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.


Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 525 to 574 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	green	network_comparison	
525	exosome complex exonuclease rrp46 (ec 3.1.13.-) (ribosomal rna processing protein 46) (p12b) (chronic myelogenous leukemia tumor antigen 28). [source:swissprot;acc:q9nqt4]	215.237	230.07	1.06891	
526	nnp-1 protein (novel nuclear protein 1) (nucleolar protein nop52) (nop52) (d21s2056e). [source:swissprot;acc:p56182]	250.538	234.401	1.06884	
527	dead (asp-glu-ala-asp) box polypeptide 31 isoform 1; dead/dexh helicase ddx31. [source:refseq;acc:nm_022779]	248.56	232.579	1.06871	
528	yme1-like 1 isoform 3; atp-dependent metalloprotease ftsh1 homolog. [source:refseq;acc:nm_014263]	222.146	237.393	1.06864	
529	atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [source:swissprot;acc:q9nvp1]	251.653	235.506	1.06856	
530	u6 snrna-associated sm-like protein lsm6 (sm protein f). [source:swissprot;acc:q9y4y8]	227.483	212.994	1.06803	
531	nuclear matrix protein nmp200 related to splicing factor prp19. [source:refseq;acc:nm_014502]	223.356	209.149	1.06793	
532	zinc finger-like protein 9. [source:refseq;acc:nm_033414]	250.942	235.004	1.06782	
533	membrane-associated transporter protein (aim-1 protein) (melanoma antigen aim1). [source:swissprot;acc:q9umx9]	250.942	235.004	1.06782	
534	guanine nucleotide-binding protein-like 1 (gtp-binding protein hsr1). [source:swissprot;acc:p36915]	250.942	235.004	1.06782	
535	dna-directed rna polymerases i, ii, and iii 17.1 kda polypeptide (ec 2.7.7.6) (rpb17) (rpb8) (rpabc3). [source:swissprot;acc:p52434]	236.662	252.708	1.0678	
536	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [source:swissprot;acc:p05455]	242.531	227.136	1.06778	
537	putative pre-mrna splicing factor rna helicase (deah box protein 15) (atp-dependent rna helicase #46). [source:swissprot;acc:o43143]	229.803	215.301	1.06736	
538	dna-directed rna polymerase ii 7.6 kda polypeptide (ec 2.7.7.6) (rpb10) (rpb7.6) (rpabc5). [source:swissprot;acc:p52436]	237.627	253.604	1.06724	
539	protein cgi-27 (c21orf19-like protein). [source:swissprot;acc:q9y316]	236.964	252.86	1.06708	
540	selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [source:swissprot;acc:q99611]	222.156	208.201	1.06703	
541	flavoprotein oxidoreductase mical2. [source:refseq;acc:nm_014632]	222.156	208.201	1.06703	
542	inositol polyphosphate-4-phosphatase, type ii, 105kd; inositol polyphosphate 4-phosphatase ii; 4-phosphatase ii. [source:refseq;acc:nm_003866]	222.156	208.201	1.06703	
543	selenide,water dikinase 1 (ec 2.7.9.3) (selenophosphate synthetase 1) (selenium donor protein 1). [source:swissprot;acc:p49903]	222.156	208.201	1.06703	
544	inositol polyphosphate-4-phosphatase, type 1 isoform b; inositol polyphosphate-4-phosphatase, type i, 107kd; 4-phosphatase i; inositol polyphosphate-4-phosphatase i. [source:refseq;acc:nm_001566]	222.156	208.201	1.06703	
545	eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [source:swissprot;acc:p56537]	248.866	233.287	1.06678	
546	wiskott-aldrich syndrome protein (wasp). [source:swissprot;acc:p42768]	207.222	194.262	1.06671	
547	proto-oncogene c-crk (p38) (adapter molecule crk). [source:swissprot;acc:p46108]	207.26	194.346	1.06645	
548	tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [source:swissprot;acc:p42684]	207.26	194.346	1.06645	
549	proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [source:swissprot;acc:p12931]	207.26	194.346	1.06645	
550	tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [source:swissprot;acc:p08631]	207.26	194.346	1.06645	
551	grb2-related adaptor protein 2 (gads protein) (growth factor receptor binding protein) (grblg) (grf40 adaptor protein) (grf-40) (grb-2-like protein) (grb2l) (grbx) (p38) (hematopoietic cell-associated adaptor protein grpl) (adapter protein grid) (sh3-sh2-sh3 adaptor mona). [source:swissprot;acc:o75791]	207.261	194.347	1.06645	
552	crk-like protein. [source:swissprot;acc:p46109]	207.26	194.346	1.06645	
553	proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [source:swissprot;acc:p00519]	207.26	194.346	1.06645	
554	proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [source:swissprot;acc:p06241]	207.26	194.346	1.06645	
555	proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [source:swissprot;acc:p09769]	207.26	194.346	1.06645	
556	ccaat displacement protein (cdp) (cut-like 1). [source:swissprot;acc:p39880]	207.27	194.368	1.06638	
557	homeobox protein cux-2 (cut-like 2) (fragment). [source:swissprot;acc:o14529]	207.272	194.371	1.06637	
558	ubiquitin activating enzyme e1-like protein. [source:refseq;acc:nm_006395]	135.087	144.041	1.06628	
559	neural wiskott-aldrich syndrome protein (n-wasp). [source:swissprot;acc:o00401]	207.309	194.452	1.06612	
560	son of sevenless protein homolog 1 (sos-1). [source:swissprot;acc:q07889]	205.74	193.021	1.06589	
561	son of sevenless protein homolog 2 (sos-2). [source:swissprot;acc:q07890]	205.89	193.183	1.06578	
562	ptb domain adaptor protein ced-6; engulfment adapter protein. [source:refseq;acc:nm_016315]	220.744	207.121	1.06577	
563	calcyphosine. [source:swissprot;acc:q13938]	220.744	207.121	1.06577	
564	crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [source:swissprot;acc:q9bzj0]	220.744	207.121	1.06577	
565	sedlin. [source:swissprot;acc:o14582]	129.219	121.261	1.06563	
566	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [source:swissprot;acc:q9y296]	129.219	121.261	1.06563	
567	bet3 homolog. [source:swissprot;acc:o43617]	129.219	121.261	1.06563	
568	putative pre-mrna splicing factor rna helicase (atp-dependent rna helicase #3) (deah-box protein 16). [source:swissprot;acc:o60231]	226.3	212.38	1.06554	
569	t54 protein. [source:swissprot;acc:q92917]	226.3	212.38	1.06554	
570	splicing factor arginine/serine-rich 11 (arginine-rich 54 kda nuclear protein) (p54). [source:swissprot;acc:q05519]	229.709	215.631	1.06529	
571	malate dehydrogenase, mitochondrial precursor (ec 1.1.1.37). [source:swissprot;acc:p40926]	238.529	254.099	1.06528	
572	cbf1 interacting corepressor. [source:refseq;acc:nm_004882]	227.86	213.945	1.06504	
573	evolutionarily conserved g-patch domain containing. [source:refseq;acc:nm_018025]	227.86	213.945	1.06504	
574	preimplantation protein 3; likely ortholog of preimplantation protein 3. [source:refseq;acc:nm_015387]	221.807	208.264	1.06503	

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/