MK5 Microarray Data

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

Results: HTML CSV LaTeX

Showing element 1451 to 1500 of 3228 in total

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

Rank	description	red	network_comparison	green
1451	my016 protein. [sptrembl;acc:q9h3k6]	224.755	1.01978	229.2
1452	cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551]	160.381		163.554
1453	reticulon 4 (neurite outgrowth inhibitor) (nogo protein) (foocen) (neuroendocrine-specific protein) (nsp) (neuroendocrine specific protein c homolog) (rtn-x) (reticulon 5) (my043 protein). [swissprot;acc:q9nqc3]	207.038	1.01976	211.13
1454	sin3 associated polypeptide p18 (2hor0202). [swissprot;acc:o00422]	207.024	1.01964	211.089
1455	eh-domain containing protein 1 (testilin) (hpast1). [swissprot;acc:q9h4m9]		1.01962	211.085
1456	eh-domain containing protein 4 (eh domain-containing protein fksg7) (hepatocellular carcinoma-associated protein 10/11). [swissprot;acc:q9h223]			211.086
1457	eh-domain containing protein 2. [swissprot;acc:q9nzn4]
1458	eh-domain containing protein 3. [swissprot;acc:q9nzn3]
1459	importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060]	192.336	1.01961	188.637
1460	thyroid receptor interacting protein 12 (trip12). [swissprot;acc:q14669]	205.817	1.0196	209.851
1461	reticulon 1 (neuroendocrine-specific protein). [swissprot;acc:q16799]	207.019		211.077
1462	dihydrolipoamide succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial precursor (ec 2.3.1.61) (e2) (e2k). [swissprot;acc:p36957]	205.817		209.851
1463	pnas-18. [sptrembl;acc:q9bzu3]	161.056	1.01959	164.211
1464	poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631]	217.351	1.01957	213.18
1465	mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2]
1466	reticulon protein 2 (neuroendocrine-specific protein-like 1) (nsp-like protein 1) (nspli). [swissprot;acc:o75298]	207.022		211.073
1467	maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168]	228.513	1.01956	232.983
1468	dr1-associated protein 1; negative cofactor 2 alpha; dr1-associated corepressor. [refseq;acc:nm_006442]	212.001	1.01954	207.937
1469	reticulon protein 3 (neuroendocrine-specific protein-like 2) (nsp-like protein ii) (nsplii). [swissprot;acc:o95197]	207.013	1.0195	211.05
1470	glutaminyl-trna synthetase (ec 6.1.1.18) (glutamine--trna ligase) (glnrs). [swissprot;acc:p47897]	221.412	1.0194	217.199
1471	spermidine synthase (ec 2.5.1.16) (putrescine aminopropyltransferase) (spdsy). [swissprot;acc:p19623]
1472	glycyl-trna synthetase (ec 6.1.1.14) (glycine--trna ligase) (glyrs). [swissprot;acc:p41250]
1473	glutamyl trna synthetase. [sptrembl;acc:o14563]
1474	importin beta-3 subunit (karyopherin beta-3 subunit) (ran-binding protein 5). [swissprot;acc:o00410]	218.582	1.01938	214.427
1475	kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719]	181.882	1.0193	178.438
1476	ran-gtp binding protein (fragment). [sptrembl;acc:o60518]	218.591	1.01928	214.457
1477	transformer-2 protein homolog (tra-2 alpha). [swissprot;acc:q13595]	215.328	1.01922	211.267
1478	arginine/serine-rich splicing factor 10 (transformer-2-beta) (htra2- beta) (transformer 2 protein homolog) (silica-induced protein 41) (ra301). [swissprot;acc:q15815]	215.122		211.066
1479	maguk p55 subfamily member 6 (veli-associated maguk 1) (vam-1). [swissprot;acc:q9nzw5]	228.469	1.0192	232.855
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. [refseq;acc:nm_007007]	218.664	1.01918	214.55
1481	cell division cycle protein 23; anaphase-promoting complex subunit 8. [refseq;acc:nm_004661]	208.432	1.01915	204.516
1482	limbic system-associated membrane protein precursor (lsamp). [swissprot;acc:q13449]	224.354	1.0191	220.15
1483	pyruvate dehydrogenase e1 component beta subunit, mitochondrial precursor (ec 1.2.4.1) (pdhe1-b). [swissprot;acc:p11177]	198.927		202.726
1484	2-oxoisovalerate dehydrogenase alpha subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component alpha chain) (bckdh e1-alpha). [swissprot;acc:p12694]
1485	j kappa-recombination signal binding protein (rbp-j kappa). [swissprot;acc:q06330]	207.877	1.01906	203.989
1486	human immunodeficiency virus type i enhancer binding protein 3. [refseq;acc:nm_024503]
1487	zinc finger protein 40 (human immunodeficiency virus type i enhancer- binding protein 1) (hiv-ep1) (major histocompatibility complex binding protein 1) (mbp-1) (positive regulatory domain ii binding factor 1) (prdii-bf1). [swissprot;acc:p15822]
1488	human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [swissprot;acc:p31629]
1489	mitogen-activated protein kinase kinase kinase 7 (ec 2.7.1.-) (transforming growth factor-beta-activated kinase 1) (tgf-beta- activated kinase 1). [swissprot;acc:o43318]	213.251	1.01905	209.264
1490	protein cgi-147. [swissprot;acc:q9y3e5]	221.961	1.01903	226.186
1491	glucose-6-phosphate isomerase (ec 5.3.1.9) (gpi) (phosphoglucose isomerase) (pgi) (phosphohexose isomerase) (phi) (neuroleukin) (nlk) (sperm antigen-36) (sa-36). [swissprot;acc:p06744]	217.704	1.01899	221.839
1492	opioid binding protein/cell adhesion molecule precursor (obcam) (opioid-binding cell adhesion molecule) (opcml). [swissprot;acc:q14982]	224.159	1.01883	220.017
1493	pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803]	204.146	1.01882	207.988
1494	pyruvate dehydrogenase e1 component alpha subunit, somatic form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type i). [swissprot;acc:p08559]	204.133	1.01878	207.967
1495	casein kinase i alpha s-like. [refseq;acc:nm_145203]	229.459	1.01874	225.237
1496	casein kinase i, alpha isoform (ec 2.7.1.-) (cki-alpha) (ck1). [swissprot;acc:p48729]
1497	exportin 1; exportin-1 (required for chromosome region maintenance); exportin 1 (crm1, yeast, homolog); crm1, yeast, homolog. [refseq;acc:nm_003400]	224.476	1.01866	220.363
1498	neurotrimin precursor (hnt). [swissprot;acc:q9p121]	224.022	1.01863	219.924
1499	transcription factor smif; decapping enzyme hdcp1a. [refseq;acc:nm_018403]	224.509	1.01859	220.411
1500	cop9 complex subunit 4; likely ortholog of mouse cop9 (constitutive photomorphogenic), subunit 4 (arabidopsis); cop9 (constitutive photomorphogenic, arabidopsis, homolog) subunit 4. [refseq;acc:nm_016129]	213.398	1.01851	209.52

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- 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.