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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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2075 to 2124 of 12912 in total 
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	Value Type	red	green	network_comparison	
519	segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [source:swissprot;acc:q92997]	Ranked	218.702	204.582	1.06902	
519	septin-like protein kiaa0202 (fragment). [source:swissprot;acc:q92599]	Rooted	114.309	124.527	1.08939	
520	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [source:refseq;acc:nm_005872]	Rooted	61.1902	66.6503	1.08923	
520	endo-beta-n-acetylglucosaminidase. [source:refseq;acc:nm_022759]	Measured	9642.22	10986.4	1.13941	
520	paxillin. [source:swissprot;acc:p49023]	Squared	22387.1	26827.3	1.19834	
520	sqv-7-like protein (fragment). [source:sptrembl;acc:o95454]	Ranked	214.754	229.565	1.06897	
521	carboxypeptidase a5. [source:refseq;acc:nm_080385]	Squared	53174	44377.4	1.19822	
521	cdc5-like; cdc5 (cell division cycle 5, s. pombe, homolog)-like; cell division cycle 5, s. pombe, homolog-like; cdc5-related protein. [source:refseq;acc:nm_001253]	Rooted	61.1902	66.6503	1.08923	
521	exosome complex exonuclease rrp41 (ec 3.1.13.-) (ribosomal rna processing protein 41) (p12a). [source:swissprot;acc:q9npd3]	Ranked	215.237	230.07	1.06891	
521	u4/u6-associated rna splicing factor. [source:refseq;acc:nm_004698]	Measured	5390.78	6142.07	1.13937	
522	carboxypeptidase b precursor (ec 3.4.17.2) (pancreas-specific protein) (pasp). [source:swissprot;acc:p15086]	Squared	53174	44377.4	1.19822	
522	glycogen [starch] synthase, liver (ec 2.4.1.11). [source:swissprot;acc:p54840]	Measured	9634.98	10976.2	1.1392	
522	pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [source:refseq;acc:nm_002669]	Ranked	222.893	208.523	1.06891	
522	septin 10 isoform 1. [source:refseq;acc:nm_144710]	Rooted	113.733	123.871	1.08914	
523	aquaporin 4 (wch4) (mercurial-insensitive water channel) (miwc). [source:swissprot;acc:p55087]	Measured	10640.2	12117.8	1.13887	
523	exosome complex exonuclease rrp4 (ec 3.1.13.-) (ribosomal rna processing protein 4). [source:swissprot;acc:q13868]	Ranked	215.237	230.07	1.06891	
523	neutral and basic amino acid transport protein rbat (b(0,+)-type amino acid transport protein) (nbat) (d2h). [source:swissprot;acc:q07837]	Squared	53174	44377.4	1.19822	
523	ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [source:swissprot;acc:p23921]	Rooted	66.377	72.2842	1.08899	
524	aminoacylase-1 (ec 3.5.1.14) (n-acyl-l-amino-acid amidohydrolase) (acy-1). [source:swissprot;acc:q03154]	Squared	53174	44377.4	1.19822	
524	aquaporin 5. [source:swissprot;acc:p55064]	Measured	10640	12117.6	1.13887	
524	brain protein 44. [source:swissprot;acc:o95563]	Rooted	113.374	123.463	1.08899	
524	exosome complex exonuclease rrp40 (ec 3.1.13.-) (ribosomal rna processing protein 40) (p10) (cgi-102). [source:swissprot;acc:q9nqt5]	Ranked	215.237	230.07	1.06891	
525	carboxypeptidase a1 precursor (ec 3.4.17.1). [source:swissprot;acc:p15085]	Squared	53174	44377.4	1.19822	
525	exosome complex exonuclease rrp46 (ec 3.1.13.-) (ribosomal rna processing protein 46) (p12b) (chronic myelogenous leukemia tumor antigen 28). [source:swissprot;acc:q9nqt4]	Ranked	215.237	230.07	1.06891	
525	lens fiber major intrinsic protein (mip26) (mp26) (aquaporin 0). [source:swissprot;acc:p30301]	Measured	10639.8	12117.3	1.13887	
525	septin 7 (cdc10 protein homolog). [source:swissprot;acc:q16181]	Rooted	113.374	123.463	1.08899	
526	aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [source:swissprot;acc:p41181]	Measured	10639.9	12117.4	1.13886	
526	electron transfer flavoprotein beta-subunit (beta-etf). [source:swissprot;acc:p38117]	Squared	31189.6	37352.8	1.1976	
526	nnp-1 protein (novel nuclear protein 1) (nucleolar protein nop52) (nop52) (d21s2056e). [source:swissprot;acc:p56182]	Ranked	250.538	234.401	1.06884	
526	septin 6. [source:swissprot;acc:q14141]	Rooted	113.169	123.23	1.0889	
527	dead (asp-glu-ala-asp) box polypeptide 31 isoform 1; dead/dexh helicase ddx31. [source:refseq;acc:nm_022779]	Ranked	248.56	232.579	1.06871	
527	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [source:refseq;acc:nm_021233]	Rooted	153.191	166.771	1.08865	
527	protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [source:swissprot;acc:o75688]	Measured	4775.11	5438.18	1.13886	
527	u6 snrna-associated sm-like protein lsm5. [source:swissprot;acc:q9y4y9]	Squared	18011.9	21552.8	1.19659	
528	aquaporin-chip (water channel protein for red blood cells and kidney proximal tubule) (aquaporin 1) (aqp-1) (urine water channel). [source:swissprot;acc:p29972]	Measured	10635.3	12111.4	1.13879	
528	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, alpha isoform (pp2a, subunit a, pr65-alpha isoform) (pp2a, subunit a, r1-alpha isoform) (medium tumor antigen-associated 61 kda protein). [source:swissprot;acc:p30153]	Squared	10606	8868.81	1.19588	
528	wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [source:swissprot;acc:o43516]	Rooted	66.941	72.7546	1.08685	
528	yme1-like 1 isoform 3; atp-dependent metalloprotease ftsh1 homolog. [source:refseq;acc:nm_014263]	Ranked	222.146	237.393	1.06864	
529	atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [source:swissprot;acc:q9nvp1]	Ranked	251.653	235.506	1.06856	
529	mitochondrial import receptor subunit tom20 homolog (mitochondrial 20 kda outer membrane protein) (outer mitochondrial membrane receptor tom20). [source:swissprot;acc:q15388]	Measured	8600.02	9792.49	1.13866	
529	nucleolar protein nop56 (nucleolar protein 5a). [source:swissprot;acc:o00567]	Rooted	50.3239	54.6658	1.08628	
529	sodium-dependent multivitamin transporter (na(+)-dependent multivitamin transporter). [source:swissprot;acc:q9y289]	Squared	28990.9	34656.4	1.19542	
530	40s ribosomal protein s14 (pro2640). [source:swissprot;acc:p06366]	Rooted	50.6537	46.6413	1.08603	
530	monoglyceride lipase; lysophospholipase-like. [source:refseq;acc:nm_007283]	Squared	27179.5	32490.8	1.19542	
530	peroxisomal farnesylated protein (33 kda housekeeping protein) (peroxin 19). [source:swissprot;acc:p40855]	Measured	8600.02	9792.49	1.13866	
530	u6 snrna-associated sm-like protein lsm6 (sm protein f). [source:swissprot;acc:q9y4y8]	Ranked	227.483	212.994	1.06803	
531	40s ribosomal protein s18 (ke-3) (ke3). [source:swissprot;acc:p25232]	Rooted	50.6537	46.6413	1.08603	
531	nuclear matrix protein nmp200 related to splicing factor prp19. [source:refseq;acc:nm_014502]	Ranked	223.356	209.149	1.06793	
531	solute carrier family 5 (iodide transporter), member 8; apical iodide transporter. [source:refseq;acc:nm_145913]	Squared	28980.7	34643.6	1.1954	
531	transcription initiation factor iib (general transcription factor tfiib) (s300-ii). [source:swissprot;acc:q00403]	Measured	4651.88	5296.78	1.13863	

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/