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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1877 to 1926 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	green	network_comparison	
1877	nucleobindin 1 precursor (calnuc). [source:swissprot;acc:q02818]	212.186	214.467	1.01075	
1878	dna mismatch repair protein mlh1 (mutl protein homolog 1). [source:swissprot;acc:p40692]	212.186	214.467	1.01075	
1879	nucleobindin 2 precursor (dna-binding protein nefa). [source:swissprot;acc:p80303]	212.186	214.467	1.01075	
1880	cytidine deaminase (ec 3.5.4.5) (cytidine aminohydrolase). [source:swissprot;acc:p32320]	220.852	223.225	1.01074	
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	208.355	1.01074	
1882	60s ribosomal protein l28. [source:swissprot;acc:p46779]	215.896	213.61	1.0107	
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	242.881	1.01067	
1884	putative gtp-binding protein ptd004 (pro2455). [source:swissprot;acc:q9ntk5]	215.081	217.373	1.01066	
1885	arginase 1 (ec 3.5.3.1) (liver-type arginase). [source:swissprot;acc:p05089]	204.44	206.615	1.01064	
1886	arginase ii, mitochondrial precursor (ec 3.5.3.1) (non-hepatic arginase) (kidney-type arginase). [source:swissprot;acc:p78540]	204.512	206.682	1.01061	
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	218.577	1.01061	
1888	immature colon carcinoma transcript 1 (digestion substraction 1) (ds- 1). [source:swissprot;acc:q14197]	218.414	216.131	1.01056	
1889	rab3a interacting protein (rabin3)-like 1. [source:refseq;acc:nm_013401]	211.27	209.067	1.01054	
1890	rab3a interacting protein isoform alpha 1; rabin3; ssx2 interacting protein. [source:refseq;acc:nm_022456]	211.314	209.111	1.01054	
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	231.395	1.01051	
1892	kelch-like ech-associated protein 1 (cytosolic inhibitor of nrf2). [source:swissprot;acc:q14145]	233.828	231.395	1.01051	
1893	gdp-mannose pyrophosphorylase b isoform 1; mannose-1-phosphate guanylyltransferase; amphoterin induced gene 3. [source:refseq;acc:nm_013334]	222.842	225.17	1.01045	
1894	gdp-mannose pyrophosphorylase a; mannose-1-phosphate guanylyltransferase (gdp). [source:refseq;acc:nm_013335]	222.842	225.17	1.01045	
1895	adenylyl cyclase-associated protein 2 (cap 2). [source:swissprot;acc:p40123]	215.853	213.639	1.01036	
1896	lim domain binding 2; lim binding domain 2; lim domain-binding factor-2. [source:refseq;acc:nm_001290]	199.883	197.835	1.01035	
1897	lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [source:refseq;acc:nm_003893]	199.883	197.835	1.01035	
1898	lim/homeobox protein lhx4. [source:swissprot;acc:q969g2]	199.881	197.833	1.01035	
1899	lim/homeobox protein lhx3. [source:swissprot;acc:q9ubr4]	199.884	197.837	1.01035	
1900	solute carrier family 27 (fatty acid transporter), member 4; fatty acid transport protein 4. [source:refseq;acc:nm_005094]	191.401	193.38	1.01034	
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	193.39	1.01034	
1902	lamin b receptor (integral nuclear envelope inner membrane protein) (lmn2r). [source:swissprot;acc:q14739]	191.411	193.39	1.01034	
1903	solute carrier family 27 member 3; fatty acid transport protein 3. [source:refseq;acc:nm_024330]	191.406	193.385	1.01034	
1904	very-long-chain acyl-coa synthetase (ec 6.2.1.-) (very-long-chain- fatty-acid-coa ligase). [source:swissprot;acc:o14975]	191.424	193.404	1.01034	
1905	disrupter of silencing 10. [source:refseq;acc:nm_020368]	191.411	193.39	1.01034	
1906	very long-chain acyl-coa synthetase homolog 1. [source:refseq;acc:nm_014031]	191.41	193.389	1.01034	
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	193.387	1.01034	
1908	similar to cg7020 gene product (fragment). [source:sptrembl;acc:q96ib4]	191.415	193.394	1.01034	
1909	calmegin precursor. [source:swissprot;acc:o14967]	217.48	215.256	1.01033	
1910	calnexin precursor (major histocompatibility complex class i antigen-binding protein p88) (p90) (ip90). [source:swissprot;acc:p27824]	217.48	215.256	1.01033	
1911	soluble liver antigen/liver pancreas antigen. [source:refseq;acc:nm_153825]	217.48	215.256	1.01033	
1912	rna (guanine-7-) methyltransferase. [source:refseq;acc:nm_003799]	217.48	215.256	1.01033	
1913	phospholipid scramblase 3 (pl scramblase 3) (ca(2+)-dependent phospholipid scramblase 3). [source:swissprot;acc:q9nry6]	215.745	213.564	1.01021	
1914	phospholipid scramblase 4 (pl scramblase 4) (ca(2+)-dependent phospholipid scramblase 4). [source:swissprot;acc:q9nrq2]	215.745	213.564	1.01021	
1915	phospholipid scramblase 2 (pl scramblase 2) (ca(2+)-dependent phospholipid scramblase 2). [source:swissprot;acc:q9nry7]	215.747	213.571	1.01019	
1916	rh type c glycoprotein. [source:refseq;acc:nm_016321]	196.88	198.88	1.01016	
1917	p28 ing5. [source:refseq;acc:nm_032329]	215.848	218.039	1.01015	
1918	endothelial-derived gene 1. [source:refseq;acc:nm_025205]	202.211	200.18	1.01015	
1919	histidyl-trna synthetase homolog (ec 6.1.1.21) (histidine--trna ligase homolog) (hisrs). [source:swissprot;acc:p49590]	187.231	185.349	1.01015	
1920	histidyl-trna synthetase (ec 6.1.1.21) (histidine--trna ligase) (hisrs). [source:swissprot;acc:p12081]	187.292	185.413	1.01013	
1921	5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [source:swissprot;acc:q99707]	221.607	219.386	1.01012	
1922	centaurin gamma 2. [source:swissprot;acc:q9upq3]	220.659	218.452	1.0101	
1923	general vesicular transport factor p115 (transcytosis associated protein) (tap) (vesicle docking protein). [source:swissprot;acc:o60763]	220.659	218.452	1.0101	
1924	centaurin gamma 1. [source:swissprot;acc:q99490]	220.659	218.452	1.0101	
1925	centaurin gamma 3. [source:swissprot;acc:q96p47]	220.659	218.452	1.0101	
1926	rhesus blood group, b glycoprotein; rh type b glycoprotein. [source:refseq;acc:nm_020407]	196.925	198.91	1.01008	

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/