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	description	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 3630 to 3679 of 6456 in total

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

Rank	description	Network Comparison Type	red	green	network_comparison
1815	stip1 homology and u-box containing protein 1; serologically defined colon cancer antigen 7; carboxy terminus of hsp70p-interacting protein; heat shock protein a binding protein 2 (c-terminal). [refseq;acc:nm_005861]	Subtracted	211.102	208.651	2.451
1816	autophagy protein 12-like (apg12-like). [swissprot;acc:o94817]		187.582	190.028	2.446
	rab coupling protein; rab-interacting recycling protein; rab effector protein; rab11-family interacting protein 1. [refseq;acc:nm_025151]	Divided	220.462	217.926	1.01164
1817	f-actin capping protein alpha-1 subunit (capz alpha-1). [swissprot;acc:p52907]	Subtracted	214.722	212.281	2.441
	gamma-snap-associated factor 1; rab11-interacting protein. [refseq;acc:nm_015470]	Divided	220.462	217.926	1.01164
1818	cad protein [includes: glutamine-dependent carbamoyl-phosphate synthase (ec 6.3.5.5); aspartate carbamoyltransferase (ec 2.1.3.2); dihydroorotase (ec 3.5.2.3)]. [swissprot;acc:p27708]	Subtracted	212.884	215.323	2.439
	neighbor of cox4. [swissprot;acc:o43402]	Divided	220.462	217.926	1.01164
1819	dna replication licensing factor mcm3 (dna polymerase alpha holoenzyme-associated protein p1) (rlf beta subunit) (p102 protein) (p1-mcm3). [swissprot;acc:p25205]	Subtracted	233.828	231.395	2.433
	protein c14orf122 (cgi-112). [swissprot;acc:q9y3b6]	Divided	220.462	217.926	1.01164
1820	kelch-like ech-associated protein 1 (cytosolic inhibitor of nrf2). [swissprot;acc:q14145]	Subtracted	233.828	231.395	2.433
	potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]	Divided	220.462	217.926	1.01164
1821	60s ribosomal protein l24 (l30). [swissprot;acc:p38663]	Subtracted	201.288	198.86	2.428
	rna-binding region containing protein 1 (hsrnaseb) (ssdna binding protein seb4) (cll-associated antigen kw-5). [swissprot;acc:q9h0z9]	Divided	218.36	215.874	1.01152
1822	6-phosphofructokinase, liver type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme b) (pfk-b). [swissprot;acc:p17858]		240.32	243.085	1.01151
	translation initiation factor eif-2b epsilon subunit (eif-2b gdp-gtp exchange factor). [swissprot;acc:q13144]	Subtracted	222.215	224.637	2.422
1823	fragile x mental retardation syndrome related protein 2. [swissprot;acc:p51116]	Divided	202.386	200.086	1.0115
	translation initiation factor eif-2b gamma subunit (eif-2b gdp-gtp exchange factor). [swissprot;acc:q9nr50]	Subtracted	222.215	224.637	2.422
1824	f-actin capping protein alpha-1 subunit (capz alpha-1). [swissprot;acc:p52907]	Divided	214.722	212.281	1.0115
	f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755]	Subtracted	214.746	212.328	2.418
1825	dna topoisomerase ii, alpha isozyme (ec 5.99.1.3). [swissprot;acc:p11388]		203.759	201.349	2.41
	fragile x mental retardation syndrome related protein 1. [swissprot;acc:p51114]	Divided	202.386	200.086	1.0115
1826	nucleoporin nup43 (p42). [swissprot;acc:q8nfh3]		202.393	200.094	1.01149
	williams-beuren syndrome critical region protein 20 copy b. [refseq;acc:nm_145645]	Subtracted	223.862	226.271	2.409
1827	atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [swissprot;acc:o76031]		222.819	225.228
	nucleoside diphosphate kinase 3 (ec 2.7.4.6) (ndk 3) (ndp kinase 3) (nm23-h3) (dr-nm23). [swissprot;acc:q13232]	Divided	191.39	189.219	1.01147
1828	fragile x mental retardation 1 protein (protein fmr-1) (fmrp). [swissprot;acc:q06787]		202.41	200.115
	williams beuren syndrome critical region 20a isoform 2; nol1/nop2/sun gene family member; williams-beuren syndrome critical region protein 20 copy a; williams beuren syndrome chromosome region 20. [refseq;acc:nm_018044]	Subtracted	223.862	226.271	2.409
1829	cad protein [includes: glutamine-dependent carbamoyl-phosphate synthase (ec 6.3.5.5); aspartate carbamoyltransferase (ec 2.1.3.2); dihydroorotase (ec 3.5.2.3)]. [swissprot;acc:p27708]	Divided	212.884	215.323	1.01146
	williams beuren syndrome chromosome region 20c isoform 1. [refseq;acc:nm_032158]	Subtracted	223.862	226.271	2.409
1830	6-phosphofructokinase, muscle type (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme a) (pfk-a) (phosphofructokinase-m). [swissprot;acc:p08237]	Divided	240.32	243.069	1.01144
	dna polymerase delta p38 subunit. [refseq;acc:nm_015584]	Subtracted	222.819	225.228	2.409
1831	f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755]	Divided	214.746	212.328	1.01139
	translation initiation factor eif-2b delta subunit (eif-2b gdp-gtp exchange factor). [swissprot;acc:q9ui10]	Subtracted	221.725	224.133	2.408
1832	eukaryotic translation initiation factor 2 subunit 3 (eukaryotic translation initiation factor 2 gamma subunit) (eif-2-gamma). [swissprot;acc:p41091]		221.639	224.046	2.407
	solute carrier family 4 (anion exchanger), member 1, adaptor protein; kidney anion exchanger adaptor protein; kanadaptin; lung cancer oncogene 3. [refseq;acc:nm_018158]	Divided	180.409	182.459	1.01136
1833	cyclin-dependent kinases regulatory subunit 2 (cks-2). [swissprot;acc:p33552]
	dna topoisomerase ii, beta isozyme (ec 5.99.1.3). [swissprot;acc:q02880]	Subtracted	203.759	201.357	2.402
1834	catenin (cadherin-associated protein), alpha-like 1; alpha-catulin. [refseq;acc:nm_003798]	Divided	180.409	182.459	1.01136
	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]	Subtracted	188.452	190.845	2.393
1835	brain protein 16. [refseq;acc:nm_016458]		216.811	219.195	2.384
	golgi reassembly stacking protein 2; golgi reassembly stacking protein 2, 55 kda. [refseq;acc:nm_015530]	Divided	194.573	192.396	1.01132
1836	bile acid coenzyme a: amino acid n-acyltransferase; glycine n-choloyltransferase. [refseq;acc:nm_001701]	Subtracted	218.441	216.064	2.377
	ribose 5-phosphate isomerase (ec 5.3.1.6) (phosphoriboisomerase). [swissprot;acc:p49247]	Divided	208.821	211.17	1.01125
1837	abl-interactor 2; abl-interacting protein 1 (sh3-containing protein); abl binding protein 3; arg protein tyrosine kinase-binding protein; abl-interactor protein 2b; similar to spectrin sh3 domain binding protein 1. [refseq;acc:nm_005759]	Subtracted	217.077	214.702	2.375
	ketohexokinase (ec 2.7.1.3) (hepatic fructokinase). [swissprot;acc:p50053]	Divided	218.984	221.446	1.01124
1838	cytidine deaminase (ec 3.5.4.5) (cytidine aminohydrolase). [swissprot;acc:p32320]	Subtracted	220.852	223.225	2.373
	purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491]	Divided	218.984	221.446	1.01124
1839	eukaryotic translation initiation factor 2 subunit 2 (eukaryotic translation initiation factor 2 beta subunit) (eif-2-beta). [swissprot;acc:p20042]		221.525	224.001	1.01118
	peroxisomal acyl-coenzyme a thioester hydrolase 2a (ec 3.1.2.2) (peroxisomal long-chain acyl-coa thioesterase 2) (zap128). [swissprot;acc:p49753]	Subtracted	218.445	216.074	2.371
1840	dna-(apurinic or apyrimidinic site) lyase (ec 4.2.99.18) (ap endonuclease 1) (apex nuclease) (apen) (ref-1 protein). [swissprot;acc:p27695]	Divided	211.882	209.544	1.01116

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
- 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.