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 930 to 979 of 6456 in total 
Value Type	Ranked
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
465	neuronal acetylcholine receptor protein, alpha-7 chain precursor. [source:swissprot;acc:p36544]	Divided	248.152	267.226	1.07686	
466	adenylate cyclase, type vi (ec 4.6.1.1) (atp pyrophosphate-lyase) (ca(2+)-inhibitable adenylyl cyclase). [source:swissprot;acc:o43306]	Divided	248.152	267.226	1.07686	
466	pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [source:refseq;acc:nm_015629]	Subtracted	225.661	209.651	16.01	
467	adenylate cyclase, type v (ec 4.6.1.1) (atp pyrophosphate-lyase) (adenylyl cyclase) (fragment). [source:swissprot;acc:o95622]	Divided	248.152	267.226	1.07686	
467	dead (asp-glu-ala-asp) box polypeptide 31 isoform 1; dead/dexh helicase ddx31. [source:refseq;acc:nm_022779]	Subtracted	248.56	232.579	15.981	
468	dna-directed rna polymerase ii 7.6 kda polypeptide (ec 2.7.7.6) (rpb10) (rpb7.6) (rpabc5). [source:swissprot;acc:p52436]	Subtracted	237.627	253.604	15.977	
468	leucine-rich repeat-containing protein 15 precursor (hlib). [source:swissprot;acc:q8tf66]	Divided	248.152	267.226	1.07686	
469	fem-1 homolog b; fem-1-like death receptor binding protein; fem-1 (c.elegans) homolog b. [source:refseq;acc:nm_015322]	Divided	248.152	267.226	1.07686	
469	potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [source:swissprot;acc:p16389]	Subtracted	226.789	210.818	15.971	
470	inhibitor of growth family, member 1; inhibitor of growth 1. [source:refseq;acc:nm_005537]	Subtracted	224.535	240.476	15.941	
470	leucine-rich repeat protein lrrc3 precursor. [source:swissprot;acc:q9by71]	Divided	248.152	267.226	1.07686	
471	laminin gamma-1 chain precursor (laminin b2 chain). [source:swissprot;acc:p11047]	Divided	248.152	267.226	1.07686	
471	zinc finger-like protein 9. [source:refseq;acc:nm_033414]	Subtracted	250.942	235.004	15.938	
472	membrane-associated transporter protein (aim-1 protein) (melanoma antigen aim1). [source:swissprot;acc:q9umx9]	Subtracted	250.942	235.004	15.938	
472	thymic stromal co-transporter. [source:refseq;acc:nm_033051]	Divided	248.152	267.226	1.07686	
473	guanine nucleotide-binding protein-like 1 (gtp-binding protein hsr1). [source:swissprot;acc:p36915]	Subtracted	250.942	235.004	15.938	
473	pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [source:refseq;acc:nm_015629]	Divided	225.661	209.651	1.07637	
474	potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [source:swissprot;acc:q09470]	Subtracted	226.727	210.816	15.911	
474	potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [source:swissprot;acc:p16389]	Divided	226.789	210.818	1.07576	
475	potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [source:swissprot;acc:q09470]	Divided	226.727	210.816	1.07547	
475	protein cgi-27 (c21orf19-like protein). [source:swissprot;acc:q9y316]	Subtracted	236.964	252.86	15.896	
476	potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [source:swissprot;acc:p22459]	Divided	226.681	210.814	1.07527	
476	potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [source:swissprot;acc:p22459]	Subtracted	226.681	210.814	15.867	
477	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [source:swissprot;acc:q14155]	Subtracted	220.183	236.015	15.832	
477	saccharomyces cerevisiae nip7p homolog. [source:refseq;acc:nm_016101]	Divided	251.926	234.547	1.0741	
478	serine/threonine-protein kinase pak 2 (ec 2.7.1.-) (p21-activated kinase 2) (pak-2) (pak65) (gamma-pak) (s6/h4 kinase). [source:swissprot;acc:q13177]	Subtracted	220.171	235.979	15.808	
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). [source:swissprot;acc:q92994]	Divided	228.051	212.321	1.07409	
479	conserved oligomeric golgi complex subunit 5 (13s golgi transport complex 90 kda subunit) (gtc-90) (golgi transport complex 1). [source:swissprot;acc:q9up83]	Subtracted	220.172	235.98	15.808	
479	nucleolar protein family a, member 1; gar1 protein. [source:refseq;acc:nm_018983]	Divided	228.051	212.321	1.07409	
480	neuropilin- and tolloid-like protein 2 precursor. [source:refseq;acc:nm_018092]	Divided	237.109	254.667	1.07405	
480	serine/threonine-protein kinase pak 1 (ec 2.7.1.-) (p21-activated kinase 1) (pak-1) (p65-pak) (alpha-pak). [source:swissprot;acc:q13153]	Subtracted	220.172	235.98	15.808	
481	neuropilin- and tolloid-like protein 1 isoform 3 precursor. [source:refseq;acc:nm_138966]	Divided	237.109	254.667	1.07405	
481	serine/threonine-protein kinase pak 3 (ec 2.7.1.-) (p21-activated kinase 3) (pak-3) (beta-pak) (oligophrenin-3). [source:swissprot;acc:o75914]	Subtracted	220.171	235.979	15.808	
482	heterogenous nuclear ribonucleoprotein u (hnrnp u) (scaffold attachment factor a) (saf-a). [source:swissprot;acc:q00839]	Divided	237.109	254.667	1.07405	
482	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [source:swissprot;acc:q15052]	Subtracted	220.161	235.95	15.789	
483	runt-related transcription factor 2 (core-binding factor, alpha 1 subunit) (cbf-alpha 1) (acute myeloid leukemia 3 protein) (oncogene aml-3) (polyomavirus enhancer binding protein 2 alpha a subunit) (pebp2-alpha a) (pea2-alpha a) (sl3-3 enhancer factor 1 alpha a subunit) (sl3/akv core-binding factor alpha a subunit) (osteoblast- specific transcription factor 2) (osf-2). [source:swissprot;acc:q13950]	Divided	237.109	254.667	1.07405	
483	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). [source:swissprot;acc:q92994]	Subtracted	228.051	212.321	15.73	
484	e1b-55kda-associated protein 5 isoform a. [source:refseq;acc:nm_007040]	Divided	237.109	254.667	1.07405	
484	nucleolar protein family a, member 1; gar1 protein. [source:refseq;acc:nm_018983]	Subtracted	228.051	212.321	15.73	
485	60s ribosomal protein l18. [source:swissprot;acc:q07020]	Divided	237.109	254.667	1.07405	
485	protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [source:swissprot;acc:o75688]	Subtracted	231.276	215.627	15.649	
486	eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [source:swissprot;acc:p56537]	Subtracted	248.866	233.287	15.579	
486	mct-1 protein. [source:refseq;acc:nm_014060]	Divided	226.313	243.03	1.07387	
487	malate dehydrogenase, mitochondrial precursor (ec 1.1.1.37). [source:swissprot;acc:p40926]	Subtracted	238.529	254.099	15.57	
487	mitochondrial ribosomal protein l22. [source:refseq;acc:nm_014180]	Divided	226.313	243.03	1.07387	
488	gaba-a receptor-associated protein. [source:sptrembl;acc:q9by60]	Subtracted	82.5916	98.0548	15.4632	
488	squamous cell carcinoma antigen recognized by t cells 1; u4/u6.u5 tri-snrnp-associated 110 kda protein; ige autoantigen; sart1(259) protein; sart1(800) protein. [source:refseq;acc:nm_005146]	Divided	225.026	209.798	1.07258	
489	apg3p; pc3-96 protein. [source:refseq;acc:nm_022488]	Subtracted	82.5916	98.0548	15.4632	
489	protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [source:swissprot;acc:o75688]	Divided	231.276	215.627	1.07257	
490	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [source:swissprot;acc:p05455]	Subtracted	242.531	227.136	15.395	

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/