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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

Results: HTML CSV LaTeX

Showing element 2462 to 2511 of 12912 in total

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

Rank	description	Value Type	red	green	network_comparison
616	coatomer zeta-1 subunit (zeta-1 coat protein) (zeta-1 cop) (cgi-120) (hspc181). [swissprot;acc:q9y3c3]	Squared	51527.6	43689.1	1.17942
	homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269]	Ranked	214.257	202.132	1.05999
	nadh-ubiquinone oxidoreductase 23 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-23kd) (ci-23kd) (tyky subunit). [swissprot;acc:o00217]	Rooted	57.2007	61.7615	1.07973
617	coatomer delta subunit (delta-coat protein) (delta-cop) (archain). [swissprot;acc:p48444]	Squared	51527.6	43689.1	1.17942
	dynein intermediate chain 1, cytosolic (dh ic-1) (cytoplasmic dynein intermediate chain 1). [swissprot;acc:o14576]	Measured	5162.52	5822.47	1.12783
	elongation of very long chain fatty acids protein 1 (cgi-88). [swissprot;acc:q9bw60]	Rooted	57.2008	61.7614	1.07973
	homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274]	Ranked	214.257	202.135	1.05997
618	gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928]		214.256	202.139	1.05994
	myc proto-oncogene protein (c-myc). [swissprot;acc:p01106]	Rooted	57.208	61.7592	1.07956
	nucleoside diphosphate kinase 3 (ec 2.7.4.6) (ndk 3) (ndp kinase 3) (nm23-h3) (dr-nm23). [swissprot;acc:q13232]	Measured	7878.27	8879.08	1.12703
	peptidyl-prolyl cis-trans isomerase e (ec 5.2.1.8) (ppiase e) (rotamase e) (cyclophilin e) (cyclophilin 33). [swissprot;acc:q9unp9]	Squared	51527.6	43689.1	1.17942
619	coatomer zeta-2 subunit (zeta-2 coat protein) (zeta-2 cop). [swissprot;acc:q9p299]
	dendritic cell protein. [refseq;acc:nm_006360]	Rooted	63.847	68.8873	1.07894
	forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488]	Ranked	214.256	202.139	1.05994
	nucleolar protein nop56 (nucleolar protein 5a). [swissprot;acc:o00567]	Measured	3879.99	4371.24	1.12661
620	ferritin heavy chain (ferritin h subunit). [swissprot;acc:p02794]		6227.87	7012.9	1.12605
	gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [swissprot;acc:q8n1c3]	Ranked	214.256	202.14	1.05994
	homeobox protein hox-d9 (hox-4c) (hox-5.2). [swissprot;acc:p28356]	Squared	32208.8	37986.6	1.17939
	potential carboxypeptidase-like protein x2 precursor. [swissprot;acc:q8n436]	Rooted	63.847	68.8873	1.07894
621	carboxypeptidase n catalytic chain precursor (ec 3.4.17.3) (arginine carboxypeptidase) (kininase 1) (serum carboxypeptidase n) (scpn) (anaphylatoxin inactivator) (plasma carboxypeptidase b). [swissprot;acc:p15169]
	ftsj homolog 3; likely ortholog of mouse ectoplacental cone, invasive trophoblast giant cells, extraembryonic ectoderm and chorion sequence 3. [refseq;acc:nm_017647]	Measured	4115.39	4633.96	1.12601
	gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p47869]	Ranked	214.256	202.14	1.05994
	nadh-ubiquinone oxidoreductase b14 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b14) (ci-b14). [swissprot;acc:p56556]	Squared	32193.3	37967.7	1.17937
622	cpz gene product. [refseq;acc:nm_003652]	Rooted	63.847	68.8873	1.07894
	gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [swissprot;acc:q16445]	Ranked	214.256	202.14	1.05994
	gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928]	Squared	32192.5	37966.8	1.17937
	mitochondrial ferritin; ferritin heavy chain-like; ferritin h subunit. [refseq;acc:nm_177478]	Measured	6228.42	7013.21	1.126
623	carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870]	Rooted	63.847	68.8873	1.07894
	cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836]	Measured	6228.39	7013.19	1.126
	gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507]	Ranked	214.256	202.14	1.05994
	similar to expressed sequence aa415817. [sptrembl;acc:q8n4q9]	Squared	32193.3	37967.7	1.17937
624	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]	Measured	6228.39	7013.19	1.126
	forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488]	Squared	32192.5	37966.8	1.17937
	interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123]	Ranked	214.256	202.139	1.05994
	potential carboxypeptidase x precursor (ec 3.4.17.-) (metallocarboxypeptidase cpx-1). [swissprot;acc:q96sm3]	Rooted	63.847	68.8873	1.07894
625	disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490]	Measured	6228.39	7013.19	1.126
	gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [swissprot;acc:p48169]	Ranked	214.256	202.14	1.05994
	gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [swissprot;acc:q8n1c3]	Squared	32192.6	37966.9	1.17937
	serine protease htra2, mitochondrial precursor (ec 3.4.21.-) (high temperature requirement protein a2) (htra2) (omi stress-regulated endoprotease) (serine proteinase omi). [swissprot;acc:o43464]	Rooted	59.6678	64.3767	1.07892
626	gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p47869]	Squared	32192.8	37967.1	1.17937
	gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [swissprot;acc:p78334]	Ranked	214.256	202.14	1.05994
	probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110]	Rooted	59.6673	64.3742	1.07889
	putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865]	Measured	6228.39	7013.19	1.126
627	gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [swissprot;acc:q16445]	Squared	32192.8	37967.1	1.17937
	limkain b1. [refseq;acc:nm_019081]	Measured	6228.39	7013.19	1.126
	phosphatidylserine receptor; phosphatidylserine receptor beta. [refseq;acc:nm_015167]	Ranked	214.256	202.139	1.05994
	probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105]	Rooted	59.6674	64.3747	1.07889
628	gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [swissprot;acc:p14867]	Ranked	214.256	202.14	1.05994
	gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507]	Squared	32192.6	37966.9	1.17937
	putative adenosylhomocysteinase 3 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:q96hn2]	Measured	6228.39	7013.19	1.126

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.