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	description	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 2808 to 2857 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
1404	SF3B4	splicing factor 3b subunit 4 (spliceosome associated protein 49) (sap 49) (sf3b50) (pre-mrna splicing factor sf3b 49 kda subunit). [swissprot;acc:q15427]	Divided	232.752	237.65	1.02104
1405	EIF3C	eukaryotic translation initiation factor 3 subunit 8 (eif3 p110) (eif3c). [swissprot;acc:q99613]		245.532	240.483	1.021
	EVI5L	similar to ecotropic viral integration site 5; neuroblastoma stage 4s gene. [refseq;acc:nm_145245]	Subtracted	218.829	214.493	4.336
1406	EVI5	ecotropic viral integration site 5; neuroblastoma stage 4s gene. [refseq;acc:nm_005665]
	NR6A1	orphan nuclear receptor nr6a1 (germ cell nuclear factor) (gcnf) (retinoid receptor-related testis specific receptor) (rtr). [swissprot;acc:q15406]	Divided	212.833	208.456	1.021
1407	WDFY1	wd repeat and fyve domain containing 1 isoform 1; phosphoinositide-binding protein sr1; wd40 and fyve domain containing 1. [refseq;acc:nm_020830]		206.104	210.424	1.02096
			Subtracted			4.32
1408	STIM1	stromal interaction molecule 1 precursor. [swissprot;acc:q13586]	Divided	206.102	210.42	1.02095
			Subtracted			4.318
1409	MED30	trap/mediator complex component trap25. [refseq;acc:nm_080651]	Divided			1.02095
			Subtracted			4.318
1410	PAK4	serine/threonine-protein kinase pak 4 (ec 2.7.1.-) (p21-activated kinase 4) (pak-4). [swissprot;acc:o96013]
	WDFY2	wd repeat- and fyve domain-containing protein 2; wd40 and fyve domain containing 2. [refseq;acc:nm_052950]	Divided	206.1	210.417	1.02095
1411	PAK4	serine/threonine-protein kinase pak 4 (ec 2.7.1.-) (p21-activated kinase 4) (pak-4). [swissprot;acc:o96013]		206.102	210.42
	REEP5	polyposis locus protein 1 (tb2 protein). [swissprot;acc:q00765]	Subtracted			4.318
1412	ACADM	acyl-coa dehydrogenase, medium-chain specific, mitochondrial precursor (ec 1.3.99.3) (mcad). [swissprot;acc:p11310]
	REEP5	polyposis locus protein 1 (tb2 protein). [swissprot;acc:q00765]	Divided			1.02095
1413	ACADM	acyl-coa dehydrogenase, medium-chain specific, mitochondrial precursor (ec 1.3.99.3) (mcad). [swissprot;acc:p11310]
	REEP6	polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [refseq;acc:nm_138393]	Subtracted			4.318
1414			Divided			1.02095
	STIM2	stromal interaction molecule 2 precursor. [swissprot;acc:q9p246]	Subtracted			4.318
1415	PAK7	serine/threonine-protein kinase pak 7 (ec 2.7.1.-) (p21-activated kinase 7) (pak-7) (pak-5). [swissprot;acc:q9p286]
	STIM2	stromal interaction molecule 2 precursor. [swissprot;acc:q9p246]	Divided			1.02095
1416	PAK7	serine/threonine-protein kinase pak 7 (ec 2.7.1.-) (p21-activated kinase 7) (pak-7) (pak-5). [swissprot;acc:q9p286]
	WDFY2	wd repeat- and fyve domain-containing protein 2; wd40 and fyve domain containing 2. [refseq;acc:nm_052950]	Subtracted	206.1	210.417	4.317
1417	ASAH1	acid ceramidase precursor (ec 3.5.1.23) (acylsphingosine deacylase) (n-acylsphingosine amidohydrolase) (ac) (putative 32 kda heart protein) (php32). [swissprot;acc:q13510]		207.076	211.391	4.315
	CPA5	carboxypeptidase a5. [refseq;acc:nm_080385]	Divided	203.979	208.229	1.02084
1418	CPB1	carboxypeptidase b precursor (ec 3.4.17.2) (pancreas-specific protein) (pasp). [swissprot;acc:p15086]
	CRX	cone-rod homeobox protein. [swissprot;acc:o43186]	Subtracted	244.331	240.061	4.27
1419	OTX1	homeobox protein otx1. [swissprot;acc:p32242]		244.367	240.098	4.269
	SLC3A1	neutral and basic amino acid transport protein rbat (b(0,+)-type amino acid transport protein) (nbat) (d2h). [swissprot;acc:q07837]	Divided	203.979	208.229	1.02084
1420	ACY1	aminoacylase-1 (ec 3.5.1.14) (n-acyl-l-amino-acid amidohydrolase) (acy-1). [swissprot;acc:q03154]
	OTX2	homeobox protein otx2. [swissprot;acc:p32243]	Subtracted	244.478	240.212	4.266
1421	ASAH1	acid ceramidase precursor (ec 3.5.1.23) (acylsphingosine deacylase) (n-acylsphingosine amidohydrolase) (ac) (putative 32 kda heart protein) (php32). [swissprot;acc:q13510]	Divided	207.076	211.391	1.02084
	CPA5	carboxypeptidase a5. [refseq;acc:nm_080385]	Subtracted	203.979	208.229	4.25
1422	CPA1	carboxypeptidase a1 precursor (ec 3.4.17.1). [swissprot;acc:p15085]	Divided			1.02084
	CPB1	carboxypeptidase b precursor (ec 3.4.17.2) (pancreas-specific protein) (pasp). [swissprot;acc:p15086]	Subtracted			4.25
1423	no value	cysteine-rich protein 1 (cysteine-rich intestinal protein) (crip) (cysteine-rich heart protein) (hcrhp). [swissprot;acc:p50238]	Divided	221.152	216.659	1.02074
	SLC3A1	neutral and basic amino acid transport protein rbat (b(0,+)-type amino acid transport protein) (nbat) (d2h). [swissprot;acc:q07837]	Subtracted	203.979	208.229	4.25
1424	ACY1	aminoacylase-1 (ec 3.5.1.14) (n-acyl-l-amino-acid amidohydrolase) (acy-1). [swissprot;acc:q03154]
	ATP1A1	sodium/potassium-transporting atpase alpha-1 chain precursor (ec 3.6.3.9) (sodium pump 1) (na+/k+ atpase 1). [swissprot;acc:p05023]	Divided	214.717	219.157	1.02068
1425	CPA1	carboxypeptidase a1 precursor (ec 3.4.17.1). [swissprot;acc:p15085]	Subtracted	203.979	208.229	4.25
	CTSL2	cathepsin l2 precursor (ec 3.4.22.43) (cathepsin v) (cathepsin u). [swissprot;acc:o60911]	Divided	214.717	219.157	1.02068
1426	CTSL1	cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [swissprot;acc:p07711]
	PTRH2	protein cgi-147. [swissprot;acc:q9y3e5]	Subtracted	221.961	226.186	4.225
1427	ATP1A3	sodium/potassium-transporting atpase alpha-3 chain (ec 3.6.3.9) (sodium pump 3) (na+/k+ atpase 3) (alpha(iii)). [swissprot;acc:p13637]	Divided	214.717	219.157	1.02068
	CSNK1A1L	casein kinase i alpha s-like. [refseq;acc:nm_145203]	Subtracted	229.459	225.237	4.222
1428	ATP1A2	sodium/potassium-transporting atpase alpha-2 chain precursor (ec 3.6.3.9) (sodium pump 2) (na+/k+ atpase 2). [swissprot;acc:p50993]	Divided	214.717	219.157	1.02068
	CSNK1A1	casein kinase i, alpha isoform (ec 2.7.1.-) (cki-alpha) (ck1). [swissprot;acc:p48729]	Subtracted	229.459	225.237	4.222
1429	QARS	glutaminyl-trna synthetase (ec 6.1.1.18) (glutamine--trna ligase) (glnrs). [swissprot;acc:p47897]		221.412	217.199	4.213

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.