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

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

Results: HTML CSV LaTeX

Showing element 2480 to 2529 of 12912 in total

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

Rank	Value Type	Hugo	description	red	green	network_comparison
620	Rooted	CPXM2	potential carboxypeptidase-like protein x2 precursor. [swissprot;acc:q8n436]	63.847	68.8873	1.07894
621	Measured	FTSJ3	ftsj homolog 3; likely ortholog of mouse ectoplacental cone, invasive trophoblast giant cells, extraembryonic ectoderm and chorion sequence 3. [refseq;acc:nm_017647]	4115.39	4633.96	1.12601
	Ranked	GABRA2	gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p47869]	214.256	202.14	1.05994
	Squared	NDUFA6	nadh-ubiquinone oxidoreductase b14 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b14) (ci-b14). [swissprot;acc:p56556]	32193.3	37967.7	1.17937
	Rooted	CPN1	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]	63.847	68.8873	1.07894
622	Measured	FTMT	mitochondrial ferritin; ferritin heavy chain-like; ferritin h subunit. [refseq;acc:nm_177478]	6228.42	7013.21	1.126
	Ranked	GABRA6	gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [swissprot;acc:q16445]	214.256	202.14	1.05994
	Squared	GABRG3	gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928]	32192.5	37966.8	1.17937
	Rooted	CPZ	cpz gene product. [refseq;acc:nm_003652]	63.847	68.8873	1.07894
623	Measured	CREG2	cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836]	6228.39	7013.19	1.126
	Ranked	GABRG2	gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507]	214.256	202.14	1.05994
	Squared	PDXDC1	similar to expressed sequence aa415817. [sptrembl;acc:q8n4q9]	32193.3	37967.7	1.17937
	Rooted	CPE	carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870]	63.847	68.8873	1.07894
624	Measured	no value	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]	6228.39	7013.19	1.126
	Ranked		interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123]	214.256	202.139	1.05994
	Squared	FOXG1	forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488]	32192.5	37966.8	1.17937
	Rooted	CPXM1	potential carboxypeptidase x precursor (ec 3.4.17.-) (metallocarboxypeptidase cpx-1). [swissprot;acc:q96sm3]	63.847	68.8873	1.07894
625	Measured	DLGAP1	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]	6228.39	7013.19	1.126
	Ranked	GABRA4	gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [swissprot;acc:p48169]	214.256	202.14	1.05994
	Squared	GABRG1	gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [swissprot;acc:q8n1c3]	32192.6	37966.9	1.17937
	Rooted	HTRA2	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]	59.6678	64.3767	1.07892
626	Measured	AHCYL1	putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865]	6228.39	7013.19	1.126
	Ranked	GABRE	gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [swissprot;acc:p78334]	214.256	202.14	1.05994
	Squared	GABRA2	gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p47869]	32192.8	37967.1	1.17937
	Rooted	HTRA3	probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110]	59.6673	64.3742	1.07889
627	Measured	KIAA0430	limkain b1. [refseq;acc:nm_019081]	6228.39	7013.19	1.126
	Ranked	JMJD6	phosphatidylserine receptor; phosphatidylserine receptor beta. [refseq;acc:nm_015167]	214.256	202.139	1.05994
	Squared	GABRA6	gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [swissprot;acc:q16445]	32192.8	37967.1	1.17937
	Rooted	HTRA4	probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105]	59.6674	64.3747	1.07889
628	Measured	no value	putative adenosylhomocysteinase 3 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:q96hn2]	6228.39	7013.19	1.126
	Ranked	GABRA1	gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [swissprot;acc:p14867]	214.256	202.14	1.05994
	Squared	GABRG2	gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507]	32192.6	37966.9	1.17937
	Rooted	HTRA1	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	59.6661	64.3692	1.07882
629	Measured	CREG1	cellular repressor of e1a-stimulated genes. [refseq;acc:nm_003851]	6228.39	7013.19	1.126
	Ranked	GABRA3	gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [swissprot;acc:p34903]	214.256	202.14	1.05994
	Squared	no value	interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123]	32192.5	37966.8	1.17937
	Rooted	SYN3	synapsin iii. [swissprot;acc:o14994]	60.0129	64.7371	1.07872
630	Measured	DLGAP3	disks large-associated protein 3 (dap-3) (sap90/psd-95-associated protein 3) (sapap3) (psd-95/sap90 binding protein 3) (fragment). [swissprot;acc:o95886]	6228.39	7013.19	1.126
	Ranked	NDUFA6	nadh-ubiquinone oxidoreductase b14 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b14) (ci-b14). [swissprot;acc:p56556]	214.256	202.141	1.05993
	Squared	GABRA4	gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [swissprot;acc:p48169]	32192.8	37967.1	1.17937
	Rooted	no value	aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468]	60.0129	64.7371	1.07872
631	Measured	KNG1	kininogen precursor (alpha-2-thiol proteinase inhibitor) [contains: bradykinin]. [swissprot;acc:p01042]	6228.39	7013.19	1.126
	Ranked	PDXDC1	similar to expressed sequence aa415817. [sptrembl;acc:q8n4q9]	214.256	202.141	1.05993
	Squared	GABRE	gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [swissprot;acc:p78334]	32192.8	37967.1	1.17937
	Rooted	HEY1	hairy/enhancer-of-split related with yrpw motif 1 (hairy and enhancer of split related-1) (hesr-1) (cardiovascular helix-loop-helix factor 2) (hes-related repressor protein 2 herp2). [swissprot;acc:q9y5j3]	60.0129	64.7371	1.07872
632	Measured	no value	disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6]	6228.39	7013.19	1.126
	Ranked	HOXD9	homeobox protein hox-d9 (hox-4c) (hox-5.2). [swissprot;acc:p28356]	214.254	202.166	1.05979
	Squared	JMJD6	phosphatidylserine receptor; phosphatidylserine receptor beta. [refseq;acc:nm_015167]	32192.5	37966.8	1.17937
	Rooted	ABLIM2	actin binding lim protein 2. [refseq;acc:nm_032432]	60.0129	64.7371	1.07872
633	Measured	FTL	ferritin light chain (ferritin l subunit). [swissprot;acc:p02792]	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
- 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.