNDC9	protein 1-4 (atp binding protein associated with cell differentiation). [swissprot;acc:o14530]	Subtracted	242.14	23.556	265.696
264	no value	60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025]		243.24		266.796
	DCPS	mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026]	Divided	219.421	1.11394	196.978
265	no value	60s ribosomal protein l9. [swissprot;acc:p32969]	Subtracted	240.243	23.555	263.798
	SF3B1	splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533]	Divided	225.217	1.11241	202.459
266	RPL10L	ribosomal protein l10-like protein. [refseq;acc:nm_080746]	Subtracted	243.12	23.542	266.662
	SIN3A	transcriptional co-repressor sin3a; transcriptional regulator, sin3a (yeast). [refseq;acc:nm_015477]	Divided	241.07	1.11121	267.88
267	no value	60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635]	Subtracted	243.12	23.541	266.661
	DENR	density-regulated protein (drp) (drp1 protein) (smooth muscle cell associated protein-3) (smap-3). [swissprot;acc:o43583]	Divided	241.07	1.11121	267.88
268	EIF5	eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010]		271.016	1.10996	244.167
	PRMT3	protein arginine n-methyltransferase 3 (ec 2.1.1.-) (fragment). [swissprot;acc:o60678]	Subtracted	241.625	23.511	265.136
269	no value	40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880]
	PCYT1A	cholinephosphate cytidylyltransferase a (ec 2.7.7.15) (phosphorylcholine transferase a) (ctp:phosphocholine cytidylyltransferase a) (ct a) (cct a) (cct-alpha). [swissprot;acc:p49585]	Divided	241.373	1.10763	267.352
270	FLAD1	fad synthetase. [refseq;acc:nm_025207]
	RPS3	40s ribosomal protein s3. [swissprot;acc:p23396]	Subtracted	241.612	23.507	265.119
271	no value	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]	Divided	241.373	1.10763	267.352
	SEC61G	protein transport protein sec61 gamma subunit. [swissprot;acc:p38384]	Subtracted	243.072	23.487	266.559
272	LGTN	ligatin (hepatocellular carcinoma-associated antigen 56). [swissprot;acc:p41214]	Divided	241.373	1.10763	267.352
	MRPL17	mitochondrial ribosomal protein l17; lyst-interacting protein lip2. [refseq;acc:nm_022061]	Subtracted	242.83	23.418	266.248
273	PAPSS1	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]	Divided	241.373	1.10763	267.352
	POLR2B	dna-directed rna polymerase ii 140 kda polypeptide (ec 2.7.7.6) (rna polymerase ii subunit 2) (rpb2). [swissprot;acc:p30876]	Subtracted	243.208	23.409	266.617
274	MRPL36	60s ribosomal protein l36, mitochondrial precursor (l36mt) (brca1- interacting protein 1). [swissprot;acc:q9p0j6]		242.744	23.326	266.07
	POR	nadph-cytochrome p450 reductase (ec 1.6.2.4) (cpr) (p450r). [swissprot;acc:p16435]	Divided	241.373	1.10763	267.352
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	40s ribosomal protein s5. [swissprot;acc:p46782]	Subtracted	242.473	23.283	265.756
276	DDX24	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]		258.437	23.254	235.183
	SNORA7A	60s ribosomal protein l32. [swissprot;acc:p02433]	Divided	241.13	1.10716	266.969
277	no value	40s ribosomal protein s29. [swissprot;acc:p30054]		241.849	1.10665	267.642
	RPL4	60s ribosomal protein l4 (l1). [swissprot;acc:p36578]	Subtracted	239.277	23.157	262.434
278	MYEF2	myelin gene expression factor 2. [refseq;acc:nm_016132]		235.383	23.093	258.476
	RPS11	40s ribosomal protein s11. [swissprot;acc:p04643]	Divided	241.399	1.10642	267.088
279	PUS1	trna pseudouridine synthase a (ec 4.2.1.70) (pseudouridylate synthase i) (pseudouridine synthase i) (uracil hydrolyase). [swissprot;acc:q9y606]	Subtracted	242.66	23.055	265.715

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.