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	green	network_comparison

Results: HTML CSV LaTeX

Showing element 3458 to 3507 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
1729	ATG12	autophagy protein 12-like (apg12-like). [swissprot;acc:o94817]	Divided	187.582	190.028	1.01304
1730	CABC1	chaperone-activity of bc1 complex-like, mitochondrial precursor (chaperone-abc1-like). [swissprot;acc:q8ni60]		215.336	212.567	1.01303
	GATAD2A	p66 alpha. [refseq;acc:nm_017660]	Subtracted	167.687	170.455	2.768
1731	ADCK2	aarf domain containing kinase 2; putative ubiquinone biosynthesis protein aarf. [refseq;acc:nm_052853]	Divided	215.336	212.567	1.01303
	GATAD2B	transcription repressor p66 beta component of the mecp1 complex. [refseq;acc:nm_020699]	Subtracted	167.687	170.455	2.768
1732	no value	tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735]
	ADCK4	aarf domain containing kinase 4. [refseq;acc:nm_024876]	Divided	215.336	212.567	1.01303
1733	ADCK1	aarf domain containing kinase 1. [refseq;acc:nm_020421]
	PFKL	6-phosphofructokinase, liver type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme b) (pfk-b). [swissprot;acc:p17858]	Subtracted	240.32	243.085	2.765
1734	IMPA1	inositol-1(or 4)-monophosphatase (ec 3.1.3.25) (impase) (imp) (inositol monophosphatase) (lithium-sensitive myo-inositol monophosphatase a1). [swissprot;acc:p29218]		210.366	213.118	2.752
	NOLA2	nucleolar protein family a, member 2; component of the h/aca snornp. [refseq;acc:nm_017838]	Divided	221.921	219.081	1.01296
1735	CCNB2	g2/mitotic-specific cyclin b2. [swissprot;acc:o95067]	Subtracted	168.018	170.769	2.751
	LARS	leucyl-trna synthetase. [refseq;acc:nm_020117]	Divided	218.99	216.189	1.01296
1736	CDK3	cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526]	Subtracted	168.002	170.753	2.751
	GTF2F1	transcription initiation factor iif, alpha subunit (tfiif-alpha) (transcription initiation factor rap74). [swissprot;acc:p35269]	Divided	221.921	219.081	1.01296
1737	LARS2	probable leucyl-trna synthetase, mitochondrial precursor (ec 6.1.1.4) (leucine--trna ligase) (leurs). [swissprot;acc:q15031]		218.99	216.189
	PFKM	6-phosphofructokinase, muscle type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme a) (pfk-a) (phosphofructokinase-m). [swissprot;acc:p08237]	Subtracted	240.32	243.069	2.749
1738	CCNB1	g2/mitotic-specific cyclin b1. [swissprot;acc:p14635]		168.098	170.844	2.746
	LIPT1	lipoate-protein ligase, mitochondrial precursor (ec 6.-.-.-) (lipoate biosynthesis protein) (lipoyl ligase) (lipoyltransferase). [swissprot;acc:q9y234]	Divided	206.595	209.258	1.01289
1739	CDK2	cell division protein kinase 2 (ec 2.7.1.-) (p33 protein kinase). [swissprot;acc:p24941]	Subtracted	168.091	170.837	2.746
	TUBG1	tubulin gamma-1 chain (gamma-1 tubulin) (gamma-tubulin complex component 1) (gcp-1). [swissprot;acc:p23258]	Divided	206.595	209.258	1.01289
1740	DAD1	defender against cell death 1 (dad-1). [swissprot;acc:p46966]
	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]	Subtracted	210.358	213.103	2.745
1741	CDC2	cell division control protein 2 homolog (ec 2.7.1.-) (p34 protein kinase) (cyclin-dependent kinase 1) (cdk1). [swissprot;acc:p06493]		168.145	170.888	2.743
	TCP11	t-complex 11. [refseq;acc:nm_018679]	Divided	206.595	209.258	1.01289
1742	MSRA	peptide methionine sulfoxide reductase (ec 1.8.4.6) (protein- methionine-s-oxide reductase) (peptide met(o) reductase). [swissprot;acc:q9uj68]	Subtracted	220.091	217.362	2.729
	TUBG2	tubulin gamma-2 chain (gamma-2 tubulin). [swissprot;acc:q9nrh3]	Divided	206.595	209.258	1.01289
1743	no value	pre-mrna cleavage factor i, 59 kda subunit. [refseq;acc:nm_024811]		218.176	215.402	1.01288
	PSAT1	phosphoserine aminotransferase (ec 2.6.1.52) (psat). [swissprot;acc:q9y617]	Subtracted	220.091	217.362	2.729
1744	MEGF6	megf6 (fragment). [sptrembl;acc:o75095]		221.811	219.09	2.721
	SGPL1	sphingosine-1-phosphate lyase 1; sphingosine-1-phosphate lyase. [refseq;acc:nm_003901]	Divided	219.423	222.215	1.01272
1745	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]
	BARD1	brca1-associated ring domain protein 1 (bard-1). [swissprot;acc:q99728]	Subtracted	216.271	218.991	2.72
1746	MTAP	5'-methylthioadenosine phosphorylase (ec 2.4.2.28) (mta phosphorylase) (mtapase). [swissprot;acc:q13126]		223.016	225.734	2.718
	OAT	ornithine aminotransferase, mitochondrial precursor (ec 2.6.1.13) (ornithine--oxo-acid aminotransferase). [swissprot;acc:p04181]	Divided	219.423	222.215	1.01272
1747	ERCC2	tfiih basal transcription factor complex helicase subunit (ec 3.6.1.-) (dna-repair protein complementing xp-d cells) (xeroderma pigmentosum group d complementing protein) (cxpd) (dna excision repair protein ercc-2). [swissprot;acc:p18074]		188.452	190.845	1.0127
	FTSJ1	putative ribosomal rna methyltransferase 1 (ec 2.1.1.-) (rrna (uridine-2'-o-)-methyltransferase) (jm23 protein). [swissprot;acc:q9uet6]	Subtracted	223.016	225.734	2.718
1748	no value	bloom's syndrome protein (ec 3.6.1.-) (recq protein-like 3) (dna helicase, recq-like, type 2). [swissprot;acc:p54132]	Divided	215.673	212.971	1.01269
	RUVBL1	ruvb-like 1 (ec 3.6.1.-) (49-kda tata box-binding protein-interacting protein) (49 kda tbp-interacting protein) (tip49a) (pontin 52) (nuclear matrix protein 238) (nmp 238) (54 kda erythrocyte cytosolic protein) (ecp-54) (tip60-associated protein 54-alpha) (tap54-alpha). [swissprot;acc:q9y265]	Subtracted	219.37	222.086	2.716
1749	MLH3	dna mismatch repair protein mlh3 (mutl protein homolog 3). [swissprot;acc:q9uhc1]	Divided	206.058	203.485	1.01264
	SH3GL3	sh3-containing grb2-like protein 3 (sh3 domain protein 2c) (een-b2). [swissprot;acc:q99963]	Subtracted	206.823	204.111	2.712
1750	LIMCH1	similar to lim domain only 7 (fragment). [sptrembl;acc:q8n6m2]	Divided	216.27	213.57	1.01264
	SPTBN2	spectrin beta chain, brain 2 (spectrin, non-erythroid beta chain 2) (beta-iii spectrin). [swissprot;acc:o15020]	Subtracted	223.032	225.739	2.707
1751	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]	Divided	221.185	223.97	1.01259
	SPTBN1	spectrin beta chain, brain 1 (spectrin, non-erythroid beta chain 1) (beta-ii spectrin) (fodrin beta chain). [swissprot;acc:q01082]	Subtracted	223.032	225.739	2.707
1752	BARD1	brca1-associated ring domain protein 1 (bard-1). [swissprot;acc:q99728]	Divided	216.271	218.991	1.01258
	PGM3	phosphoacetylglucosamine mutase (ec 5.4.2.3) (pagm) (acetylglucosamine phosphomutase) (n-acetylglucosamine-phosphate mutase) (phosphoglucomutase 3). [swissprot;acc:o95394]	Subtracted	223.032	225.739	2.707
1753	ARMET	armet protein precursor (arginine-rich protein). [swissprot;acc:p55145]		206.549	203.844	2.705
	MSRA	peptide methionine sulfoxide reductase (ec 1.8.4.6) (protein- methionine-s-oxide reductase) (peptide met(o) reductase). [swissprot;acc:q9uj68]	Divided	220.091	217.362	1.01256
1754	HDC	histidine decarboxylase (ec 4.1.1.22) (hdc). [swissprot;acc:p19113]	Subtracted	206.549	203.844	2.705

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.