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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


Navigation/Query Panel:
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 Network Comparison Type Value Type description Filtered Interaction Map network_comparison green red
Results: HTML CSV LaTeX Showing element 1875 to 1924 of 3228 in total 
Network Comparison Type	Divided
Value Type	Ranked
Filtered	1
Interaction Map	High confidence

Rank	description	network_comparison	green	red	
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]	1.01076	226.271	223.862	
1876	williams beuren syndrome chromosome region 20c isoform 1. [source:refseq;acc:nm_032158]	1.01076	226.271	223.862	
1877	nucleobindin 1 precursor (calnuc). [source:swissprot;acc:q02818]	1.01075	214.467	212.186	
1878	dna mismatch repair protein mlh1 (mutl protein homolog 1). [source:swissprot;acc:p40692]	1.01075	214.467	212.186	
1879	nucleobindin 2 precursor (dna-binding protein nefa). [source:swissprot;acc:p80303]	1.01075	214.467	212.186	
1880	cytidine deaminase (ec 3.5.4.5) (cytidine aminohydrolase). [source:swissprot;acc:p32320]	1.01074	223.225	220.852	
1881	dj850e9.1 (novel c2h2 type zinc finger protein similar to drosophila scratch (scrt), slug and xenopus snail) (fragment). [source:sptrembl;acc:q9nq03]	1.01074	208.355	210.592	
1882	60s ribosomal protein l28. [source:swissprot;acc:p46779]	1.0107	213.61	215.896	
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]	1.01067	242.881	240.317	
1884	putative gtp-binding protein ptd004 (pro2455). [source:swissprot;acc:q9ntk5]	1.01066	217.373	215.081	
1885	arginase 1 (ec 3.5.3.1) (liver-type arginase). [source:swissprot;acc:p05089]	1.01064	206.615	204.44	
1886	arginase ii, mitochondrial precursor (ec 3.5.3.1) (non-hepatic arginase) (kidney-type arginase). [source:swissprot;acc:p78540]	1.01061	206.682	204.512	
1887	sterile alpha and tir motif containing 1; sterile alpha and heat/armadillo motif protein, ortholog of drosophila. [source:refseq;acc:nm_015077]	1.01061	218.577	220.896	
1888	immature colon carcinoma transcript 1 (digestion substraction 1) (ds- 1). [source:swissprot;acc:q14197]	1.01056	216.131	218.414	
1889	rab3a interacting protein (rabin3)-like 1. [source:refseq;acc:nm_013401]	1.01054	209.067	211.27	
1890	rab3a interacting protein isoform alpha 1; rabin3; ssx2 interacting protein. [source:refseq;acc:nm_022456]	1.01054	209.111	211.314	
1891	dna replication licensing factor mcm3 (dna polymerase alpha holoenzyme-associated protein p1) (rlf beta subunit) (p102 protein) (p1-mcm3). [source:swissprot;acc:p25205]	1.01051	231.395	233.828	
1892	kelch-like ech-associated protein 1 (cytosolic inhibitor of nrf2). [source:swissprot;acc:q14145]	1.01051	231.395	233.828	
1893	gdp-mannose pyrophosphorylase b isoform 1; mannose-1-phosphate guanylyltransferase; amphoterin induced gene 3. [source:refseq;acc:nm_013334]	1.01045	225.17	222.842	
1894	gdp-mannose pyrophosphorylase a; mannose-1-phosphate guanylyltransferase (gdp). [source:refseq;acc:nm_013335]	1.01045	225.17	222.842	
1895	adenylyl cyclase-associated protein 2 (cap 2). [source:swissprot;acc:p40123]	1.01036	213.639	215.853	
1896	lim domain binding 2; lim binding domain 2; lim domain-binding factor-2. [source:refseq;acc:nm_001290]	1.01035	197.835	199.883	
1897	lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [source:refseq;acc:nm_003893]	1.01035	197.835	199.883	
1898	lim/homeobox protein lhx4. [source:swissprot;acc:q969g2]	1.01035	197.833	199.881	
1899	lim/homeobox protein lhx3. [source:swissprot;acc:q9ubr4]	1.01035	197.837	199.884	
1900	solute carrier family 27 (fatty acid transporter), member 4; fatty acid transport protein 4. [source:refseq;acc:nm_005094]	1.01034	193.38	191.401	
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]	1.01034	193.39	191.411	
1902	lamin b receptor (integral nuclear envelope inner membrane protein) (lmn2r). [source:swissprot;acc:q14739]	1.01034	193.39	191.411	
1903	solute carrier family 27 member 3; fatty acid transport protein 3. [source:refseq;acc:nm_024330]	1.01034	193.385	191.406	
1904	very-long-chain acyl-coa synthetase (ec 6.2.1.-) (very-long-chain- fatty-acid-coa ligase). [source:swissprot;acc:o14975]	1.01034	193.404	191.424	
1905	disrupter of silencing 10. [source:refseq;acc:nm_020368]	1.01034	193.39	191.411	
1906	very long-chain acyl-coa synthetase homolog 1. [source:refseq;acc:nm_014031]	1.01034	193.389	191.41	
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]	1.01034	193.387	191.408	
1908	similar to cg7020 gene product (fragment). [source:sptrembl;acc:q96ib4]	1.01034	193.394	191.415	
1909	calmegin precursor. [source:swissprot;acc:o14967]	1.01033	215.256	217.48	
1910	calnexin precursor (major histocompatibility complex class i antigen-binding protein p88) (p90) (ip90). [source:swissprot;acc:p27824]	1.01033	215.256	217.48	
1911	soluble liver antigen/liver pancreas antigen. [source:refseq;acc:nm_153825]	1.01033	215.256	217.48	
1912	rna (guanine-7-) methyltransferase. [source:refseq;acc:nm_003799]	1.01033	215.256	217.48	
1913	phospholipid scramblase 3 (pl scramblase 3) (ca(2+)-dependent phospholipid scramblase 3). [source:swissprot;acc:q9nry6]	1.01021	213.564	215.745	
1914	phospholipid scramblase 4 (pl scramblase 4) (ca(2+)-dependent phospholipid scramblase 4). [source:swissprot;acc:q9nrq2]	1.01021	213.564	215.745	
1915	phospholipid scramblase 2 (pl scramblase 2) (ca(2+)-dependent phospholipid scramblase 2). [source:swissprot;acc:q9nry7]	1.01019	213.571	215.747	
1916	rh type c glycoprotein. [source:refseq;acc:nm_016321]	1.01016	198.88	196.88	
1917	p28 ing5. [source:refseq;acc:nm_032329]	1.01015	218.039	215.848	
1918	endothelial-derived gene 1. [source:refseq;acc:nm_025205]	1.01015	200.18	202.211	
1919	histidyl-trna synthetase homolog (ec 6.1.1.21) (histidine--trna ligase homolog) (hisrs). [source:swissprot;acc:p49590]	1.01015	185.349	187.231	
1920	histidyl-trna synthetase (ec 6.1.1.21) (histidine--trna ligase) (hisrs). [source:swissprot;acc:p12081]	1.01013	185.413	187.292	
1921	5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [source:swissprot;acc:q99707]	1.01012	219.386	221.607	
1922	centaurin gamma 2. [source:swissprot;acc:q9upq3]	1.0101	218.452	220.659	
1923	general vesicular transport factor p115 (transcytosis associated protein) (tap) (vesicle docking protein). [source:swissprot;acc:o60763]	1.0101	218.452	220.659	
1924	centaurin gamma 1. [source:swissprot;acc:q99490]	1.0101	218.452	220.659	

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/