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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


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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 1433 to 1482 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	green	network_comparison	
1433	inositol polyphosphate 5-phosphatase ocrl-1 (ec 3.1.3.36) (lowe's oculocerebrorenal syndrome protein). [source:swissprot;acc:q01968]	220.987	225.468	1.02028	
1434	uv excision repair protein rad23 homolog b (hhr23b) (xp-c repair complementing complex 58 kda protein) (p58). [source:swissprot;acc:p54727]	220.987	225.468	1.02028	
1435	myosin vi. [source:swissprot;acc:q9um54]	220.987	225.468	1.02028	
1436	similar to ecotropic viral integration site 5; neuroblastoma stage 4s gene. [source:refseq;acc:nm_145245]	218.829	214.493	1.02022	
1437	ecotropic viral integration site 5; neuroblastoma stage 4s gene. [source:refseq;acc:nm_005665]	218.829	214.493	1.02022	
1438	geranylgeranyl transferase type i beta subunit (ec 2.5.1.-) (type i protein geranyl-geranyltransferase beta subunit) (ggtase-i-beta). [source:swissprot;acc:p53609]	225.039	229.573	1.02015	
1439	fatty acid desaturase 3; linoleoyl-coa desaturase (delta-6-desaturase)-like 3; delta-6 fatty acid desaturase. [source:refseq;acc:nm_021727]	225.039	229.573	1.02015	
1440	mothers against decapentaplegic homolog 4 (smad 4) (mothers against dpp homolog 4) (deletion target in pancreatic carcinoma 4) (hsmad4). [source:swissprot;acc:q13485]	225.039	229.573	1.02015	
1441	fatty acid desaturase 2; linoleoyl-coa desaturase (delta-6-desaturase)-like 2; delta-6 fatty acid desaturase. [source:refseq;acc:nm_004265]	225.039	229.573	1.02015	
1442	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [source:refseq;acc:nm_013402]	225.039	229.573	1.02015	
1443	glutamate dehydrogenase 2, mitochondrial precursor (ec 1.4.1.3) (gdh). [source:swissprot;acc:p49448]	203.908	207.998	1.02006	
1444	glutamate dehydrogenase 1, mitochondrial precursor (ec 1.4.1.3) (gdh). [source:swissprot;acc:p00367]	203.908	207.998	1.02006	
1445	pre-mrna cleavage complex ii protein pcf11 (fragment). [source:swissprot;acc:o94913]	134.233	136.922	1.02003	
1446	heat shock 27 kda protein (hsp 27) (stress-responsive protein 27) (srp27) (estrogen-regulated 24 kda protein) (28 kda heat shock protein). [source:swissprot;acc:p04792]	221.817	226.23	1.01989	
1447	dna polymerase epsilon p17 subunit (dna polymerase epsilon subunit 3) (chromatin accessibility complex 17) (huchrac17) (chrac-17). [source:swissprot;acc:q9nrf9]	250.854	255.842	1.01988	
1448	caax prenyl protease 1 homolog (ec 3.4.24.-) (prenyl protein-specific endoprotease 1) (farnesylated-proteins converting enzyme 1) (face-1) (zinc metalloproteinase ste24 homolog). [source:swissprot;acc:o75844]	226.532	222.117	1.01988	
1449	transportin-sr; importin 12. [source:refseq;acc:nm_012470]	225.305	229.766	1.0198	
1450	alpha crystallin c chain (small stress protein-like protein hsp22) (e2ig1) (protein kinase h11). [source:swissprot;acc:q9ujy1]	221.804	226.194	1.01979	
1451	my016 protein. [source:sptrembl;acc:q9h3k6]	224.755	229.2	1.01978	
1452	cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [source:swissprot;acc:p33551]	160.381	163.554	1.01978	
1453	reticulon 4 (neurite outgrowth inhibitor) (nogo protein) (foocen) (neuroendocrine-specific protein) (nsp) (neuroendocrine specific protein c homolog) (rtn-x) (reticulon 5) (my043 protein). [source:swissprot;acc:q9nqc3]	207.038	211.13	1.01976	
1454	sin3 associated polypeptide p18 (2hor0202). [source:swissprot;acc:o00422]	207.024	211.089	1.01964	
1455	eh-domain containing protein 1 (testilin) (hpast1). [source:swissprot;acc:q9h4m9]	207.024	211.085	1.01962	
1456	eh-domain containing protein 4 (eh domain-containing protein fksg7) (hepatocellular carcinoma-associated protein 10/11). [source:swissprot;acc:q9h223]	207.024	211.086	1.01962	
1457	eh-domain containing protein 2. [source:swissprot;acc:q9nzn4]	207.024	211.086	1.01962	
1458	eh-domain containing protein 3. [source:swissprot;acc:q9nzn3]	207.024	211.086	1.01962	
1459	importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [source:swissprot;acc:p55060]	192.336	188.637	1.01961	
1460	thyroid receptor interacting protein 12 (trip12). [source:swissprot;acc:q14669]	205.817	209.851	1.0196	
1461	reticulon 1 (neuroendocrine-specific protein). [source:swissprot;acc:q16799]	207.019	211.077	1.0196	
1462	dihydrolipoamide succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial precursor (ec 2.3.1.61) (e2) (e2k). [source:swissprot;acc:p36957]	205.817	209.851	1.0196	
1463	pnas-18. [source:sptrembl;acc:q9bzu3]	161.056	164.211	1.01959	
1464	poly (adp-ribose) glycohydrolase. [source:refseq;acc:nm_003631]	217.351	213.18	1.01957	
1465	mto1 protein homolog (cgi-02). [source:swissprot;acc:q9y2z2]	217.351	213.18	1.01957	
1466	reticulon protein 2 (neuroendocrine-specific protein-like 1) (nsp-like protein 1) (nspli). [source:swissprot;acc:o75298]	207.022	211.073	1.01957	
1467	maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [source:swissprot;acc:q14168]	228.513	232.983	1.01956	
1468	dr1-associated protein 1; negative cofactor 2 alpha; dr1-associated corepressor. [source:refseq;acc:nm_006442]	212.001	207.937	1.01954	
1469	reticulon protein 3 (neuroendocrine-specific protein-like 2) (nsp-like protein ii) (nsplii). [source:swissprot;acc:o95197]	207.013	211.05	1.0195	
1470	glutaminyl-trna synthetase (ec 6.1.1.18) (glutamine--trna ligase) (glnrs). [source:swissprot;acc:p47897]	221.412	217.199	1.0194	
1471	spermidine synthase (ec 2.5.1.16) (putrescine aminopropyltransferase) (spdsy). [source:swissprot;acc:p19623]	221.412	217.199	1.0194	
1472	glycyl-trna synthetase (ec 6.1.1.14) (glycine--trna ligase) (glyrs). [source:swissprot;acc:p41250]	221.412	217.199	1.0194	
1473	glutamyl trna synthetase. [source:sptrembl;acc:o14563]	221.412	217.199	1.0194	
1474	importin beta-3 subunit (karyopherin beta-3 subunit) (ran-binding protein 5). [source:swissprot;acc:o00410]	218.582	214.427	1.01938	
1475	kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [source:swissprot;acc:q16719]	181.882	178.438	1.0193	
1476	ran-gtp binding protein (fragment). [source:sptrembl;acc:o60518]	218.591	214.457	1.01928	
1477	transformer-2 protein homolog (tra-2 alpha). [source:swissprot;acc:q13595]	215.328	211.267	1.01922	
1478	arginine/serine-rich splicing factor 10 (transformer-2-beta) (htra2- beta) (transformer 2 protein homolog) (silica-induced protein 41) (ra301). [source:swissprot;acc:q15815]	215.122	211.066	1.01922	
1479	maguk p55 subfamily member 6 (veli-associated maguk 1) (vam-1). [source:swissprot;acc:q9nzw5]	228.469	232.855	1.0192	
1480	cleavage and polyadenylation specific factor 6, 68 kd subunit; pre-mrna cleavage factor im (68kd); cleavage and polyadenylation specific factor 6, 68kd subunit; pre-mrna cleavage factor i, 68kd subunit. [source:refseq;acc:nm_007007]	218.664	214.55	1.01918	
1481	cell division cycle protein 23; anaphase-promoting complex subunit 8. [source:refseq;acc:nm_004661]	208.432	204.516	1.01915	
1482	limbic system-associated membrane protein precursor (lsamp). [source:swissprot;acc:q13449]	224.354	220.15	1.0191	

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/