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.

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

Results: HTML CSV LaTeX

Showing element 101 to 150 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Value Type	description	Network Comparison Type	red	network_comparison	green
13	Squared	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Divided	37.5863	10.3414	388.696
		melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	Subtracted	219048	89286	129762
	Rooted	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]		80.4705	21.0555	101.526
		cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Divided	19.9625	1.79326	35.798
14	Measured	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	Subtracted	21591.5	6313	27904.5
		ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	Divided	398.5	3.21581	1281.5
	Ranked	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]		56.6768	1.32952	75.3531
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150]	Subtracted	266.863	69.328	336.191
	Squared	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]		219048	89286	129762
		ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	Divided	37.5863	10.3414	388.696
	Rooted			19.9625	1.79326	35.798
		spermatogenesis associated 6. [refseq;acc:nm_019073]	Subtracted	80.4705	21.0555	101.526
15	Measured	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]		21591.5	6313	27904.5
		xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Divided	2671	3.06659	871
	Ranked	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798]	Subtracted	266.863	69.327	336.19
		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
	Squared	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	Subtracted	219048	89286	129762
		xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Divided	1688.58	9.40399	179.56
	Rooted	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]	Subtracted	80.4705	21.0555	101.526
		gbp protein isoform a. [refseq;acc:nm_017870]	Divided	23.9771	1.77158	42.4773
16	Measured	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Subtracted	24260.3	6088.2	18172.1
		protein x 0004. [refseq;acc:nm_016301]	Divided	2671	3.06659	871
	Ranked	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08]	Subtracted	266.864	69.32	336.184
		microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	Divided	56.7252	1.32913	75.3954
	Squared	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	Subtracted	219048	89286	129762
		protein x 0004. [refseq;acc:nm_016301]	Divided	1688.58	9.40399	179.56
	Rooted	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]	Subtracted	203.673	21.035	182.638
		xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Divided	51.6817	1.75117	29.5127
17	Measured	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]		460	2.96739	1365
		microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	Subtracted	24255.7	6086.8	18168.9
	Ranked	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Divided	56.7841	1.32866	75.447
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670]	Subtracted	266.864	69.318	336.182
	Squared	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	Divided	50.0828	8.80542	441
		necdin. [swissprot;acc:q99608]	Subtracted	219048	89286	129762
	Rooted	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]		203.673	21.035	182.638
		protein x 0004. [refseq;acc:nm_016301]	Divided	51.6817	1.75117	29.5127
18	Measured	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	Subtracted	24255.7	6086.8	18168.9
		protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	Divided	677.5	2.75351	1865.5
	Ranked	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]		185.678	1.32082	245.247
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151]	Subtracted	266.865	69.316	336.181
	Squared	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]		219048	89286	129762
		protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	Divided	108.641	7.58176	823.69
	Rooted	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	Subtracted	203.673	21.035	182.638
		dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	Divided	21.4476	1.72261	36.9459
19	Measured	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Subtracted	24250	6085.1	18164.9
		microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	Divided	677.5	2.75351	1865.5
	Ranked	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]		185.678	1.32082	245.247
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]	Subtracted	266.865	69.313	336.178
	Squared	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]		219048	89286	129762
		microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	Divided	108.641	7.58176	823.69

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.