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.

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	Hugo	description	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	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	Hugo	description	red	green	network_comparison
1901	TM7SF2	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]	191.411	193.39	1.01034
1902	LBR	lamin b receptor (integral nuclear envelope inner membrane protein) (lmn2r). [swissprot;acc:q14739]
1903	SLC27A3	solute carrier family 27 member 3; fatty acid transport protein 3. [refseq;acc:nm_024330]	191.406	193.385
1904	SLC27A2	very-long-chain acyl-coa synthetase (ec 6.2.1.-) (very-long-chain- fatty-acid-coa ligase). [swissprot;acc:o14975]	191.424	193.404
1905	UTP3	disrupter of silencing 10. [refseq;acc:nm_020368]	191.411	193.39
1906	SLC27A6	very long-chain acyl-coa synthetase homolog 1. [refseq;acc:nm_014031]	191.41	193.389
1907	SLC27A5	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]	191.408	193.387
1908	DIP2B	similar to cg7020 gene product (fragment). [sptrembl;acc:q96ib4]	191.415	193.394
1909	CLGN	calmegin precursor. [swissprot;acc:o14967]	217.48	215.256	1.01033
1910	CANX	calnexin precursor (major histocompatibility complex class i antigen-binding protein p88) (p90) (ip90). [swissprot;acc:p27824]
1911	SEPSECS	soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825]
1912	RNMT	rna (guanine-7-) methyltransferase. [refseq;acc:nm_003799]
1913	no value	phospholipid scramblase 3 (pl scramblase 3) (ca(2+)-dependent phospholipid scramblase 3). [swissprot;acc:q9nry6]	215.745	213.564	1.01021
1914	PLSCR4	phospholipid scramblase 4 (pl scramblase 4) (ca(2+)-dependent phospholipid scramblase 4). [swissprot;acc:q9nrq2]
1915	PLSCR2	phospholipid scramblase 2 (pl scramblase 2) (ca(2+)-dependent phospholipid scramblase 2). [swissprot;acc:q9nry7]	215.747	213.571	1.01019
1916	RHCG	rh type c glycoprotein. [refseq;acc:nm_016321]	196.88	198.88	1.01016
1917	ING5	p28 ing5. [refseq;acc:nm_032329]	215.848	218.039	1.01015
1918	MED28	endothelial-derived gene 1. [refseq;acc:nm_025205]	202.211	200.18
1919	HARS2	histidyl-trna synthetase homolog (ec 6.1.1.21) (histidine--trna ligase homolog) (hisrs). [swissprot;acc:p49590]	187.231	185.349
1920	HARS	histidyl-trna synthetase (ec 6.1.1.21) (histidine--trna ligase) (hisrs). [swissprot;acc:p12081]	187.292	185.413	1.01013
1921	MTR	5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [swissprot;acc:q99707]	221.607	219.386	1.01012
1922	CENTG2	centaurin gamma 2. [swissprot;acc:q9upq3]	220.659	218.452	1.0101
1923	USO1	general vesicular transport factor p115 (transcytosis associated protein) (tap) (vesicle docking protein). [swissprot;acc:o60763]
1924	CENTG1	centaurin gamma 1. [swissprot;acc:q99490]
1925	CENTG3	centaurin gamma 3. [swissprot;acc:q96p47]
1926	RHBG	rhesus blood group, b glycoprotein; rh type b glycoprotein. [refseq;acc:nm_020407]	196.925	198.91	1.01008
1927	RHAG	rhesus blood group-associated glycoprotein (erythrocyte plasma membrane 50 kda glycoprotein) (rh50a). [swissprot;acc:q02094]	196.932	198.914	1.01006
1928	RHD	blood group rh(d) polypeptide (rhesus d antigen) (rhxiii) (rh polypeptide 2) (rhpii). [swissprot;acc:q02161]	196.964	198.935	1.01001
1929	no value	enigma protein; lim domain protein. [refseq;acc:nm_005451]	219.753	217.574
1930		blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577]	196.964	198.935
1931	EIF3D	eukaryotic translation initiation factor 3 subunit 7 (eif-3 zeta) (eif3 p66) (eif3d). [swissprot;acc:o15371]	219.753	217.574
1932	no value	blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577]	196.965	198.936
1933	OTC	ornithine carbamoyltransferase, mitochondrial precursor (ec 2.1.3.3) (otcase) (ornithine transcarbamylase). [swissprot;acc:p00480]	215.667	217.82	1.00998
1934	ADD3	gamma adducin (adducin-like protein 70). [swissprot;acc:q9uey8]	224.264	222.055	1.00995
1935	ABHD2	abhydrolase domain containing protein 2 (protein phps1-2). [swissprot;acc:p08910]	218.43	216.279
1936	CKMT2	creatine kinase, sarcomeric mitochondrial precursor (ec 2.7.3.2) (s- mtck) (mib-ck) (basic-type mitochondrial creatine kinase). [swissprot;acc:p17540]	198.3	196.347
1937	QKI	quaking isoform 6. [sptrembl;acc:q9p0x9]	218.43	216.279
1938	no value	creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532]	198.293	196.341	1.00994
1939	PPIH	peptidyl prolyl isomerase h; cyclophilin h. [refseq;acc:nm_006347]	198.258	196.319	1.00988
1940	CKB	creatine kinase, b chain (ec 2.7.3.2) (b-ck). [swissprot;acc:p12277]	198.19	196.252
1941	PRPF18	prp18 pre-mrna processing factor 18 homolog. [refseq;acc:nm_003675]	198.258	196.319
1942	C21orf55	j domain protein c21orf55. [swissprot;acc:q9nx36]	198.257		1.00987
1943	MEGF11	megf11 protein. [refseq;acc:nm_032445]	224.34	222.147
1944	MEGF10	megf10 protein. [refseq;acc:nm_032446]	224.341	222.148
1945	ADD2	beta adducin (erythrocyte adducin beta subunit). [swissprot;acc:p35612]	224.343	222.151
1946	NFIL3	nuclear factor, interleukin 3 regulated. [refseq;acc:nm_005384]	214.234	212.142	1.00986
1947	PPP1R2	protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236]	125.845	127.083	1.00984
1948	no value	15 kda selenoprotein precursor. [swissprot;acc:o60613]	214.522	212.432
1949	RBPMS	rna-binding protein with multiple splicing (rbp-ms). [swissprot;acc:q93062]	218.794	216.663
1950	VPS18	vacuolar protein sorting 18 (hvps18). [swissprot;acc:q9p253]	215.847	213.747	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
- Hugo is the HGNC identifier if it exists
- 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.