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 Value Type description Network Comparison Type Interaction Map red Filtered network_comparison green
Results: HTML CSV LaTeX Showing element 418 to 467 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	network_comparison	green	
418	cd209 antigen-like; putative type ii membrane protein. [source:refseq;acc:nm_014257]	233.539	1.08417	253.197	
419	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [source:swissprot;acc:p06734]	233.539	1.08417	253.197	
420	cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [source:refseq;acc:nm_021155]	233.539	1.08417	253.197	
421	tuftelin-interacting protein 11 (hspc006). [source:swissprot;acc:q9ubb9]	223.202	1.08403	205.9	
422	ras-related protein rab-37. [source:swissprot;acc:q96ax2]	240.287	1.08284	260.193	
423	ras-related protein rab-26. [source:swissprot;acc:q9ulw5]	240.287	1.08284	260.193	
424	dna-directed rna polymerase ii 33 kda polypeptide (ec 2.7.7.6) (rpb3) (rna polymerase ii subunit 3) (rpb33) (rpb31). [source:swissprot;acc:p19387]	240.287	1.08284	260.193	
425	max protein. [source:swissprot;acc:p25912]	227.828	1.082	210.561	
426	dynactin 4. [source:refseq;acc:nm_032486]	233.142	1.08197	252.253	
427	dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [source:swissprot;acc:p19388]	239.977	1.08146	259.525	
428	atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [source:refseq;acc:nm_024072]	253.852	1.0811	234.808	
429	polymerase (rna) iii (dna directed) (32kd). [source:refseq;acc:nm_006467]	239.709	1.08064	259.038	
430	u6 snrna-associated sm-like protein lsm5. [source:swissprot;acc:q9y4y9]	227.748	1.07995	210.888	
431	trub pseudouridine (psi) synthase homolog 1. [source:refseq;acc:nm_139169]	236.245	1.07987	255.113	
432	endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [source:swissprot;acc:q14249]	212.547	1.07934	229.411	
433	programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [source:swissprot;acc:o95831]	212.547	1.07934	229.411	
434	t-box transcription factor tbx6 (t-box protein 6). [source:swissprot;acc:o95947]	212.547	1.07934	229.411	
435	polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [source:refseq;acc:nm_007195]	221.522	1.07909	205.286	
436	paxillin. [source:swissprot;acc:p49023]	221.522	1.07909	205.286	
437	cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [source:swissprot;acc:q15642]	209.921	1.07878	226.459	
438	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [source:swissprot;acc:p41227]	233.723	1.07869	216.674	
439	40s ribosomal protein s9. [source:swissprot;acc:p46781]	238.986	1.07866	257.784	
440	highly expressed in cancer, rich in leucine heptad repeats. [source:refseq;acc:nm_006101]	231.802	1.07843	249.983	
441	grb2-related adaptor protein. [source:swissprot;acc:q13588]	223.457	1.07835	207.222	
442	e2a-pbx1-associated protein; putative 47 kda protein. [source:refseq;acc:nm_020140]	223.802	1.0783	207.55	
443	neuron navigator 2 isoform l; retinoic acid inducible in neuroblastoma; pore membrane and/or filament interacting like protein 2; helicase helad1. [source:refseq;acc:nm_145117]	223.79	1.0783	207.539	
444	neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [source:refseq;acc:nm_020443]	223.801	1.0783	207.549	
445	neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [source:refseq;acc:nm_014903]	223.801	1.0783	207.549	
446	growth factor receptor-bound protein 2 (grb2 adapter protein) (sh2/sh3 adapter grb2) (ash protein). [source:swissprot;acc:p29354]	224.049	1.07827	207.785	
447	serine/threonine-protein kinase nek2 (ec 2.7.1.37) (nima-related protein kinase 2) (nima-like protein kinase 1) (hspk 21). [source:swissprot;acc:p51955]	224.049	1.07827	207.785	
448	microtubule-actin crosslinking factor 1, isoform 4. [source:swissprot;acc:q96pk2]	228.468	1.07822	246.338	
449	bullous pemphigoid antigen 1 isoforms 1/2/3/4/5/8 (230 kda bullous pemphigoid antigen) (bpa) (hemidesmosomal plaque protein) (dystonia musculorum protein) (fragment). [source:swissprot;acc:q03001]	228.463	1.07821	246.33	
450	signal recognition particle 9 kda protein (srp9). [source:swissprot;acc:p49458]	235.94	1.07815	218.837	
451	polymerase (rna) iii (dna directed) (62kd). [source:refseq;acc:nm_006468]	239.092	1.07785	257.705	
452	ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [source:sptrembl;acc:q9nu36]	224.161	1.07784	207.972	
453	u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [source:swissprot;acc:p09661]	224.161	1.07784	207.972	
454	40s ribosomal protein s26. [source:swissprot;acc:p02383]	210.224	1.07779	226.578	
455	mitochondrial import inner membrane translocase subunit tim22. [source:swissprot;acc:q9y584]	210.225	1.07779	226.578	
456	atp synthase mitochondrial f1 complex assembly factor 2. [source:refseq;acc:nm_145691]	210.225	1.07779	226.578	
457	ubiquinol-cytochrome c reductase complex 14 kda protein (ec 1.10.2.2) (complex iii subunit vi) (qp-c). [source:swissprot;acc:p14927]	210.225	1.07779	226.578	
458	signal recognition particle 9 kda protein (srp9). [source:swissprot;acc:p49458]	235.922	1.07764	218.925	
459	bag-family molecular chaperone regulator-3 (bcl-2 binding athanogene- 3) (bag-3) (bcl-2-binding protein bis) (docking protein cair-1). [source:swissprot;acc:o95817]	233.529	1.07748	216.737	
460	splicing factor 3a subunit 2 (spliceosome associated protein 62) (sap 62) (sf3a66). [source:swissprot;acc:q15428]	223.648	1.0772	207.62	
461	krueppel-like factor 5 (intestinal-enriched krueppel-like factor) (colon krueppel-like factor) (transcription factor bteb2) (basic transcription element binding protein 2) (bte-binding protein 2) (gc box binding protein 2). [source:swissprot;acc:q13887]	223.648	1.0772	207.62	
462	mki67 (fha domain) interacting nucleolar phosphoprotein; nucleolar phosphoprotein nopp34; nucleolar protein interacting with the fha domain of pki-67. [source:refseq;acc:nm_032390]	254.434	1.07709	236.224	
463	dna-directed rna polymerases iii 39 kda polypeptide (ec 2.7.7.6) (rna polymerase iii c39 subunit). [source:swissprot;acc:q9h1d9]	238.921	1.07704	257.327	
464	ba138e2.1.2 (formin-binding protein 17 (fbp17), isoform 2). [source:sptrembl;acc:q96lh6]	210.578	1.07686	226.764	
465	neuronal acetylcholine receptor protein, alpha-7 chain precursor. [source:swissprot;acc:p36544]	248.152	1.07686	267.226	
466	adenylate cyclase, type vi (ec 4.6.1.1) (atp pyrophosphate-lyase) (ca(2+)-inhibitable adenylyl cyclase). [source:swissprot;acc:o43306]	248.152	1.07686	267.226	
467	adenylate cyclase, type v (ec 4.6.1.1) (atp pyrophosphate-lyase) (adenylyl cyclase) (fragment). [source:swissprot;acc:o95622]	248.152	1.07686	267.226	

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/