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

Results: HTML CSV LaTeX

Showing element 75 to 124 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	red	network_comparison	green
10	PANK3	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	Measured	Subtracted	21185	7307	28492
	SMPD2	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]	Ranked		288	74	362
	TOB1	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Measured	Divided	398.5	3.21581	1281.5
			Squared		37.5863	10.3414	388.696
			Rooted		19.9625	1.79326	35.798
	XAB1	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]		Subtracted	51.6817	22.169	29.5127
11	ATPBD1C	protein x 0004. [refseq;acc:nm_016301]
	DAB2IP	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	Measured	Divided	398.5	3.21581	1281.5
			Squared		37.5863	10.3414	388.696
			Rooted		19.9625	1.79326	35.798
	MAGEE2	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	Squared	Subtracted	219048	89286	129762
	RINT1	rad50-interacting protein 1. [refseq;acc:nm_021930]	Ranked	Divided	337	1.45259	232
	SLC25A43	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Measured	Subtracted	21185	7307	28492
	TMEM33	db83 protein. [swissprot;acc:p57088]	Ranked		288	74	362
12	no value	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]			266.856	69.377	336.233
		melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Squared		219048	89286	129762
		nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Measured		34190.9	6604.9	40795.8
	ARRB2	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	Rooted		80.4705	21.0555	101.526
	CPEB4	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Measured	Divided	398.5	3.21581	1281.5
			Squared		37.5863	10.3414	388.696
			Rooted		19.9625	1.79326	35.798
	RHOBTB2	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Ranked		337	1.45259	232
13	ARRB1	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	Rooted	Subtracted	80.4705	21.0555	101.526
	CPEB3	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Measured	Divided	398.5	3.21581	1281.5
			Squared		37.5863	10.3414	388.696
			Rooted		19.9625	1.79326	35.798
	GNG12	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]	Ranked	Subtracted	266.856	69.377	336.233
	MAGEA11	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	Squared		219048	89286	129762
	MYO5B	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]	Measured		21591.5	6313	27904.5
	UFC1	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	Ranked	Divided	288.754	1.3585	212.554
14	ATG4A	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]			56.6768	1.32952	75.3531
	GNG4	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150]		Subtracted	266.863	69.328	336.191
	MAGEA2B	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	Squared		219048	89286	129762
	MYO5C	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	Measured		21591.5	6313	27904.5
	RASAL2	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]		Divided	398.5	3.21581	1281.5
			Squared		37.5863	10.3414	388.696
			Rooted		19.9625	1.79326	35.798
	SPATA6	spermatogenesis associated 6. [refseq;acc:nm_019073]		Subtracted	80.4705	21.0555	101.526
15	no value	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	Squared		219048	89286	129762
		myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	Measured		21591.5	6313	27904.5
	AMPD2	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]	Rooted		80.4705	21.0555	101.526
	GNG3	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798]	Ranked		266.863	69.327	336.19
	MAP1LC3B	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]		Divided	56.7244	1.32914	75.3948
	TMEM132A	gbp protein isoform a. [refseq;acc:nm_017870]	Rooted		23.9771	1.77158	42.4773
	XAB1	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Measured		2671	3.06659	871
			Squared		1688.58	9.40399	179.56
16	no value	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]	Rooted	Subtracted	203.673	21.035	182.638
	ATG4A	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Measured		24260.3	6088.2	18172.1
	ATPBD1C	protein x 0004. [refseq;acc:nm_016301]		Divided	2671	3.06659	871
			Squared		1688.58	9.40399	179.56

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.