Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2301 to 2350 of 6456 in total 
Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
1151	alpha-centractin (centractin) (centrosome-associated actin homolog) (actin-rpv) (arp1). [source:swissprot;acc:p42024]	Divided	5322.74	5793.15	1.08838	
1151	dopachrome tautomerase precursor (ec 5.3.3.12) (dt) (dct) (dopachrome delta-isomerase) (tyrosinase-related protein 2) (trp-2) (trp2). [source:swissprot;acc:p40126]	Subtracted	5998.58	6509.65	511.07	
1152	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). [source:swissprot;acc:p17643]	Subtracted	5998.69	6509.74	511.05	
1152	beta-centractin (actin-related protein 1b) (arp1b). [source:swissprot;acc:p42025]	Divided	5322.74	5793.15	1.08838	
1153	meiotic recombination protein dmc1/lim15 homolog. [source:swissprot;acc:q14565]	Subtracted	5913.73	6423.98	510.25	
1153	swi/snf related, matrix associated, actin dependent regulator of chromatin subfamily b member 1 (integrase interactor 1 protein) (hsnf5) (baf47). [source:swissprot;acc:q12824]	Divided	5840.01	6355.56	1.08828	
1154	tumor necrosis factor, alpha-induced protein 1, endothelial (b12 protein). [source:swissprot;acc:q13829]	Divided	5840.65	6355.84	1.08821	
1154	tyrosinase precursor (ec 1.14.18.1) (monophenol monooxygenase) (tumor rejection antigen ab) (sk29-ab) (lb24-ab). [source:swissprot;acc:p14679]	Subtracted	6004.54	6514.24	509.7	
1155	transducin-like enhancer protein 4. [source:swissprot;acc:q04727]	Divided	6270.67	6823.73	1.0882	
1155	ubiquitin-like protein smt3a. [source:swissprot;acc:p55854]	Subtracted	5826.34	6335.98	509.64	
1156	polymerase delta-interacting protein 1; tnfaip1-like. [source:refseq;acc:nm_178863]	Divided	5840.77	6355.89	1.08819	
1156	ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [source:swissprot;acc:p55855]	Subtracted	5826.29	6335.93	509.64	
1157	acrc protein; putative nuclear protein. [source:refseq;acc:nm_052957]	Subtracted	5826.32	6335.95	509.63	
1157	serine hydroxymethyltransferase, cytosolic (ec 2.1.2.1) (serine methylase) (glycine hydroxymethyltransferase) (shmt). [source:swissprot;acc:p34896]	Divided	5418.33	5895.2	1.08801	
1158	delta-aminolevulinic acid dehydratase (ec 4.2.1.24) (porphobilinogen synthase) (aladh). [source:swissprot;acc:p13716]	Divided	5489.18	5972.09	1.08797	
1158	pinin, desmosome associated protein; pinin. [source:refseq;acc:nm_002687]	Subtracted	5973.95	6483.32	509.37	
1159	eukaryotic translation initiation factor 3 subunit 2 (eif-3 beta) (eif3 p36) (eif3i) (tgf-beta receptor interacting protein 1) (trip-1). [source:swissprot;acc:q13347]	Subtracted	3975.77	4485.05	509.28	
1159	kccr13l. [source:refseq;acc:nm_139179]	Divided	5538.8	6025.51	1.08787	
1160	dna repair protein rad51 homolog 1 (hrad51) (hsrad51). [source:swissprot;acc:q06609]	Divided	5538.8	6025.51	1.08787	
1160	trinucleotide repeat containing 15. [source:refseq;acc:nm_015575]	Subtracted	3975.77	4485.05	509.28	
1161	autoantigen ngp-1. [source:swissprot;acc:q13823]	Subtracted	3766.14	4274.79	508.65	
1161	n-acetyltransferase 5 (ec 2.3.1.-). [source:swissprot;acc:q9y6d2]	Divided	5315.76	5782.63	1.08783	
1162	chaperone-activity of bc1 complex-like, mitochondrial precursor (chaperone-abc1-like). [source:swissprot;acc:q8ni60]	Subtracted	5799.35	6305.95	506.6	
1162	nemo-like kinase; likely ortholog of mouse nemo like kinase. [source:refseq;acc:nm_016231]	Divided	5832.13	6343.59	1.0877	
1163	aarf domain containing kinase 2; putative ubiquinone biosynthesis protein aarf. [source:refseq;acc:nm_052853]	Subtracted	5799.35	6305.95	506.6	
1163	elks protein. [source:refseq;acc:nm_015064]	Divided	5832.13	6343.59	1.0877	
1164	aarf domain containing kinase 4. [source:refseq;acc:nm_024876]	Subtracted	5799.35	6305.95	506.6	
1164	sodium/iodide cotransporter (na(+)/i(-) cotransporter) (sodium-iodide symporter) (na+/i-symporter). [source:swissprot;acc:q92911]	Divided	6600.36	7178.84	1.08764	
1165	aarf domain containing kinase 1. [source:refseq;acc:nm_020421]	Subtracted	5799.35	6305.95	506.6	
1165	kidney and liver proline oxidase 1. [source:refseq;acc:nm_021232]	Divided	6604.44	7183.07	1.08761	
1166	exocyst complex component sec8. [source:swissprot;acc:q96a65]	Subtracted	6221.22	6727.77	506.55	
1166	solute carrier family 5 (iodide transporter), member 8; apical iodide transporter. [source:refseq;acc:nm_145913]	Divided	6606.3	7185.01	1.0876	
1167	myb proto-oncogene protein (c-myb). [source:swissprot;acc:p10242]	Subtracted	5417.95	5924.41	506.46	
1167	sodium-dependent multivitamin transporter (na(+)-dependent multivitamin transporter). [source:swissprot;acc:q9y289]	Divided	6607.68	7186.45	1.08759	
1168	elongation factor 2 (ef-2). [source:swissprot;acc:p13639]	Subtracted	5494.73	6001.08	506.35	
1168	mitotic checkpoint protein bub3. [source:swissprot;acc:o43684]	Divided	5470.44	5949.49	1.08757	
1169	metabotropic glutamate receptor 2 precursor (mglur2). [source:swissprot;acc:q14416]	Subtracted	5494.73	6001.08	506.35	
1169	zinc finger protein 207. [source:swissprot;acc:o43670]	Divided	5470.44	5949.49	1.08757	
1170	metabotropic glutamate receptor 3 precursor (mglur3). [source:swissprot;acc:q14832]	Subtracted	5494.73	6001.08	506.35	
1170	ubiquitin-like protein smt3a. [source:swissprot;acc:p55854]	Divided	5826.34	6335.98	1.08747	
1171	red cell acid phosphatase 1, isozyme f (ec 3.1.3.2) (acp1) (low molecular weight phosphotyrosine protein phosphatase) (ec 3.1.3.48) (adipocyte acid phosphatase, isozyme alpha). [source:swissprot;acc:p24666]	Subtracted	4986.58	5492.51	505.93	
1171	ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [source:swissprot;acc:p55855]	Divided	5826.29	6335.93	1.08747	
1172	acrc protein; putative nuclear protein. [source:refseq;acc:nm_052957]	Divided	5826.32	6335.95	1.08747	
1172	branched-chain amino acid aminotransferase, cytosolic (ec 2.6.1.42) (bcat(c)) (eca39 protein). [source:swissprot;acc:p54687]	Subtracted	5890.62	6396.53	505.91	
1173	branched-chain amino acid aminotransferase, mitochondrial precursor (ec 2.6.1.42) (bcat(m)) (placental protein 18) (pp18). [source:swissprot;acc:o15382]	Subtracted	5892.05	6397.28	505.23	
1173	chaperone-activity of bc1 complex-like, mitochondrial precursor (chaperone-abc1-like). [source:swissprot;acc:q8ni60]	Divided	5799.35	6305.95	1.08735	
1174	cda11 protein. [source:refseq;acc:nm_032026]	Divided	5874.11	6387.23	1.08735	
1174	histone h3.3 (h3.a) (h3.b) (h3.3q). [source:swissprot;acc:p06351]	Subtracted	4088.63	4593.43	504.8	
1175	aarf domain containing kinase 2; putative ubiquinone biosynthesis protein aarf. [source:refseq;acc:nm_052853]	Divided	5799.35	6305.95	1.08735	
1175	dj1099d15.1 (putative dnaj protein). [source:sptrembl;acc:q9h4j9]	Subtracted	4088.63	4593.43	504.8	

Legend:
- Rank is the rank after comparing the two networks
- 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.
- http://analysis.yellowcouch.org/