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	green	network_comparison	description	Network Comparison Type	Interaction Map	Filtered	red

Results: HTML CSV LaTeX

Showing element 401 to 450 of 19268 in total

Value Type  : Measured

Rank	green	network_comparison	description	Network Comparison Type	Interaction Map	Filtered	red
51	88	2.21591	histone-lysine n-methyltransferase, h3 lysine-79 specific (ec 2.1.1.43) (histone h3-k79 methyltransferase) (h3-k79-hmtase) (dot1-like protein). [swissprot;acc:q8tek3]	Divided	Low confidence	0	195
	88.5622	2.0824	ribose-phosphate pyrophosphokinase iii (ec 2.7.6.1) (phosphoribosyl pyrophosphate synthetase iii) (prs-iii). [swissprot;acc:p21108]		High confidence		184.422
	1390.33	1.78438	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]			1	779.167
	1976.69	383.57	zinc finger protein 75. [swissprot;acc:p51815]	Subtracted	Low confidence	0	2360.26
	5469.68	507.34	sorting nexin 9 (sh3 and px domain-containing protein 1) (sdp1 protein). [swissprot;acc:q9y5x1]		High confidence		4962.34
	8732.2	1.15458	dj310o13.4 (novel protein similar to predicted c. elegans and c. intestinalis proteins) (fragment). [sptrembl;acc:q9nug5]	Divided	Low confidence	1	7563.09
	11571.4	1196.6	ena/vasodilator stimulated phosphoprotein-like protein (ena/vasp-like protein). [swissprot;acc:q9ui08]	Subtracted			12768
	19479.8	4160.4	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]		High confidence		23640.2
52	112.523	2.20126	fos39347_1. [sptrembl;acc:o75863]	Divided	Low confidence	0	247.692
	481.725	2.07438	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]		High confidence		999.28
	1390.33	1.78438	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]			1	779.167
	1729.7	500.43	udp-glucuronosyltransferase 2b17 precursor, microsomal (ec 2.4.1.17) (udpgt) (c19-steroid specific udp-glucuronosyltransferase). [swissprot;acc:o75795]	Subtracted		0	2230.13
	1976.61	383.57	putative zinc finger protein (fragment). [sptrembl;acc:q8n692]		Low confidence		2360.18
	8732.2	1169.11	dj310o13.4 (novel protein similar to predicted c. elegans and c. intestinalis proteins) (fragment). [sptrembl;acc:q9nug5]			1	7563.09
	11486.4	1.14883	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Divided			13195.9
	19380.3	4042.1	cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6]	Subtracted	High confidence		23422.4
53	112.931	2.18859	dj254p11.1 (novel protein similar to rna polymerase ii elongation factor siii, subunit p15). [sptrembl;acc:q9h575]	Divided	Low confidence	0	247.16
	861.814	2.05016	muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446]		High confidence		420.365
	1390.33	1.78438	cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [swissprot;acc:o14519]			1	779.167
	1729.7	500.43	udp-glucuronosyltransferase 2b11 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:o75310]	Subtracted		0	2230.13
	1976.61	383.57	zinc finger y-chromosomal protein. [swissprot;acc:p08048]		Low confidence		2360.18
	4691.96	1155.5	histidine triad nucleotide-binding protein 1 (adenosine 5'- monophosphoramidase) (protein kinase c inhibitor 1) (protein kinase c- interacting protein 1) (pkci-1). [swissprot;acc:p49773]			1	5847.46
	5659.35	1.14207	bcl2-related ovarian killer. [refseq;acc:nm_032515]	Divided			4955.33
	19296.4	4030.1	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	Subtracted	High confidence		23326.5
54	170.038	2.1783	l-lactate dehydrogenase a chain (ec 1.1.1.27) (ldh-a) (ldh muscle subunit) (ldh-m). [swissprot;acc:p00338]	Divided	Low confidence	0	78.06
	330.189	1.93484	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]		High confidence		638.862
	1729.7	500.43	udp-glucuronosyltransferase 2b4 precursor, microsomal (ec 2.4.1.17) (udpgt) (hyodeoxycholic acid) (hlug25) (udpgth-1). [swissprot;acc:p06133]	Subtracted			2230.13
	1976.33	383.55	zinc finger-like protein (fragment). [sptrembl;acc:q9uia8]		Low confidence		2359.88
	2651.88	1.63814	deltex 2. [refseq;acc:nm_020892]	Divided	High confidence	1	1618.84
	4577.5	1142.75	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]	Subtracted	Low confidence		5720.25
	15033.4	1.13859	septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599]	Divided			13203.5
	19288.8	4027.2	exocyst complex component sec5. [swissprot;acc:q96kp1]	Subtracted	High confidence		23316
55	327.517	1.92644	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	Divided		0	630.942
	379.277	2.17326	selenoprotein t. [swissprot;acc:q9nzj3]		Low confidence		174.52
	1729.7	500.43	glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [swissprot;acc:q07075]	Subtracted	High confidence		2230.13
	1976.2	383.54	ttf-i interacting peptide 20 (fragment). [sptrembl;acc:o00455]		Low confidence		2359.74
	2662.12	1.63399	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]	Divided	High confidence	1	1629.21
	7593.77	1131.68	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]	Subtracted	Low confidence		6462.09
	14872.6	1.13694	septin 10 isoform 1. [refseq;acc:nm_144710]	Divided			13081.2
	19279.5	4023.6	poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3]	Subtracted	High confidence		23303.1
56	142.981	1.89874	tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677]	Divided		0	271.484
	438.605	2.1673	tigger transposable element derived 6. [refseq;acc:nm_030953]		Low confidence		202.374
	1729.7	500.43	udp-glucuronosyltransferase 2b10 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:p36537]	Subtracted	High confidence		2230.13
	1976.03	383.52	zinc finger protein 77 (znfpt1) (fragment). [swissprot;acc:q15935]		Low confidence		2359.55
	2664.55	1.63302	t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [refseq;acc:nm_018492]	Divided	High confidence	1	1631.67
	7593.77	1131.68	jun dimerization protein. [refseq;acc:nm_130469]	Subtracted	Low confidence		6462.09
	17572.7	1.13635	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Divided			15464.1
	24908.5	3997.5	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	Subtracted	High confidence		20911
57	142.417	1.89769	5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643]	Divided		0	270.264
	438.035	2.16674	tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208]		Low confidence		202.163

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.