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 708 to 757 of 6456 in total 
Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
354	transcription repressor p66 beta component of the mecp1 complex. [source:refseq;acc:nm_020699]	Divided	12839	10911.1	1.17669	
355	ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [source:sptrembl;acc:q9nu36]	Subtracted	4914.27	5907.12	992.85	
355	tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [source:swissprot;acc:p17735]	Divided	12839	10911.1	1.17669	
356	t-complex protein 1, alpha subunit (tcp-1-alpha) (cct-alpha). [source:swissprot;acc:p17987]	Divided	11004.2	12944.2	1.1763	
356	u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [source:swissprot;acc:p09661]	Subtracted	4914.27	5907.12	992.85	
357	imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [source:refseq;acc:nm_032549]	Divided	5061.11	5950.22	1.17567	
357	segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [source:swissprot;acc:o14640]	Subtracted	4977.09	5966.44	989.35	
358	microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [source:swissprot;acc:p21378]	Divided	5061.11	5950.22	1.17567	
358	segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [source:swissprot;acc:o14641]	Subtracted	4977.8	5966.14	988.34	
359	cell division protein kinase 3 (ec 2.7.1.-). [source:swissprot;acc:q00526]	Divided	12798.9	10887.2	1.17559	
359	nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [source:swissprot;acc:o43181]	Subtracted	1920.75	2907.43	986.68	
360	g2/mitotic-specific cyclin b2. [source:swissprot;acc:o95067]	Divided	12796.8	10886	1.17553	
360	u6 snrna-associated sm-like protein lsm8. [source:swissprot;acc:o95777]	Subtracted	4590.18	5575.52	985.34	
361	cbl e3 ubiquitin protein ligase (ec 6.3.2.-) (signal transduction protein cbl) (proto-oncogene c-cbl). [source:swissprot;acc:p22681]	Subtracted	6875.08	7858.38	983.3	
361	cell division protein kinase 2 (ec 2.7.1.-) (p33 protein kinase). [source:swissprot;acc:p24941]	Divided	12787.6	10880.5	1.17528	
362	g2/mitotic-specific cyclin b1. [source:swissprot;acc:p14635]	Divided	12786.6	10879.9	1.17525	
362	segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [source:swissprot;acc:q92997]	Subtracted	4981.52	5964.58	983.06	
363	cell division control protein 2 homolog (ec 2.7.1.-) (p34 protein kinase) (cyclin-dependent kinase 1) (cdk1). [source:swissprot;acc:p06493]	Divided	12780.7	10876.4	1.17509	
363	signal transduction protein cbl-b (sh3-binding protein cbl-b). [source:swissprot;acc:q13191]	Subtracted	6856.71	7838.3	981.59	
364	dok-like protein. [source:refseq;acc:nm_024872]	Subtracted	6102.59	7081.46	978.87	
364	ptb domain adaptor protein ced-6; engulfment adapter protein. [source:refseq;acc:nm_016315]	Divided	5189	6088.47	1.17334	
365	calcyphosine. [source:swissprot;acc:q13938]	Divided	5189	6088.47	1.17334	
365	docking protein 2 (p56(dok-2)) (downstream of tyrosine kinase 2). [source:swissprot;acc:o60496]	Subtracted	6102.59	7081.46	978.87	
366	crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [source:swissprot;acc:q9bzj0]	Divided	5189	6088.47	1.17334	
366	docking protein 1 (p62(dok)) (downstream of tyrosine kinase 1) (pp62). [source:swissprot;acc:q99704]	Subtracted	6102.59	7081.46	978.87	
367	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [source:swissprot;acc:q07864]	Divided	4024.4	4719.35	1.17268	
367	tyrosine-protein kinase frk (ec 2.7.1.112) (nuclear tyrosine protein kinase rak). [source:swissprot;acc:p42685]	Subtracted	6102.59	7081.46	978.87	
368	pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [source:swissprot;acc:o60508]	Divided	5082.66	5959.99	1.17261	
368	putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [source:swissprot;acc:o60361]	Subtracted	7756.51	8731.76	975.25	
369	ccaat-box-binding transcription factor (ccaat-binding factor) (cbf). [source:swissprot;acc:q03701]	Divided	3583.56	4194.95	1.17061	
369	nucleoside diphosphate kinase a (ec 2.7.4.6) (ndk a) (ndp kinase a) (tumor metastatic process-associated protein) (metastasis inhibition factor nm23) (nm23-h1). [source:swissprot;acc:p15531]	Subtracted	7755.69	8730.74	975.05	
370	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [source:swissprot;acc:p05455]	Divided	4108.15	4808.93	1.17058	
370	nucleoside diphosphate kinase b (ec 2.7.4.6) (ndk b) (ndp kinase b) (nm23-h2) (c-myc purine-binding transcription factor puf). [source:swissprot;acc:p22392]	Subtracted	7753.59	8728.13	974.54	
371	pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [source:refseq;acc:nm_015629]	Subtracted	4855.46	5824.52	969.06	
371	serine protease htra2, mitochondrial precursor (ec 3.4.21.-) (high temperature requirement protein a2) (htra2) (omi stress-regulated endoprotease) (serine proteinase omi). [source:swissprot;acc:o43464]	Divided	5067.02	5926.46	1.16961	
372	probable serine protease htra4 precursor (ec 3.4.21.-). [source:swissprot;acc:p83105]	Divided	5067	5926.17	1.16956	
372	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]	Subtracted	4909.79	5878.79	969	
373	probable serine protease htra3 precursor (ec 3.4.21.-). [source:swissprot;acc:p83110]	Divided	5066.99	5926.1	1.16955	
373	u6 snrna-associated sm-like protein lsm6 (sm protein f). [source:swissprot;acc:q9y4y8]	Subtracted	4682.88	5646.19	963.31	
374	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [source:refseq;acc:nm_004839]	Subtracted	4246.95	5208.98	962.03	
374	serine protease htra1 precursor (ec 3.4.21.-) (l56). [source:swissprot;acc:q92743]	Divided	5066.93	5925.38	1.16942	
375	u6 snrna-associated sm-like protein lsm1 (small nuclear ribonuclear casm) (cancer-associated sm-like). [source:swissprot;acc:o15116]	Divided	4700.42	5492.63	1.16854	
375	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [source:swissprot;acc:q99807]	Subtracted	4250.14	5211.25	961.11	
376	44050 protein. [source:refseq;acc:nm_178832]	Divided	17385.9	14889.2	1.16769	
376	homer, neuronal immediate early gene, 1b. [source:refseq;acc:nm_004272]	Subtracted	4251.65	5212.33	960.68	
377	homer, neuronal immediate early gene, 3. [source:refseq;acc:nm_004838]	Subtracted	4252.66	5213.05	960.39	
377	nuclear inhibitor of protein phosphatase-1 (nipp-1) (protein phosphatase 1, regulatory inhibitor subunit 8) [includes: activator of rna decay (ec 3.1.4.-) (ard-1)]. [source:swissprot;acc:q12972]	Divided	17385.9	14889.2	1.16769	
378	hira-interacting protein 5 (cgi-33). [source:swissprot;acc:q9ums0]	Divided	12471.7	14561.7	1.16758	
378	vinexin (sh3-containing adaptor molecule-1) (scam-1). [source:swissprot;acc:o60504]	Subtracted	6272.91	7226.06	953.15	
379	ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [source:swissprot;acc:p31350]	Divided	6704.44	7811.45	1.16512	

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/