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

Results: HTML CSV LaTeX

Showing element 430 to 479 of 3228 in total

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

Rank	description	red	network_comparison	green
430	u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9]	227.748	1.07995	210.888
431	trub pseudouridine (psi) synthase homolog 1. [refseq;acc:nm_139169]	236.245	1.07987	255.113
432	endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [swissprot;acc:q14249]	212.547	1.07934	229.411
433	programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831]
434	t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947]
435	polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195]	221.522	1.07909	205.286
436	paxillin. [swissprot;acc:p49023]
437	cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [swissprot;acc:q15642]	209.921	1.07878	226.459
438	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227]	233.723	1.07869	216.674
439	40s ribosomal protein s9. [swissprot;acc:p46781]	238.986	1.07866	257.784
440	highly expressed in cancer, rich in leucine heptad repeats. [refseq;acc:nm_006101]	231.802	1.07843	249.983
441	grb2-related adaptor protein. [swissprot;acc:q13588]	223.457	1.07835	207.222
442	e2a-pbx1-associated protein; putative 47 kda protein. [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. [refseq;acc:nm_145117]	223.79		207.539
444	neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [refseq;acc:nm_020443]	223.801		207.549
445	neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [refseq;acc:nm_014903]
446	growth factor receptor-bound protein 2 (grb2 adapter protein) (sh2/sh3 adapter grb2) (ash protein). [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). [swissprot;acc:p51955]
448	microtubule-actin crosslinking factor 1, isoform 4. [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). [swissprot;acc:q03001]	228.463	1.07821	246.33
450	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	235.94	1.07815	218.837
451	polymerase (rna) iii (dna directed) (62kd). [refseq;acc:nm_006468]	239.092	1.07785	257.705
452	ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36]	224.161	1.07784	207.972
453	u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [swissprot;acc:p09661]
454	40s ribosomal protein s26. [swissprot;acc:p02383]	210.224	1.07779	226.578
455	mitochondrial import inner membrane translocase subunit tim22. [swissprot;acc:q9y584]	210.225
456	atp synthase mitochondrial f1 complex assembly factor 2. [refseq;acc:nm_145691]
457	ubiquinol-cytochrome c reductase complex 14 kda protein (ec 1.10.2.2) (complex iii subunit vi) (qp-c). [swissprot;acc:p14927]
458	signal recognition particle 9 kda protein (srp9). [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). [swissprot;acc:o95817]	233.529	1.07748	216.737
460	splicing factor 3a subunit 2 (spliceosome associated protein 62) (sap 62) (sf3a66). [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). [swissprot;acc:q13887]
462	mki67 (fha domain) interacting nucleolar phosphoprotein; nucleolar phosphoprotein nopp34; nucleolar protein interacting with the fha domain of pki-67. [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). [swissprot;acc:q9h1d9]	238.921	1.07704	257.327
464	ba138e2.1.2 (formin-binding protein 17 (fbp17), isoform 2). [sptrembl;acc:q96lh6]	210.578	1.07686	226.764
465	neuronal acetylcholine receptor protein, alpha-7 chain precursor. [swissprot;acc:p36544]	248.152		267.226
466	adenylate cyclase, type vi (ec 4.6.1.1) (atp pyrophosphate-lyase) (ca(2+)-inhibitable adenylyl cyclase). [swissprot;acc:o43306]
467	adenylate cyclase, type v (ec 4.6.1.1) (atp pyrophosphate-lyase) (adenylyl cyclase) (fragment). [swissprot;acc:o95622]
468	leucine-rich repeat-containing protein 15 precursor (hlib). [swissprot;acc:q8tf66]
469	fem-1 homolog b; fem-1-like death receptor binding protein; fem-1 (c.elegans) homolog b. [refseq;acc:nm_015322]
470	leucine-rich repeat protein lrrc3 precursor. [swissprot;acc:q9by71]
471	laminin gamma-1 chain precursor (laminin b2 chain). [swissprot;acc:p11047]
472	thymic stromal co-transporter. [refseq;acc:nm_033051]
473	pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [refseq;acc:nm_015629]	225.661	1.07637	209.651
474	potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [swissprot;acc:p16389]	226.789	1.07576	210.818
475	potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [swissprot;acc:q09470]	226.727	1.07547	210.816
476	potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [swissprot;acc:p22459]	226.681	1.07527	210.814
477	saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101]	251.926	1.0741	234.547
478	transcription factor iiib 90 kda subunit (tfiiib90) (htfiiib90) (b- related factor 1) (hbrf) (tata box-binding protein-associated factor, rna polymerase iii, subunit 2) (taf3b2). [swissprot;acc:q92994]	228.051	1.07409	212.321
479	nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983]

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.