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

Results: HTML CSV LaTeX

Showing element 1613 to 1662 of 3228 in total

Network Comparison Type	Divided
Value Type	Ranked
Interaction Map	High confidence
Filtered	1

description	Rank	red	green	network_comparison	
melanoma antigen recognized by t cells 2. [source:refseq;acc:nm_018194]	2495	194.527	195.08	1.00284	
melanoma antigen, family b, 6. [source:refseq;acc:nm_173523]	93	88.2482	110.265	1.24949	
melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [source:refseq;acc:nm_030801]	83	88.2482	110.265	1.24949	
melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [source:swissprot;acc:p43355]	99	88.2482	110.265	1.24949	
melanoma-associated antigen 10 (mage-10 antigen). [source:swissprot;acc:p43363]	100	88.2482	110.265	1.24949	
melanoma-associated antigen 11 (mage-11 antigen). [source:swissprot;acc:p43364]	86	88.2482	110.265	1.24949	
melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [source:swissprot;acc:p43365]	98	88.2482	110.265	1.24949	
melanoma-associated antigen 2 (mage-2 antigen). [source:swissprot;acc:p43356]	87	88.2482	110.265	1.24949	
melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [source:swissprot;acc:p43357]	85	88.2482	110.265	1.24949	
melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [source:swissprot;acc:p43358]	94	88.2482	110.265	1.24949	
melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [source:swissprot;acc:p43360]	89	88.2482	110.265	1.24949	
melanoma-associated antigen 8 (mage-8 antigen). [source:swissprot;acc:p43361]	96	88.2482	110.265	1.24949	
melanoma-associated antigen 9 (mage-9 antigen). [source:swissprot;acc:p43362]	95	88.2482	110.265	1.24949	
melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [source:swissprot;acc:p43366]	101	88.2482	110.265	1.24949	
melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [source:swissprot;acc:o60732]	97	88.2482	110.265	1.24949	
melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [source:swissprot;acc:q9y5v3]	91	88.2482	110.265	1.24949	
melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [source:swissprot;acc:q9unf1]	102	88.2482	110.265	1.24949	
melanoma-associated antigen f1 (mage-f1 antigen). [source:swissprot;acc:q9hay2]	92	88.2482	110.265	1.24949	
membrane protein expressed in epithelial-like lung adenocarcinoma. [source:refseq;acc:nm_024792]	2589	212.74	212.422	1.0015	
membrane-associated nucleic acid binding protein. [source:refseq;acc:nm_018835]	1393	218.47	213.875	1.02148	
membrane-associated transporter protein (aim-1 protein) (melanoma antigen aim1). [source:swissprot;acc:q9umx9]	533	250.942	235.004	1.06782	
membrane-bound transcription factor site 2 protease (ec 3.4.24.-) (site-2 protease) (sterol-regulatory element-binding proteins intramembrane protease). [source:swissprot;acc:o43462]	3215	0.00001	0.00001	1	
mesoderm induction early response 1. [source:refseq;acc:nm_020948]	2426	212.374	211.618	1.00357	
metabotropic glutamate receptor 2 precursor (mglur2). [source:swissprot;acc:q14416]	2558	222.658	223.047	1.00175	
metabotropic glutamate receptor 3 precursor (mglur3). [source:swissprot;acc:q14832]	2559	222.658	223.047	1.00175	
metalloprotease 1; metalloprotease 1 (pitrilysin family). [source:refseq;acc:nm_014889]	300	150.959	166.351	1.10196	
metastasis-associated protein mta1. [source:swissprot;acc:q13330]	280	252.512	228.356	1.10578	
metaxin 1. [source:swissprot;acc:q13505]	1151	199.552	204.925	1.02693	
metaxin 2. [source:swissprot;acc:o75431]	517	219.537	234.793	1.06949	
methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [source:swissprot;acc:p53582]	314	244.126	268.604	1.10027	
methionine aminopeptidase 2 (ec 3.4.11.18) (metap 2) (peptidase m 2) (initiation factor 2 associated 67 kda glycoprotein) (p67) (p67eif2). [source:swissprot;acc:p50579]	315	244.126	268.604	1.10027	
methionyl-trna formyltransferase, mitochondrial precursor (ec 2.1.2.9) (mtfmt). [source:swissprot;acc:q96dp5]	2325	221.728	220.685	1.00473	
methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [source:swissprot;acc:p56192]	648	218.227	206.078	1.05895	
methylenetetrahydrofolate reductase (ec 1.5.1.20). [source:swissprot;acc:p42898]	2434	213.021	212.286	1.00346	
methylmalonate-semialdehyde dehydrogenase [acylating], mitochondrial precursor (ec 1.2.1.27) (mmsdh). [source:swissprot;acc:q02252]	1962	211.632	213.702	1.00978	
methyltransferase like 2. [source:refseq;acc:nm_018396]	846	147.211	153.371	1.04184	
mevalonate kinase (ec 2.7.1.36) (mk). [source:swissprot;acc:q03426]	725	235.296	247.673	1.0526	
microfibril-associated glycoprotein 4 precursor. [source:swissprot;acc:p55083]	38	322	253	1.27273	
microfibrillar-associated protein 1. [source:swissprot;acc:p55081]	2949	0.00001	0.00001	1	
microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [source:swissprot;acc:p21378]	927	217.942	210.139	1.03713	
microsomal signal peptidase 25 kda subunit (ec 3.4.-.-) (spase 25 kda subunit) (spc25). [source:swissprot;acc:q15005]	754	224.434	235.583	1.04968	
microtubule-actin crosslinking factor 1, isoform 4. [source:swissprot;acc:q96pk2]	448	228.468	246.338	1.07822	
microtubule-associated protein 4 (map 4). [source:swissprot;acc:p27816]	602	206.274	218.792	1.06069	
microtubule-associated protein rp/eb family member 1 (apc-binding protein eb1). [source:swissprot;acc:q15691]	2719	216.52	216.632	1.00052	
microtubule-associated protein rp/eb family member 3 (protein eb3). [source:swissprot;acc:q9upy8]	2720	216.52	216.633	1.00052	
microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [source:refseq;acc:nm_014268]	2717	216.521	216.634	1.00052	
microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [source:swissprot;acc:q9h492]	16	56.7252	75.3954	1.32913	
microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [source:swissprot;acc:q9gzq8]	15	56.7244	75.3948	1.32914	
microtubule-interacting protein that associates with traf3; interleukin 13 receptor alpha 1-binding protein-1. [source:refseq;acc:nm_015650]	2880	0.00001	0.00001	1	
midasin (midas-containing protein). [source:swissprot;acc:q9nu22]	919	237.218	228.698	1.03725	

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/