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.


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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 1163 to 1212 of 6456 in total 
Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
582	gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p18507]	Divided	6739.82	7644.62	1.13425	
582	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [source:swissprot;acc:q9bzk7]	Subtracted	6834.54	7590.49	755.95	
583	importin beta-1 subunit (karyopherin beta-1 subunit) (nuclear factor p97) (importin 90). [source:swissprot;acc:q14974]	Subtracted	6834.54	7590.49	755.95	
583	interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [source:refseq;acc:nm_016123]	Divided	6739.81	7644.62	1.13425	
584	gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p48169]	Divided	6739.82	7644.63	1.13425	
584	transducin beta-like 1x protein (transducin-beta-like 1, x-linked). [source:swissprot;acc:o60907]	Subtracted	6834.54	7590.49	755.95	
585	gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [source:swissprot;acc:p78334]	Divided	6739.82	7644.63	1.13425	
585	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [source:swissprot;acc:q9bq87]	Subtracted	6834.54	7590.49	755.95	
586	apolipoprotein a-i binding protein; apoa-i binding protein. [source:refseq;acc:nm_144772]	Subtracted	6139.04	6893.7	754.66	
586	phosphatidylserine receptor; phosphatidylserine receptor beta. [source:refseq;acc:nm_015167]	Divided	6739.81	7644.62	1.13425	
587	axonemal dynein light intermediate polypeptide 1 (inner dynein arm light chain, axonemal) (hp28). [source:swissprot;acc:o14645]	Subtracted	6772.75	7526.2	753.45	
587	gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p14867]	Divided	6739.83	7644.63	1.13425	
588	gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p34903]	Divided	6739.83	7644.63	1.13425	
588	ubiquitin-conjugating enzyme e2 variant 1 isoform b; dna-binding protein. [source:refseq;acc:nm_003349]	Subtracted	6691.93	7445.09	753.16	
589	nadh-ubiquinone oxidoreductase b14 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b14) (ci-b14). [source:swissprot;acc:p56556]	Divided	6739.85	7644.63	1.13424	
589	utp--glucose-1-phosphate uridylyltransferase 2 (ec 2.7.7.9) (udp- glucose pyrophosphorylase 2) (udpgp 2) (ugpase 2). [source:swissprot;acc:q16851]	Subtracted	6691.21	7444.22	753.01	
590	similar to expressed sequence aa415817. [source:sptrembl;acc:q8n4q9]	Divided	6739.85	7644.63	1.13424	
590	ubiquitin-conjugating enzyme e2 variant 2; 1 alpha,25-dihydroxyvitamin d3-inducible; enterocyte differentiation promoting factor; methyl methanesulfonate sensitive 2, s. cerevisiae, homolog of. [source:refseq;acc:nm_003350]	Subtracted	6690.44	7443.29	752.85	
591	homeobox protein hox-d9 (hox-4c) (hox-5.2). [source:swissprot;acc:p28356]	Divided	6740.5	7644.76	1.13415	
591	u4/u6-associated rna splicing factor. [source:refseq;acc:nm_004698]	Subtracted	5390.78	6142.07	751.29	
592	arginyl-trna synthetase-like; arginine-trna ligase. [source:refseq;acc:nm_020320]	Subtracted	7093.86	7842.67	748.81	
592	histone h2b.c (h2b/c). [source:swissprot;acc:q99880]	Divided	3946.32	4475.47	1.13409	
593	histone h2b.q (h2b/q) (h2b-gl105). [source:swissprot;acc:q16778]	Divided	3946.32	4475.47	1.13409	
593	nadh-ubiquinone oxidoreductase b22 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b22) (ci-b22). [source:swissprot;acc:q9y6m9]	Subtracted	6770.78	7517.97	747.19	
594	histone h3.1 (h3/a) (h3/c) (h3/d) (h3/f) (h3/h) (h3/i) (h3/j) (h3/k) (h3/l). [source:swissprot;acc:p16106]	Divided	3946.32	4475.47	1.13409	
594	shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [source:refseq;acc:nm_020859]	Subtracted	6089.21	6835.34	746.13	
595	apical-like protein (apxl protein). [source:swissprot;acc:q13796]	Subtracted	6088.77	6834.87	746.1	
595	histone h2b. [source:refseq;acc:nm_175055]	Divided	3946.32	4475.47	1.13409	
596	histone h2b.s (h2b/s). [source:swissprot;acc:p57053]	Divided	3946.32	4475.47	1.13409	
596	parkinson disease (autosomal recessive, juvenile) 2, parkin isoform 1; parkin. [source:refseq;acc:nm_004562]	Subtracted	4533.74	5279.4	745.66	
597	hepatoma-derived growth factor-related protein 2. [source:refseq;acc:nm_032631]	Subtracted	4533.74	5279.4	745.66	
597	histone h2b.d (h2b/d). [source:swissprot;acc:q99877]	Divided	3946.32	4475.47	1.13409	
598	cgi-142; hepatoma-derived growth factor 2. [source:refseq;acc:nm_016073]	Subtracted	4533.74	5279.4	745.66	
598	histone h3.4 (h3t) (h3/t) (h3/g). [source:swissprot;acc:q16695]	Divided	3946.32	4475.47	1.13409	
599	pc4 and sfrs1 interacting protein 2; pc4 and sfrs1 interacting protein 1; transcriptional coactivator p52/p75. [source:refseq;acc:nm_033222]	Subtracted	4533.74	5279.4	745.66	
599	testis-specific histone h2b; h2b histone family, member u, (testis-specific). [source:refseq;acc:nm_170610]	Divided	3946.32	4475.47	1.13409	
600	60s ribosomal protein l8. [source:swissprot;acc:p25120]	Subtracted	4533.74	5279.4	745.66	
600	histone h2b.e (h2b/e). [source:swissprot;acc:q99879]	Divided	3946.32	4475.47	1.13409	
601	hepatoma-derived growth factor (hdgf) (high-mobility group protein 1- like 2) (hmg-1l2). [source:swissprot;acc:p51858]	Subtracted	4533.74	5279.4	745.66	
601	symplekin. [source:swissprot;acc:q92797]	Divided	15213.4	13418.1	1.1338	
602	ataxin 2 related protein isoform a; ataxin-2 domain protein. [source:refseq;acc:nm_007245]	Divided	4864.66	5514.87	1.13366	
602	pwwp domain containing 1; hdgf (hepatoma-derived growth factor) like. [source:refseq;acc:nm_138574]	Subtracted	4533.74	5279.4	745.66	
603	ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [source:refseq;acc:nm_002973]	Divided	4864.66	5514.87	1.13366	
603	probable atp-dependent rna helicase p54 (oncogene rck) (dead-box protein 6). [source:swissprot;acc:p26196]	Subtracted	4533.74	5279.4	745.66	
604	rw1 protein (fragment). [source:swissprot;acc:q92545]	Subtracted	4533.74	5279.4	745.66	
604	vinculin (metavinculin). [source:swissprot;acc:p18206]	Divided	5958.23	6743.37	1.13177	
605	probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [source:swissprot;acc:o75185]	Divided	6143.52	6950.75	1.1314	
605	rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [source:swissprot;acc:o14908]	Subtracted	6079.26	6824.47	745.21	
606	calcium-transporting atpase type 2c, member 1 (ec 3.6.3.8) (atpase 2c1) (atp-dependent ca(2+) pump pmr1) (hussy-28). [source:swissprot;acc:p98194]	Divided	6148.94	6955.76	1.13121	
606	t-complex associated-testis-expressed 1-like (protein 91/23). [source:swissprot;acc:p51808]	Subtracted	10231.8	9487.34	744.46	

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/