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

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Showing element 3408 to 3457 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
1704	MYL3	myosin light chain 1, slow-twitch muscle b/ventricular isoform (mlc1sb) (alkali). [swissprot;acc:p08590]	Subtracted	233.45	230.595	2.855
1705	NDUFS6	nadh-ubiquinone oxidoreductase 13 kda-a subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-a) (ci-13kd-a). [swissprot;acc:o75380]
	PPP4C	serine/threonine protein phosphatase 4 (ec 3.1.3.16) (pp4) (protein phosphatase x) (pp-x). [swissprot;acc:p33172]	Divided	223.846	220.847	1.01358
1706	IGBP1	immunoglobulin-binding protein 1 (cd79a-binding protein 1) (b cell signal transduction molecule alpha 4) (alpha 4 protein). [swissprot;acc:p78318]
	MYL6	myosin light chain 1, slow-twitch muscle a isoform (mlc1sa) (alkali). [swissprot;acc:p14649]	Subtracted	233.45	230.595	2.855
1707	no value	myosin light chain 1, embryonic muscle/atrial isoform (pro1957). [swissprot;acc:p12829]
	BUB1B	mitotic checkpoint serine/threonine-protein kinase bub1 beta (ec 2.7.1.-) (hbubr1) (mad3/bub1-related protein kinase) (mitotic checkpoint kinase mad3l). [swissprot;acc:o60566]	Divided	221.283	218.334	1.01351
1708	IPMK	inositol polyphosphate multikinase. [refseq;acc:nm_152230]	Subtracted	217.676	220.53	2.854
	PNPO	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	Divided	221.283	218.334	1.01351
1709	AFG3L2	afg3-like protein 2 (ec 3.4.24.-) (paraplegin-like protein). [swissprot;acc:q9y4w6]	Subtracted	217.676	220.53	2.854
	HHEX	homeobox protein prh (hematopoietically expressed homeobox) (homeobox protein hex). [swissprot;acc:q03014]	Divided	198.014	195.385	1.01346
1710	no value	casein kinase i, epsilon isoform (ec 2.7.1.-) (cki-epsilon) (ckie). [swissprot;acc:p49674]		227.225	224.21	1.01345
	FUT8	alpha-(1,6)-fucosyltransferase (ec 2.4.1.68) (glycoprotein 6-alpha-l- fucosyltransferase) (gdp-fucose--glycoprotein fucosyltransferase) (gdp-l-fuc:n-acetyl-beta-d-glucosaminide alpha1,6-fucosyltransferase) (alpha1-6fuct) (fucosyltransferase 8). [swissprot;acc:q9byc5]	Subtracted	217.676	220.53	2.854
1711	HLCS	biotin--protein ligase (ec 6.3.4.-) (biotin apo-protein ligase) [includes: biotin--[methylmalonyl-coa-carboxyltransferase] ligase (ec 6.3.4.9); biotin--[propionyl-coa-carboxylase [atp-hydrolyzing]] ligase (ec 6.3.4.10) (holocarboxylase synthetase) (hcs); biotin--[methylcrotonoyl-coa-carboxylase] ligase (ec 6.3.4.11); biotin--[acetyl-coa-carboxylase] ligase (ec 6.3.4.15)]. [swissprot;acc:p50747]	Divided	218.436	215.553	1.01337
	VPS72	yl-1 protein (transcription factor-like 1). [swissprot;acc:q15906]	Subtracted	194.516	197.364	2.848
1712	HAGH	hydroxyacylglutathione hydrolase (ec 3.1.2.6) (glyoxalase ii) (glx ii). [swissprot;acc:q16775]
	TAF11	transcription initiation factor tfiid 28 kda subunit (tafii-28) (tafii28) (tfiid subunit p30-beta). [swissprot;acc:q15544]	Divided	208.598	211.375	1.01331
1713	NOLA2	nucleolar protein family a, member 2; component of the h/aca snornp. [refseq;acc:nm_017838]	Subtracted	221.921	219.081	2.84
	SH3GL3	sh3-containing grb2-like protein 3 (sh3 domain protein 2c) (een-b2). [swissprot;acc:q99963]	Divided	206.823	204.111	1.01329
1714	ARMET	armet protein precursor (arginine-rich protein). [swissprot;acc:p55145]		206.549	203.844	1.01327
	GTF2F1	transcription initiation factor iif, alpha subunit (tfiif-alpha) (transcription initiation factor rap74). [swissprot;acc:p35269]	Subtracted	221.921	219.081	2.84
1715	HDC	histidine decarboxylase (ec 4.1.1.22) (hdc). [swissprot;acc:p19113]	Divided	206.549	203.844	1.01327
	PNKD	myofibrillogenesis regulator 1; trans-activated by hepatitis c virus core protein 2; likely ortholog of mouse brain protein 17. [refseq;acc:nm_022572]	Subtracted	194.476	197.305	2.829
1716	LARS	leucyl-trna synthetase. [refseq;acc:nm_020117]		218.99	216.189	2.801
	SH3GL2	sh3-containing grb2-like protein 2 (sh3 domain protein 2a) (endophilin 1) (een-b1). [swissprot;acc:q99962]	Divided	206.522	203.818	1.01327
1717	LARS2	probable leucyl-trna synthetase, mitochondrial precursor (ec 6.1.1.4) (leucine--trna ligase) (leurs). [swissprot;acc:q15031]	Subtracted	218.99	216.189	2.801
	OSGEP	o-sialoglycoprotein endopeptidase. [refseq;acc:nm_017807]	Divided	221.058	218.164	1.01327
1718	MTHFD1	c-1-tetrahydrofolate synthase, cytoplasmic (c1-thf synthase) [includes: methylenetetrahydrofolate dehydrogenase (ec 1.5.1.5); methenyltetrahydrofolate cyclohydrolase (ec 3.5.4.9); formyltetrahydrofolate synthetase (ec 6.3.4.3)]. [swissprot;acc:p11586]	Subtracted	228.932	231.732	2.8
	SH3GL1	sh3-containing grb2-like protein 1 (sh3 domain protein 2b) (extra eleven-nineteen leukemia fusion gene) (een) (een fusion partner of mll). [swissprot;acc:q99961]	Divided	206.251	203.553	1.01325
1719	no value	helicase (fragment). [sptrembl;acc:q92771]		187.204	189.679	1.01322
	SGPL1	sphingosine-1-phosphate lyase 1; sphingosine-1-phosphate lyase. [refseq;acc:nm_003901]	Subtracted	219.423	222.215	2.792
1720	no value	4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404]
	DDX12	dead/h (asp-glu-ala-asp/his) box polypeptide 11; dead/h box-11 (chl1-related helicase gene-1); yeast chl1 homolog. [refseq;acc:nm_030655]	Divided	187.205	189.679	1.01322
1721	CSNK1D	casein kinase i, delta isoform (ec 2.7.1.-) (cki-delta) (ckid). [swissprot;acc:p48730]		227.125	224.164	1.01321
	OAT	ornithine aminotransferase, mitochondrial precursor (ec 2.6.1.13) (ornithine--oxo-acid aminotransferase). [swissprot;acc:p04181]	Subtracted	219.423	222.215	2.792
1722	NADK	putative inorganic polyphosphate/atp-nad kinase (ec 2.7.1.23) (poly(p)/atp nad kinase). [swissprot;acc:o95544]		212.36	215.147	2.787
	RPS13	40s ribosomal protein s13. [swissprot;acc:q02546]	Divided	220.899	223.813	1.01319
1723	AP1M2	adaptor-related protein complex 1, mu 2 subunit (mu-adaptin 2) (adaptor protein complex ap-1 mu-2 subunit) (golgi adaptor ha1/ap1 adaptin mu-2 subunit) (clathrin assembly protein assembly protein complex 1 medium chain 2) (ap-mu chain family member mu1b). [swissprot;acc:q9y6q5]	Subtracted	221.185	223.97	2.785
	NADK	putative inorganic polyphosphate/atp-nad kinase (ec 2.7.1.23) (poly(p)/atp nad kinase). [swissprot;acc:o95544]	Divided	212.36	215.147	1.01312
1724	IPMK	inositol polyphosphate multikinase. [refseq;acc:nm_152230]		217.676	220.53	1.01311
	TAF11	transcription initiation factor tfiid 28 kda subunit (tafii-28) (tafii28) (tfiid subunit p30-beta). [swissprot;acc:q15544]	Subtracted	208.598	211.375	2.777
1725	no value	pre-mrna cleavage factor i, 59 kda subunit. [refseq;acc:nm_024811]		218.176	215.402	2.774
	AFG3L2	afg3-like protein 2 (ec 3.4.24.-) (paraplegin-like protein). [swissprot;acc:q9y4w6]	Divided	217.676	220.53	1.01311
1726	CABC1	chaperone-activity of bc1 complex-like, mitochondrial precursor (chaperone-abc1-like). [swissprot;acc:q8ni60]	Subtracted	215.336	212.567	2.769
	FUT8	alpha-(1,6)-fucosyltransferase (ec 2.4.1.68) (glycoprotein 6-alpha-l- fucosyltransferase) (gdp-fucose--glycoprotein fucosyltransferase) (gdp-l-fuc:n-acetyl-beta-d-glucosaminide alpha1,6-fucosyltransferase) (alpha1-6fuct) (fucosyltransferase 8). [swissprot;acc:q9byc5]	Divided	217.676	220.53	1.01311
1727	ADCK2	aarf domain containing kinase 2; putative ubiquinone biosynthesis protein aarf. [refseq;acc:nm_052853]	Subtracted	215.336	212.567	2.769
	IMPA1	inositol-1(or 4)-monophosphatase (ec 3.1.3.25) (impase) (imp) (inositol monophosphatase) (lithium-sensitive myo-inositol monophosphatase a1). [swissprot;acc:p29218]	Divided	210.366	213.118	1.01308
1728	ADCK4	aarf domain containing kinase 4. [refseq;acc:nm_024876]	Subtracted	215.336	212.567	2.769
	IMPA2	inositol-1(or 4)-monophosphatase 2 (ec 3.1.3.25) (impase 2) (imp 2) (inositol monophosphatase 2) (myo-inositol monophosphatase a2). [swissprot;acc:o14732]	Divided	210.358	213.103	1.01305
1729	ADCK1	aarf domain containing kinase 1. [refseq;acc:nm_020421]	Subtracted	215.336	212.567	2.769

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.