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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 12912 in total

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

Rank	Hugo	Value Type	description	red	green	network_comparison
13	CPEB3	Rooted	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	19.9625	35.798	1.79326
	UFC1	Ranked	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	288.754	212.554	1.3585
14	ATG4A		cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	56.6768	75.3531	1.32952
	RASAL2	Measured	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	398.5	1281.5	3.21581
		Squared		37.5863	388.696	10.3414
		Rooted		19.9625	35.798	1.79326
15	MAP1LC3B	Ranked	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	56.7244	75.3948	1.32914
	TMEM132A	Rooted	gbp protein isoform a. [refseq;acc:nm_017870]	23.9771	42.4773	1.77158
	XAB1	Measured	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	2671	871	3.06659
		Squared		1688.58	179.56	9.40399
16	ATPBD1C	Measured	protein x 0004. [refseq;acc:nm_016301]	2671	871	3.06659
		Squared		1688.58	179.56	9.40399
	MAP1LC3A	Ranked	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	56.7252	75.3954	1.32913
	XAB1	Rooted	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	51.6817	29.5127	1.75117
17	ATG4B	Ranked	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	56.7841	75.447	1.32866
	ATPBD1C	Rooted	protein x 0004. [refseq;acc:nm_016301]	51.6817	29.5127	1.75117
	DGCR14	Measured	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	460	1365	2.96739
		Squared		50.0828	441	8.80542
18		Rooted		21.4476	36.9459	1.72261
	GBE1	Ranked	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	185.678	245.247	1.32082
	PPP1R14A	Measured	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	677.5	1865.5	2.75351
		Squared		108.641	823.69	7.58176
19	MFAP4	Measured	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	677.5	1865.5	2.75351
		Squared		108.641	823.69	7.58176
	PRKRAP1	Rooted	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690]	25.6987	43.561	1.69507
	PYGB	Ranked	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	185.678	245.247	1.32082
20	no value	Rooted	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]	40.3337	24.2744	1.66157
	PPP1R14D	Measured	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]	677.5	1865.5	2.75351
		Squared		108.641	823.69	7.58176
	PYGL	Ranked	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	185.678	245.247	1.32082
21	FCN2	Measured	ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]	677.5	1865.5	2.75351
		Squared		108.641	823.69	7.58176
	GNG12	Rooted	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]	40.3337	24.2744	1.66157
	MYO15A	Ranked	myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]	185.678	245.247	1.32082
22	no value	Measured	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	677.5	1865.5	2.75351
		Squared		108.641	823.69	7.58176
	GNG4	Rooted	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150]	40.3357	24.2915	1.66049
	PYGM	Ranked	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]	185.678	245.247	1.32082
23	GNG3	Rooted	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798]	40.3358	24.2919	1.66046
	MRPS17	Ranked	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	58	44	1.31818
	NEUROD2	Squared	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	143.692	457.521	3.18404
	TMEM132A	Measured	gbp protein isoform a. [refseq;acc:nm_017870]	699.76	1894.39	2.7072
24	CHD3	Squared	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]	143.692	457.521	3.18404
	GNG8	Rooted	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08]	40.336	24.2941	1.66032
	PANK1	Ranked	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	58	44	1.31818
	PRKRAP1	Measured	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690]	950.561	2108.52	2.21818
25	no value		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]	1833.01	892.67	2.0534
	CDK2AP2	Squared	doc-1 related protein (doc-1r). [swissprot;acc:o75956]	143.692	457.521	3.18404
	GNG5	Rooted	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670]	40.3361	24.295	1.66026
	PANK2	Ranked	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	58	44	1.31818

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.