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 1651 to 1700 of 12912 in total 
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	Value Type	red	green	network_comparison	
413	rd protein. [source:swissprot;acc:p18615]	Rooted	55.5489	50.535	1.09922	
413	vav proto-oncogene. [source:swissprot;acc:p15498]	Measured	6644.99	7707.8	1.15994	
414	autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [source:swissprot;acc:q9h1y0]	Measured	6744.05	5815.13	1.15974	
414	dolichol-phosphate mannosyltransferase (ec 2.4.1.83) (dolichol- phosphate mannose synthase) (dolichyl-phosphate beta-d- mannosyltransferase) (mannose-p-dolichol synthase) (mpd synthase) (dpm synthase). [source:swissprot;acc:o60762]	Squared	22109.6	26989.4	1.22071	
414	glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [source:swissprot;acc:p78417]	Rooted	55.5489	50.535	1.09922	
414	katanin p60 subunit a 1. [source:refseq;acc:nm_007044]	Ranked	232.431	252.238	1.08522	
415	androgen-induced 1; cgi-103 protein; androgen induced protein. [source:refseq;acc:nm_016108]	Rooted	55.5489	50.535	1.09922	
415	katanin p80 subunit b 1; katanin (80 kda); katanin p80 (wd40-containing) subunit b 1. [source:refseq;acc:nm_005886]	Ranked	232.382	252.166	1.08514	
415	vav-3 protein. [source:swissprot;acc:q9ukw4]	Measured	6647.43	7706.18	1.15927	
415	vinexin (sh3-containing adaptor molecule-1) (scam-1). [source:swissprot;acc:o60504]	Squared	29160.4	35570.2	1.21981	
416	atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [source:swissprot;acc:p24539]	Rooted	55.5489	50.535	1.09922	
416	dna-directed rna polymerase i 135 kda polypeptide (ec 2.7.7.6) (rna polymerase i subunit 2) (rpa135). [source:swissprot;acc:q9h9y6]	Ranked	240.6	261.041	1.08496	
416	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [source:swissprot;acc:p41227]	Measured	4509.54	5223.95	1.15842	
416	prohibitin. [source:swissprot;acc:p35232]	Squared	22841.8	27856.2	1.21953	
417	bag-family molecular chaperone regulator-3 (bcl-2 binding athanogene- 3) (bag-3) (bcl-2-binding protein bis) (docking protein cair-1). [source:swissprot;acc:o95817]	Measured	4522.71	5233.14	1.15708	
417	j domain containing protein 1. [source:swissprot;acc:q9ukb3]	Rooted	55.5489	50.535	1.09922	
417	repressor of estrogen receptor activity; b-cell associated protein. [source:refseq;acc:nm_007273]	Squared	22841.8	27856.2	1.21953	
417	set domain and mariner transposase fusion gene. [source:refseq;acc:nm_006515]	Ranked	233.539	253.197	1.08417	
418	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [source:refseq;acc:nm_005872]	Measured	5493.1	6350.19	1.15603	
418	cd209 antigen-like; putative type ii membrane protein. [source:refseq;acc:nm_014257]	Ranked	233.539	253.197	1.08417	
418	e-1 enzyme. [source:refseq;acc:nm_021204]	Squared	30903.8	37638.1	1.21791	
418	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [source:swissprot;acc:q9y5w8]	Rooted	55.5489	50.535	1.09922	
419	apolipoprotein a-i binding protein; apoa-i binding protein. [source:refseq;acc:nm_144772]	Squared	24832.1	30242.8	1.21789	
419	ba127l20.1 (novel glutathione-s-transferase). [source:sptrembl;acc:q9h4y5]	Rooted	55.5489	50.535	1.09922	
419	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]	Measured	5493.1	6350.19	1.15603	
419	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [source:swissprot;acc:p06734]	Ranked	233.539	253.197	1.08417	
420	60s ribosomal protein l24 (l30). [source:swissprot;acc:p38663]	Squared	30924.3	37652.3	1.21756	
420	cd209 antigen; dendritic cell-specific icam3-grabbing nonintegrin. [source:refseq;acc:nm_021155]	Ranked	233.539	253.197	1.08417	
420	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [source:swissprot;acc:q07864]	Rooted	51.7959	56.9253	1.09903	
420	hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [source:swissprot;acc:p00492]	Measured	10235.2	11830.8	1.15589	
421	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [source:sptrembl;acc:q9br02]	Rooted	50.4666	45.9317	1.09873	
421	cbl e3 ubiquitin protein ligase (ec 6.3.2.-) (signal transduction protein cbl) (proto-oncogene c-cbl). [source:swissprot;acc:p22681]	Squared	36933	44953.6	1.21717	
421	tuftelin-interacting protein 11 (hspc006). [source:swissprot;acc:q9ubb9]	Ranked	223.202	205.9	1.08403	
421	vav-2 protein. [source:swissprot;acc:p52735]	Measured	6660.02	7697.78	1.15582	
422	60s ribosomal protein l5. [source:swissprot;acc:p46777]	Rooted	50.4641	45.9293	1.09873	
422	dna mismatch repair protein mlh3 (mutl protein homolog 3). [source:swissprot;acc:q9uhc1]	Squared	25860	31475.4	1.21715	
422	nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [source:swissprot;acc:q9h1b4]	Measured	5206.9	6010.04	1.15425	
422	ras-related protein rab-37. [source:swissprot;acc:q96ax2]	Ranked	240.287	260.193	1.08284	
423	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [source:swissprot;acc:p12830]	Rooted	50.4663	45.9313	1.09873	
423	nuclear rna export factor 3 (tap-like protein 3) (tapl-3). [source:swissprot;acc:q9h4d5]	Measured	5207.03	6010.1	1.15423	
423	ras-related protein rab-26. [source:swissprot;acc:q9ulw5]	Ranked	240.287	260.193	1.08284	
423	signal transduction protein cbl-b (sh3-binding protein cbl-b). [source:swissprot;acc:q13191]	Squared	36735.7	44689.6	1.21652	
424	60s ribosomal protein l23a. [source:swissprot;acc:p29316]	Rooted	50.4703	45.9373	1.09868	
424	dna-directed rna polymerase ii 33 kda polypeptide (ec 2.7.7.6) (rpb3) (rna polymerase ii subunit 3) (rpb33) (rpb31). [source:swissprot;acc:p19387]	Ranked	240.287	260.193	1.08284	
424	mitochondrial processing peptidase alpha subunit, mitochondrial precursor (ec 3.4.24.64) (alpha-mpp) (p-55) (ha1523). [source:swissprot;acc:q10713]	Squared	20259.5	24635.7	1.21601	
424	nuclear rna export factor 1 (tip associating protein) (tip-associated protein) (mrna export factor tap). [source:swissprot;acc:q9ubu9]	Measured	5207.78	6010.45	1.15413	
425	40s ribosomal protein s20. [source:swissprot;acc:p17075]	Rooted	50.0161	45.5318	1.09849	
425	max protein. [source:swissprot;acc:p25912]	Ranked	227.828	210.561	1.082	
425	mitochondrial processing peptidase beta subunit, mitochondrial precursor (ec 3.4.24.64) (beta-mpp) (p-52). [source:swissprot;acc:o75439]	Squared	20258.6	24634.7	1.21601	
425	saccharomyces cerevisiae nip7p homolog. [source:refseq;acc:nm_016101]	Measured	3729.02	4301.58	1.15354	

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/