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	Network Comparison Type	description	Interaction Map	network_comparison	red	Filtered	green

Results: HTML CSV LaTeX

Showing element 101 to 150 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Value Type	Network Comparison Type	description	network_comparison	red	green
13	Squared	Divided	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	10.3414	37.5863	388.696
		Subtracted	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	89286	219048	129762
	Rooted	Divided	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	1.79326	19.9625	35.798
		Subtracted	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	21.0555	80.4705	101.526
14	Measured	Divided	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	3.21581	398.5	1281.5
		Subtracted	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	6313	21591.5	27904.5
	Ranked	Divided	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	1.32952	56.6768	75.3531
		Subtracted	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150]	69.328	266.863	336.191
	Squared	Divided	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	10.3414	37.5863	388.696
		Subtracted	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	89286	219048	129762
	Rooted	Divided	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	1.79326	19.9625	35.798
		Subtracted	spermatogenesis associated 6. [refseq;acc:nm_019073]	21.0555	80.4705	101.526
15	Measured	Divided	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	3.06659	2671	871
		Subtracted	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	6313	21591.5	27904.5
	Ranked	Divided	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	1.32914	56.7244	75.3948
		Subtracted	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798]	69.327	266.863	336.19
	Squared	Divided	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	9.40399	1688.58	179.56
		Subtracted	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	89286	219048	129762
	Rooted	Divided	gbp protein isoform a. [refseq;acc:nm_017870]	1.77158	23.9771	42.4773
		Subtracted	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]	21.0555	80.4705	101.526
16	Measured	Divided	protein x 0004. [refseq;acc:nm_016301]	3.06659	2671	871
		Subtracted	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	6088.2	24260.3	18172.1
	Ranked	Divided	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	1.32913	56.7252	75.3954
		Subtracted	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08]	69.32	266.864	336.184
	Squared	Divided	protein x 0004. [refseq;acc:nm_016301]	9.40399	1688.58	179.56
		Subtracted	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	89286	219048	129762
	Rooted	Divided	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	1.75117	51.6817	29.5127
		Subtracted	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]	21.035	203.673	182.638
17	Measured	Divided	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	2.96739	460	1365
		Subtracted	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	6086.8	24255.7	18168.9
	Ranked	Divided	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	1.32866	56.7841	75.447
		Subtracted	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670]	69.318	266.864	336.182
	Squared	Divided	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	8.80542	50.0828	441
		Subtracted	necdin. [swissprot;acc:q99608]	89286	219048	129762
	Rooted	Divided	protein x 0004. [refseq;acc:nm_016301]	1.75117	51.6817	29.5127
		Subtracted	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]	21.035	203.673	182.638
18	Measured	Divided	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	2.75351	677.5	1865.5
		Subtracted	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	6086.8	24255.7	18168.9
	Ranked	Divided	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	1.32082	185.678	245.247
		Subtracted	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151]	69.316	266.865	336.181
	Squared	Divided	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]	7.58176	108.641	823.69
		Subtracted	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	89286	219048	129762
	Rooted	Divided	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	1.72261	21.4476	36.9459
		Subtracted	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]	21.035	203.673	182.638
19	Measured	Divided	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	2.75351	677.5	1865.5
		Subtracted	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	6085.1	24250	18164.9
	Ranked	Divided	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	1.32082	185.678	245.247
		Subtracted	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]	69.313	266.865	336.178
	Squared	Divided	microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]	7.58176	108.641	823.69
		Subtracted	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	89286	219048	129762

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.