Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 1863 to 1912 of 3228 in total

Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	network_comparison	green	
1863	nadh-cytochrome b5 reductase (ec 1.6.2.2) (b5r). [source:swissprot;acc:p00387]	210.856	1.01087	213.147	
1864	fuse-binding protein-interacting repressor isoform b; siah binding protein 1; pyrimidine tract binding splicing factor; ro ribonucleoprotein-binding protein 1; poly-u binding splicing factor puf60. [source:refseq;acc:nm_014281]	203.071	1.01086	200.89	
1865	eukaryotic translation initiation factor 2 subunit 3 (eukaryotic translation initiation factor 2 gamma subunit) (eif-2-gamma). [source:swissprot;acc:p41091]	221.639	1.01086	224.046	
1866	translation initiation factor eif-2b delta subunit (eif-2b gdp-gtp exchange factor). [source:swissprot;acc:q9ui10]	221.725	1.01086	224.133	
1867	multisynthetase complex auxiliary component p38 (jtv-1 protein) (pro0992). [source:swissprot;acc:q13155]	203.071	1.01086	200.89	
1868	protein kinase nyd-sp25. [source:refseq;acc:nm_033516]	207.642	1.01085	209.895	
1869	lanc lantibiotic synthetase component c-like 2; testis-specific adriamycin sensitivity protein; lanc (bacterial lantibiotic synthetase component c)-like 2; g protein-coupled receptor 69b. [source:refseq;acc:nm_018697]	220.107	1.01082	217.75	
1870	lanthionine synthetase c-like protein 1; g protein-coupled receptor 69a; lanc (bacterial lantibiotic synthetase component c)-like 1; lanc (bacterial lantibiotic synthetase component). [source:refseq;acc:nm_006055]	220.107	1.01082	217.75	
1871	atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [source:swissprot;acc:o76031]	222.819	1.01081	225.228	
1872	dna polymerase delta p38 subunit. [source:refseq;acc:nm_015584]	222.819	1.01081	225.228	
1873	scratch; scratch 1. [source:refseq;acc:nm_031309]	210.55	1.01078	208.305	
1874	williams-beuren syndrome critical region protein 20 copy b. [source:refseq;acc:nm_145645]	223.862	1.01076	226.271	
1875	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. [source:refseq;acc:nm_018044]	223.862	1.01076	226.271	
1876	williams beuren syndrome chromosome region 20c isoform 1. [source:refseq;acc:nm_032158]	223.862	1.01076	226.271	
1877	nucleobindin 1 precursor (calnuc). [source:swissprot;acc:q02818]	212.186	1.01075	214.467	
1878	dna mismatch repair protein mlh1 (mutl protein homolog 1). [source:swissprot;acc:p40692]	212.186	1.01075	214.467	
1879	nucleobindin 2 precursor (dna-binding protein nefa). [source:swissprot;acc:p80303]	212.186	1.01075	214.467	
1880	cytidine deaminase (ec 3.5.4.5) (cytidine aminohydrolase). [source:swissprot;acc:p32320]	220.852	1.01074	223.225	
1881	dj850e9.1 (novel c2h2 type zinc finger protein similar to drosophila scratch (scrt), slug and xenopus snail) (fragment). [source:sptrembl;acc:q9nq03]	210.592	1.01074	208.355	
1882	60s ribosomal protein l28. [source:swissprot;acc:p46779]	215.896	1.0107	213.61	
1883	6-phosphofructokinase, type c (ec 2.7.1.11) (phosphofructokinase 1) (phosphohexokinase) (phosphofructo-1-kinase isozyme c) (pfk-c) (6-phosphofructokinase, platelet type). [source:swissprot;acc:q01813]	240.317	1.01067	242.881	
1884	putative gtp-binding protein ptd004 (pro2455). [source:swissprot;acc:q9ntk5]	215.081	1.01066	217.373	
1885	arginase 1 (ec 3.5.3.1) (liver-type arginase). [source:swissprot;acc:p05089]	204.44	1.01064	206.615	
1886	arginase ii, mitochondrial precursor (ec 3.5.3.1) (non-hepatic arginase) (kidney-type arginase). [source:swissprot;acc:p78540]	204.512	1.01061	206.682	
1887	sterile alpha and tir motif containing 1; sterile alpha and heat/armadillo motif protein, ortholog of drosophila. [source:refseq;acc:nm_015077]	220.896	1.01061	218.577	
1888	immature colon carcinoma transcript 1 (digestion substraction 1) (ds- 1). [source:swissprot;acc:q14197]	218.414	1.01056	216.131	
1889	rab3a interacting protein (rabin3)-like 1. [source:refseq;acc:nm_013401]	211.27	1.01054	209.067	
1890	rab3a interacting protein isoform alpha 1; rabin3; ssx2 interacting protein. [source:refseq;acc:nm_022456]	211.314	1.01054	209.111	
1891	dna replication licensing factor mcm3 (dna polymerase alpha holoenzyme-associated protein p1) (rlf beta subunit) (p102 protein) (p1-mcm3). [source:swissprot;acc:p25205]	233.828	1.01051	231.395	
1892	kelch-like ech-associated protein 1 (cytosolic inhibitor of nrf2). [source:swissprot;acc:q14145]	233.828	1.01051	231.395	
1893	gdp-mannose pyrophosphorylase b isoform 1; mannose-1-phosphate guanylyltransferase; amphoterin induced gene 3. [source:refseq;acc:nm_013334]	222.842	1.01045	225.17	
1894	gdp-mannose pyrophosphorylase a; mannose-1-phosphate guanylyltransferase (gdp). [source:refseq;acc:nm_013335]	222.842	1.01045	225.17	
1895	adenylyl cyclase-associated protein 2 (cap 2). [source:swissprot;acc:p40123]	215.853	1.01036	213.639	
1896	lim domain binding 2; lim binding domain 2; lim domain-binding factor-2. [source:refseq;acc:nm_001290]	199.883	1.01035	197.835	
1897	lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [source:refseq;acc:nm_003893]	199.883	1.01035	197.835	
1898	lim/homeobox protein lhx4. [source:swissprot;acc:q969g2]	199.881	1.01035	197.833	
1899	lim/homeobox protein lhx3. [source:swissprot;acc:q9ubr4]	199.884	1.01035	197.837	
1900	solute carrier family 27 (fatty acid transporter), member 4; fatty acid transport protein 4. [source:refseq;acc:nm_005094]	191.401	1.01034	193.38	
1901	delta(14)-sterol reductase (ec 1.3.1.70) (c-14 sterol reductase) (sterol c14-reductase) (delta14-sr) (transmembrane 7 superfamily member 2) (another new gene 1) (putative sterol reductase sr-1). [source:swissprot;acc:o76062]	191.411	1.01034	193.39	
1902	lamin b receptor (integral nuclear envelope inner membrane protein) (lmn2r). [source:swissprot;acc:q14739]	191.411	1.01034	193.39	
1903	solute carrier family 27 member 3; fatty acid transport protein 3. [source:refseq;acc:nm_024330]	191.406	1.01034	193.385	
1904	very-long-chain acyl-coa synthetase (ec 6.2.1.-) (very-long-chain- fatty-acid-coa ligase). [source:swissprot;acc:o14975]	191.424	1.01034	193.404	
1905	disrupter of silencing 10. [source:refseq;acc:nm_020368]	191.411	1.01034	193.39	
1906	very long-chain acyl-coa synthetase homolog 1. [source:refseq;acc:nm_014031]	191.41	1.01034	193.389	
1907	solute carrier family 27 (fatty acid transporter), member 5; very long-chain acyl-coa synthetase homolog 2; very long-chain acyl-coa synthetase-related protein; likely ortholog of mouse solute carrier family 27 (fatty acid transporter), member 5. [source:refseq;acc:nm_012254]	191.408	1.01034	193.387	
1908	similar to cg7020 gene product (fragment). [source:sptrembl;acc:q96ib4]	191.415	1.01034	193.394	
1909	calmegin precursor. [source:swissprot;acc:o14967]	217.48	1.01033	215.256	
1910	calnexin precursor (major histocompatibility complex class i antigen-binding protein p88) (p90) (ip90). [source:swissprot;acc:p27824]	217.48	1.01033	215.256	
1911	soluble liver antigen/liver pancreas antigen. [source:refseq;acc:nm_153825]	217.48	1.01033	215.256	
1912	rna (guanine-7-) methyltransferase. [source:refseq;acc:nm_003799]	217.48	1.01033	215.256	

Legend:
- Rank is the rank after comparing the two networks
- 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.

- http://analysis.yellowcouch.org/