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 Hugo description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2200 to 2249 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	Hugo	description	red	green	network_comparison	
2200	ISL2	insulin gene enhancer protein isl-2 (islet-2). [source:swissprot;acc:q96a47]	196.748	195.466	1.00656	
2201	NSFL1C	p47 protein isoform a. [source:refseq;acc:nm_016143]	213.642	212.254	1.00654	
2202	TSG101	tumor susceptibility gene 101 protein. [source:swissprot;acc:q99816]	195.97	194.7	1.00652	
2203	SYMPK	symplekin. [source:swissprot;acc:q92797]	162.741	163.8	1.00651	
2204	RUVBL2	ruvb-like 2 (ec 3.6.1.-) (48-kda tata box-binding protein-interacting protein) (48-kda tbp-interacting protein) (tip49b) (repressing pontin 52) (reptin 52) (51 kda erythrocyte cytosolic protein) (ecp-51) (tip60-associated protein 54-beta) (tap54-beta) (cgi-46). [source:swissprot;acc:q9y230]	219.377	220.8	1.00649	
2205		60s ribosomal protein l22 (epstein-barr virus small rna associated protein) (eber associated protein) (eap) (heparin binding protein hbp15). [source:swissprot;acc:p35268]	199.129	200.413	1.00645	
2206	VCP	transitional endoplasmic reticulum atpase (ter atpase) (15s mg(2+)- atpase p97 subunit) (valosin containing protein) (vcp) [contains: valosin]. [source:swissprot;acc:p55072]	215.571	214.19	1.00645	
2207	SAP30	sin3 associated polypeptide p30; sin3-associated polypeptide, 30kd. [source:refseq;acc:nm_003864]	199.129	200.413	1.00645	
2208	AP2M1	clathrin coat assembly protein ap50 (clathrin coat associated protein ap50) (plasma membrane adaptor ap-2 50 kda protein) (ha2 50 kda subunit) (clathrin assembly protein complex 2 medium chain) (ap-2 mu 2 chain). [source:swissprot;acc:p20172]	199.129	200.413	1.00645	
2209	ABCC10	atp-binding cassette, sub-family c, member 10; multidrug resistance-associated protein 7. [source:refseq;acc:nm_033450]	199.129	200.413	1.00645	
2210	MAN2B1	lysosomal alpha-mannosidase precursor (ec 3.2.1.24) (mannosidase, alpha b) (lysosomal acid alpha-mannosidase) (laman) (mannosidase alpha class 2b member 1). [source:swissprot;acc:o00754]	199.129	200.413	1.00645	
2211	RRN3	rna polymerase i transcription factor rrn3. [source:refseq;acc:nm_018427]	199.129	200.413	1.00645	
2212	MRPS16	28s ribosomal protein s16, mitochondrial precursor (mrp-s16) (cgi- 132). [source:swissprot;acc:q9y3d3]	224.411	225.854	1.00643	
2213	DHDH	dimeric dihydrodiol dehydrogenase; 3-deoxyglucosone reductase. [source:refseq;acc:nm_014475]	210.127	211.475	1.00642	
2214	FABP4	fatty acid-binding protein, adipocyte (afabp) (adipocyte lipid-binding protein) (albp) (a-fabp). [source:swissprot;acc:p15090]	221.509	220.108	1.00637	
2215		fatty acid-binding protein, epidermal (e-fabp) (psoriasis-associated fatty acid-binding protein homolog) (pa-fabp). [source:swissprot;acc:q01469]	221.509	220.108	1.00637	
2216	FABP7	fatty acid-binding protein, brain (b-fabp) (brain lipid-binding protein) (blbp) (mammary derived growth inhibitor related). [source:swissprot;acc:o15540]	221.509	220.108	1.00637	
2217	WDR4	wd-repeat protein 4. [source:swissprot;acc:p57081]	221.509	220.108	1.00637	
2218	PMP2	myelin p2 protein. [source:swissprot;acc:p02689]	221.509	220.108	1.00637	
2219	KLHL8	kelch-like protein 8. [source:swissprot;acc:q9p2g9]	221.509	220.108	1.00637	
2220	PNMT	phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [source:swissprot;acc:p11086]	221.509	220.108	1.00637	
2221		beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [source:refseq;acc:nm_031938]	221.509	220.108	1.00637	
2222	BCMO1	beta-carotene 15, 15'-dioxygenase; beta-carotene 15,15'-monooxygenase. [source:refseq;acc:nm_017429]	221.509	220.108	1.00637	
2223	FABP3	fatty acid-binding protein, heart (h-fabp) (muscle fatty acid-binding protein) (m-fabp) (mammary-derived growth inhibitor) (mdgi). [source:swissprot;acc:p05413]	221.509	220.108	1.00637	
2224	RPE65	retinal pigment epithelium-specific protein 65kda; retinal pigment epithelium-specific protein (65kd); retinitis pigmentosa 20 (autosomal recessive). [source:refseq;acc:nm_000329]	221.509	220.108	1.00637	
2225	INMT	indolethylamine n-methyltransferase (ec 2.1.1.49) (aromatic alkylamine n-methyltransferase) (indolamine n-methyltransferase) (arylamine n- methyltransferase) (amine n-methyltransferase). [source:swissprot;acc:o95050]	221.509	220.108	1.00637	
2226	CFL1	cofilin, non-muscle isoform (18 kda phosphoprotein) (p18). [source:swissprot;acc:p23528]	217.955	219.336	1.00634	
2227	CFL2	cofilin, muscle isoform (cofilin 2). [source:swissprot;acc:q9y281]	217.955	219.336	1.00634	
2228	FDXR	nadph:adrenodoxin oxidoreductase, mitochondrial precursor (ec 1.18.1.2) (adrenodoxin reductase) (ar) (ferredoxin-nadp(+) reductase). [source:swissprot;acc:p22570]	211.81	213.153	1.00634	
2229	DSTN	destrin (actin-depolymerizing factor) (adf). [source:swissprot;acc:p18282]	217.955	219.336	1.00634	
2230	UFD1L	ubiquitin fusion degradation protein 1 homolog (ub fusion protein 1). [source:swissprot;acc:q92890]	217.955	219.336	1.00634	
2231	SYVN1	hrd1 protein isoform a; synoviolin1. [source:refseq;acc:nm_032431]	221.842	223.246	1.00633	
2232	RAPSN	43 kda receptor-associated protein of the synapse (rapsyn) (acetylcholine receptor-associated 43 kda protein) (43 kda postsynaptic protein). [source:swissprot;acc:q13702]	215.547	214.194	1.00632	
2233	TRIM3	tripartite motif protein 3 (ring finger protein 22) (brain-expressed ring finger protein). [source:swissprot;acc:o75382]	202.414	203.691	1.00631	
2234		seven in absentia homolog 1. [source:refseq;acc:nm_003031]	223.608	225.005	1.00625	
2235	RARS2	arginyl-trna synthetase-like; arginine-trna ligase. [source:refseq;acc:nm_020320]	200.95	199.711	1.0062	
2236		protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [source:refseq;acc:nm_003981]	222.959	224.337	1.00618	
2237	BRD3	bromodomain-containing protein 3 (ring3-like protein). [source:swissprot;acc:q15059]	222.965	224.343	1.00618	
2238	BRD4	bromodomain-containing protein 4 (hunk1 protein). [source:swissprot;acc:o60885]	222.959	224.337	1.00618	
2239	BRDT	testis-specific bromodomain protein. [source:refseq;acc:nm_001726]	222.958	224.336	1.00618	
2240	LRRC4	nag14 protein. [source:refseq;acc:nm_022143]	222.959	224.337	1.00618	
2241	BRD2	bromodomain-containing protein 2 (ring3 protein) (o27.1.1). [source:swissprot;acc:p25440]	222.96	224.338	1.00618	
2242	ITM2B	integral membrane protein 2b (transmembrane protein bri) [contains: abri/adan amyloid peptide]. [source:swissprot;acc:q9y287]	209.197	207.915	1.00617	
2243	ITM2C	integral membrane protein 2c (transmembrane protein bri3) (npd018). [source:swissprot;acc:q9nqx7]	209.197	207.915	1.00617	
2244	ITM2A	integral membrane protein 2a (e25 protein). [source:swissprot;acc:o43736]	209.197	207.915	1.00617	
2245	FBLN2	fibulin-2 precursor. [source:swissprot;acc:p98095]	191.618	190.448	1.00614	
2246	MRPL18	mitochondrial ribosomal protein l18. [source:refseq;acc:nm_014161]	223.58	224.943	1.0061	
2247	ADI1	sipl protein. [source:refseq;acc:nm_018269]	208.609	207.346	1.00609	
2248	KIF3C	kinesin-like protein kif3c. [source:swissprot;acc:o14782]	219.045	220.377	1.00608	
2249	PC	pyruvate carboxylase, mitochondrial precursor (ec 6.4.1.1) (pyruvic carboxylase) (pcb). [source:swissprot;acc:p11498]	181.091	179.999	1.00607	

Legend:
- Rank is the rank after comparing the two networks
- Hugo is the HGNC identifier if it exists
- 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/