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