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 2275 to 2324 of 3228 in total

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

Rank	description	red	green	network_comparison	
2275	transcription initiation factor tfiid 28 kda subunit (tafii-28) (tafii28) (tfiid subunit p30-beta). [source:swissprot;acc:q15544]	6570.74	6872.1	1.04586	
2276	sal-like protein 2 (zinc finger protein sall2) (hsal2). [source:swissprot;acc:q9y467]	5783.69	6048.87	1.04585	
2277	sal-like protein 3 (zinc finger protein sall3) (hsall3). [source:swissprot;acc:q9bxa9]	5783.72	6048.9	1.04585	
2278	arginine-glutamic acid dipeptide (re) repeats; atrophin 1-like; arginine glutamic acid dipeptide re repeats. [source:refseq;acc:nm_012102]	5783.76	6048.94	1.04585	
2279	ubiquitin carboxyl-terminal hydrolase 8 (ec 3.1.2.15) (ubiquitin thiolesterase 8) (ubiquitin-specific processing protease 8) (deubiquitinating enzyme 8). [source:swissprot;acc:p40818]	5783.73	6048.91	1.04585	
2280	rod1 regulator of differentiation 1; fission yeast differentiation regulator; regulator of differentiation (in s. pombi) 1; regulator of differentiation (in s. pombe) 1. [source:refseq;acc:nm_005156]	5783.73	6048.91	1.04585	
2281	polypyrimidine tract binding protein 2; neural polypyrimidine tract binding protein; ptb-like protein. [source:refseq;acc:nm_021190]	5783.73	6048.91	1.04585	
2282	adaptor-associated kinase 1. [source:refseq;acc:nm_014911]	5783.73	6048.91	1.04585	
2283	atrophin-1 (dentatorubral-pallidoluysian atrophy protein). [source:swissprot;acc:p54259]	5783.7	6048.88	1.04585	
2284	dead (asp-glu-ala-asp) box polypeptide 47; hqp0256 protein. [source:refseq;acc:nm_016355]	5783.73	6048.91	1.04585	
2285	rho-gtpase activating protein 10. [source:refseq;acc:nm_020824]	5783.73	6048.91	1.04585	
2286	sal-like protein 1 (zinc finger protein sall1) (spalt-like transcription factor 1) (hsal1). [source:swissprot;acc:q9nsc2]	5783.76	6048.94	1.04585	
2287	sal-like protein 4 (zinc finger protein sall4). [source:swissprot;acc:q9ujq4]	5783.7	6048.88	1.04585	
2288	2-oxoisovalerate dehydrogenase beta subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component beta chain) (bckdh e1-beta). [source:swissprot;acc:p21953]	5783.76	6048.94	1.04585	
2289	ccr4-not transcription complex, subunit 4; not4 (negative regulator of transcription 4, yeast) homolog; ccr4-not transcription complex, subunit. [source:refseq;acc:nm_013316]	5783.76	6048.94	1.04585	
2290	phosphatidylinositol-binding clathrin assembly protein (clathrin assembly lymphoid myeloid leukemia protein). [source:swissprot;acc:q13492]	5783.75	6048.93	1.04585	
2291	clathrin coat assembly protein ap180 (clathrin coat associated protein ap180) (91 kda synaptosomal-associated protein). [source:swissprot;acc:o60641]	5783.71	6048.89	1.04585	
2292	membrane-associated nucleic acid binding protein. [source:refseq;acc:nm_018835]	5783.76	6048.94	1.04585	
2293	polypyrimidine tract-binding protein 1 (ptb) (heterogeneous nuclear ribonucleoprotein i) (hnrnp i) (57 kda rna-binding protein pptb-1). [source:swissprot;acc:p26599]	5783.76	6048.94	1.04585	
2294	growth-arrest-specific protein 7 (gas-7). [source:swissprot;acc:o60861]	5783.73	6048.91	1.04585	
2295	glutathione s-transferase p (ec 2.5.1.18) (gst class-pi) (gstp1-1). [source:swissprot;acc:p09211]	6066.61	6344.65	1.04583	
2296	eyes absent homolog 4. [source:swissprot;acc:o95677]	5784.9	6049.99	1.04582	
2297	rhesus blood group-associated glycoprotein (erythrocyte plasma membrane 50 kda glycoprotein) (rh50a). [source:swissprot;acc:q02094]	6570.31	6871.29	1.04581	
2298	rhesus blood group, b glycoprotein; rh type b glycoprotein. [source:refseq;acc:nm_020407]	6570.74	6871.6	1.04579	
2299	eyes absent homolog 2. [source:swissprot;acc:o00167]	5786.15	6050.71	1.04572	
2300	rh type c glycoprotein. [source:refseq;acc:nm_016321]	6573.3	6873.48	1.04567	
2301	hydroxymethylglutaryl-coa synthase, mitochondrial precursor (ec 2.3.3.10) (hmg-coa synthase) (3-hydroxy-3-methylglutaryl coenzyme a synthase). [source:swissprot;acc:p54868]	6946.6	7263.68	1.04565	
2302	3-hydroxy-3-methylglutaryl-coenzyme a reductase (ec 1.1.1.34) (hmg-coa reductase). [source:swissprot;acc:p04035]	6946.6	7263.68	1.04565	
2303	hydroxymethylglutaryl-coa synthase, cytoplasmic (ec 2.3.3.10) (hmg-coa synthase) (3-hydroxy-3-methylglutaryl coenzyme a synthase). [source:swissprot;acc:q01581]	6946.6	7263.68	1.04565	
2304	acetyl-coa acetyltransferase, mitochondrial precursor (ec 2.3.1.9) (acetoacetyl-coa thiolase) (t2). [source:swissprot;acc:p24752]	6946.38	7263.48	1.04565	
2305	3-ketoacyl-coa thiolase, peroxisomal precursor (ec 2.3.1.16) (beta- ketothiolase) (acetyl-coa acyltransferase) (peroxisomal 3-oxoacyl- coa thiolase). [source:swissprot;acc:p09110]	6946.82	7263.87	1.04564	
2306	dna-directed rna polymerase ii 140 kda polypeptide (ec 2.7.7.6) (rna polymerase ii subunit 2) (rpb2). [source:swissprot;acc:p30876]	3619.07	3461.21	1.04561	
2307	fas apoptotic inhibitory molecule. [source:refseq;acc:nm_018147]	5666.91	5923.48	1.04528	
2308	60s ribosomal protein l7. [source:swissprot;acc:p18124]	3976.92	3804.85	1.04522	
2309	delta(14)-sterol reductase (ec 1.3.1.70) (c-14 sterol reductase) (sterol c14-reductase) (delta14-sr) (transmembrane 7 superfamily member 2) (another new gene 1) (putative sterol reductase sr-1). [source:swissprot;acc:o76062]	6960.96	7273.7	1.04493	
2310	lamin b receptor (integral nuclear envelope inner membrane protein) (lmn2r). [source:swissprot;acc:q14739]	6960.96	7273.7	1.04493	
2311	solute carrier family 27 member 3; fatty acid transport protein 3. [source:refseq;acc:nm_024330]	6961.19	7273.93	1.04493	
2312	very-long-chain acyl-coa synthetase (ec 6.2.1.-) (very-long-chain- fatty-acid-coa ligase). [source:swissprot;acc:o14975]	6960.26	7273.01	1.04493	
2313	disrupter of silencing 10. [source:refseq;acc:nm_020368]	6960.96	7273.7	1.04493	
2314	very long-chain acyl-coa synthetase homolog 1. [source:refseq;acc:nm_014031]	6960.99	7273.72	1.04493	
2315	solute carrier family 27 (fatty acid transporter), member 5; very long-chain acyl-coa synthetase homolog 2; very long-chain acyl-coa synthetase-related protein; likely ortholog of mouse solute carrier family 27 (fatty acid transporter), member 5. [source:refseq;acc:nm_012254]	6961.11	7273.85	1.04493	
2316	similar to cg7020 gene product (fragment). [source:sptrembl;acc:q96ib4]	6960.74	7273.48	1.04493	
2317	solute carrier family 27 (fatty acid transporter), member 4; fatty acid transport protein 4. [source:refseq;acc:nm_005094]	6961.44	7274.17	1.04492	
2318	ubiquitin. [source:swissprot;acc:p02248]	7484.98	7821.11	1.04491	
2319	putative pre-mrna splicing factor rna helicase (atp-dependent rna helicase #3) (deah-box protein 16). [source:swissprot;acc:o60231]	6362.48	6647.42	1.04478	
2320	t54 protein. [source:swissprot;acc:q92917]	6362.48	6647.42	1.04478	
2321	dna polymerase epsilon p17 subunit (dna polymerase epsilon subunit 3) (chromatin accessibility complex 17) (huchrac17) (chrac-17). [source:swissprot;acc:q9nrf9]	3496.21	3652.28	1.04464	
2322	mothers against decapentaplegic homolog 2 (smad 2) (mothers against dpp homolog 2) (mad-related protein 2) (hmad-2) (jv18-1) (hsmad2). [source:swissprot;acc:q15796]	6773.67	7075.51	1.04456	
2323	mothers against decapentaplegic homolog 1 (smad 1) (mothers against dpp homolog 1) (mad-related protein 1) (transforming growth factor- beta signaling protein-1) (bsp-1) (hsmad1) (jv4-1). [source:swissprot;acc:q15797]	6773.67	7075.51	1.04456	
2324	cop9 subunit 6 (mov34 homolog, 34 kd). [source:refseq;acc:nm_006833]	6773.67	7075.51	1.04456	

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/