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.

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

Results: HTML CSV LaTeX

Showing element 1901 to 1950 of 3228 in total

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

Rank	description	green	red	network_comparison
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). [swissprot;acc:o76062]	193.39	191.411	1.01034
1902	lamin b receptor (integral nuclear envelope inner membrane protein) (lmn2r). [swissprot;acc:q14739]
1903	solute carrier family 27 member 3; fatty acid transport protein 3. [refseq;acc:nm_024330]	193.385	191.406
1904	very-long-chain acyl-coa synthetase (ec 6.2.1.-) (very-long-chain- fatty-acid-coa ligase). [swissprot;acc:o14975]	193.404	191.424
1905	disrupter of silencing 10. [refseq;acc:nm_020368]	193.39	191.411
1906	very long-chain acyl-coa synthetase homolog 1. [refseq;acc:nm_014031]	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. [refseq;acc:nm_012254]	193.387	191.408
1908	similar to cg7020 gene product (fragment). [sptrembl;acc:q96ib4]	193.394	191.415
1909	calmegin precursor. [swissprot;acc:o14967]	215.256	217.48	1.01033
1910	calnexin precursor (major histocompatibility complex class i antigen-binding protein p88) (p90) (ip90). [swissprot;acc:p27824]
1911	soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825]
1912	rna (guanine-7-) methyltransferase. [refseq;acc:nm_003799]
1913	phospholipid scramblase 3 (pl scramblase 3) (ca(2+)-dependent phospholipid scramblase 3). [swissprot;acc:q9nry6]	213.564	215.745	1.01021
1914	phospholipid scramblase 4 (pl scramblase 4) (ca(2+)-dependent phospholipid scramblase 4). [swissprot;acc:q9nrq2]
1915	phospholipid scramblase 2 (pl scramblase 2) (ca(2+)-dependent phospholipid scramblase 2). [swissprot;acc:q9nry7]	213.571	215.747	1.01019
1916	rh type c glycoprotein. [refseq;acc:nm_016321]	198.88	196.88	1.01016
1917	p28 ing5. [refseq;acc:nm_032329]	218.039	215.848	1.01015
1918	endothelial-derived gene 1. [refseq;acc:nm_025205]	200.18	202.211
1919	histidyl-trna synthetase homolog (ec 6.1.1.21) (histidine--trna ligase homolog) (hisrs). [swissprot;acc:p49590]	185.349	187.231
1920	histidyl-trna synthetase (ec 6.1.1.21) (histidine--trna ligase) (hisrs). [swissprot;acc:p12081]	185.413	187.292	1.01013
1921	5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [swissprot;acc:q99707]	219.386	221.607	1.01012
1922	centaurin gamma 2. [swissprot;acc:q9upq3]	218.452	220.659	1.0101
1923	general vesicular transport factor p115 (transcytosis associated protein) (tap) (vesicle docking protein). [swissprot;acc:o60763]
1924	centaurin gamma 1. [swissprot;acc:q99490]
1925	centaurin gamma 3. [swissprot;acc:q96p47]
1926	rhesus blood group, b glycoprotein; rh type b glycoprotein. [refseq;acc:nm_020407]	198.91	196.925	1.01008
1927	rhesus blood group-associated glycoprotein (erythrocyte plasma membrane 50 kda glycoprotein) (rh50a). [swissprot;acc:q02094]	198.914	196.932	1.01006
1928	blood group rh(d) polypeptide (rhesus d antigen) (rhxiii) (rh polypeptide 2) (rhpii). [swissprot;acc:q02161]	198.935	196.964	1.01001
1929	enigma protein; lim domain protein. [refseq;acc:nm_005451]	217.574	219.753
1930	blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577]	198.935	196.964
1931	eukaryotic translation initiation factor 3 subunit 7 (eif-3 zeta) (eif3 p66) (eif3d). [swissprot;acc:o15371]	217.574	219.753
1932	blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577]	198.936	196.965
1933	ornithine carbamoyltransferase, mitochondrial precursor (ec 2.1.3.3) (otcase) (ornithine transcarbamylase). [swissprot;acc:p00480]	217.82	215.667	1.00998
1934	gamma adducin (adducin-like protein 70). [swissprot;acc:q9uey8]	222.055	224.264	1.00995
1935	abhydrolase domain containing protein 2 (protein phps1-2). [swissprot;acc:p08910]	216.279	218.43
1936	creatine kinase, sarcomeric mitochondrial precursor (ec 2.7.3.2) (s- mtck) (mib-ck) (basic-type mitochondrial creatine kinase). [swissprot;acc:p17540]	196.347	198.3
1937	quaking isoform 6. [sptrembl;acc:q9p0x9]	216.279	218.43
1938	creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532]	196.341	198.293	1.00994
1939	peptidyl prolyl isomerase h; cyclophilin h. [refseq;acc:nm_006347]	196.319	198.258	1.00988
1940	creatine kinase, b chain (ec 2.7.3.2) (b-ck). [swissprot;acc:p12277]	196.252	198.19
1941	prp18 pre-mrna processing factor 18 homolog. [refseq;acc:nm_003675]	196.319	198.258
1942	j domain protein c21orf55. [swissprot;acc:q9nx36]		198.257	1.00987
1943	megf11 protein. [refseq;acc:nm_032445]	222.147	224.34
1944	megf10 protein. [refseq;acc:nm_032446]	222.148	224.341
1945	beta adducin (erythrocyte adducin beta subunit). [swissprot;acc:p35612]	222.151	224.343
1946	nuclear factor, interleukin 3 regulated. [refseq;acc:nm_005384]	212.142	214.234	1.00986
1947	protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236]	127.083	125.845	1.00984
1948	15 kda selenoprotein precursor. [swissprot;acc:o60613]	212.432	214.522
1949	rna-binding protein with multiple splicing (rbp-ms). [swissprot;acc:q93062]	216.663	218.794
1950	vacuolar protein sorting 18 (hvps18). [swissprot;acc:q9p253]	213.747	215.847	1.00982

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.