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.


Navigation/Query Panel:
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 825 to 874 of 6456 in total 
Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
413	guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [source:swissprot;acc:p08754]	Subtracted	1836.81	907.978	928.832	
413	vav proto-oncogene. [source:swissprot;acc:p15498]	Divided	6644.99	7707.8	1.15994	
414	autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [source:swissprot;acc:q9h1y0]	Divided	6744.05	5815.13	1.15974	
414	pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [source:refseq;acc:nm_002669]	Subtracted	5051.16	5975.51	924.35	
415	j kappa-recombination signal binding protein (rbp-j kappa). [source:swissprot;acc:q06330]	Subtracted	7725.1	8647.74	922.64	
415	vav-3 protein. [source:swissprot;acc:q9ukw4]	Divided	6647.43	7706.18	1.15927	
416	human immunodeficiency virus type i enhancer binding protein 3. [source:refseq;acc:nm_024503]	Subtracted	7725.1	8647.74	922.64	
416	n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [source:swissprot;acc:p41227]	Divided	4509.54	5223.95	1.15842	
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]	Divided	4522.71	5233.14	1.15708	
417	zinc finger protein 40 (human immunodeficiency virus type i enhancer- binding protein 1) (hiv-ep1) (major histocompatibility complex binding protein 1) (mbp-1) (positive regulatory domain ii binding factor 1) (prdii-bf1). [source:swissprot;acc:p15822]	Subtracted	7725.1	8647.74	922.64	
418	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [source:refseq;acc:nm_005872]	Divided	5493.1	6350.19	1.15603	
418	human immunodeficiency virus type i enhancer-binding protein 2 (hiv-ep2). [source:swissprot;acc:p31629]	Subtracted	7725.1	8647.74	922.64	
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]	Divided	5493.1	6350.19	1.15603	
419	nuclear matrix protein nmp200 related to splicing factor prp19. [source:refseq;acc:nm_014502]	Subtracted	5039.63	5961.83	922.2	
420	hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [source:swissprot;acc:p00492]	Divided	10235.2	11830.8	1.15589	
420	pef protein with a long n-terminal hydrophobic domain (peflin). [source:refseq;acc:nm_012392]	Subtracted	5942.49	6853.15	910.66	
421	homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [source:swissprot;acc:p31260]	Subtracted	6739.43	7644.55	905.12	
421	vav-2 protein. [source:swissprot;acc:p52735]	Divided	6660.02	7697.78	1.15582	
422	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [source:swissprot;acc:q96df8]	Subtracted	460	1365	905	
422	nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [source:swissprot;acc:q9h1b4]	Divided	5206.9	6010.04	1.15425	
423	homeobox protein hox-b9 (hox-2e) (hox-2.5). [source:swissprot;acc:p17482]	Subtracted	6739.61	7644.58	904.97	
423	nuclear rna export factor 3 (tap-like protein 3) (tapl-3). [source:swissprot;acc:q9h4d5]	Divided	5207.03	6010.1	1.15423	
424	homeobox protein hox-a9 (hox-1g). [source:swissprot;acc:p31269]	Subtracted	6739.63	7644.59	904.96	
424	nuclear rna export factor 1 (tip associating protein) (tip-associated protein) (mrna export factor tap). [source:swissprot;acc:q9ubu9]	Divided	5207.78	6010.45	1.15413	
425	homeobox protein hox-c9 (hox-3b). [source:swissprot;acc:p31274]	Subtracted	6739.7	7644.6	904.9	
425	saccharomyces cerevisiae nip7p homolog. [source:refseq;acc:nm_016101]	Divided	3729.02	4301.58	1.15354	
426	gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [source:swissprot;acc:q99928]	Subtracted	6739.81	7644.62	904.81	
426	pef protein with a long n-terminal hydrophobic domain (peflin). [source:refseq;acc:nm_012392]	Divided	5942.49	6853.15	1.15325	
427	forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [source:swissprot;acc:q14488]	Subtracted	6739.81	7644.62	904.81	
427	trna (5-methylaminomethyl-2-thiouridylate)-methyltransferase (ec 2.1.1.61). [source:swissprot;acc:o75648]	Divided	11736.6	13531.9	1.15297	
428	gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [source:swissprot;acc:q16445]	Subtracted	6739.82	7644.63	904.81	
428	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [source:swissprot;acc:q9bze4]	Divided	3721.19	4288.17	1.15237	
429	interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [source:refseq;acc:nm_016123]	Subtracted	6739.81	7644.62	904.81	
429	vinexin (sh3-containing adaptor molecule-1) (scam-1). [source:swissprot;acc:o60504]	Divided	6272.91	7226.06	1.15195	
430	gamma-aminobutyric-acid receptor alpha-4 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p48169]	Subtracted	6739.82	7644.63	904.81	
430	transcription factor dp-2 (e2f dimerization partner 2). [source:swissprot;acc:q14188]	Divided	3804.09	4379.37	1.15123	
431	dead (asp-glu-ala-asp) box polypeptide 31 isoform 1; dead/dexh helicase ddx31. [source:refseq;acc:nm_022779]	Divided	3849.94	4431.36	1.15102	
431	gamma-aminobutyric-acid receptor epsilon subunit precursor (gaba(a) receptor). [source:swissprot;acc:p78334]	Subtracted	6739.82	7644.63	904.81	
432	mitochondrial processing peptidase beta subunit, mitochondrial precursor (ec 3.4.24.64) (beta-mpp) (p-52). [source:swissprot;acc:o75439]	Divided	5244.71	6036.27	1.15093	
432	phosphatidylserine receptor; phosphatidylserine receptor beta. [source:refseq;acc:nm_015167]	Subtracted	6739.81	7644.62	904.81	
433	gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [source:swissprot;acc:q8n1c3]	Subtracted	6739.82	7644.62	904.8	
433	mitochondrial processing peptidase alpha subunit, mitochondrial precursor (ec 3.4.24.64) (alpha-mpp) (p-55) (ha1523). [source:swissprot;acc:q10713]	Divided	5244.88	6036.38	1.15091	
434	gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p47869]	Subtracted	6739.83	7644.63	904.8	
434	ubiquinol-cytochrome c reductase complex core protein i, mitochondrial precursor (ec 1.10.2.2). [source:swissprot;acc:p31930]	Divided	5246.38	6037.37	1.15077	
435	gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p18507]	Subtracted	6739.82	7644.62	904.8	
435	proline synthetase co-transcribed bacterial homolog protein. [source:swissprot;acc:o94903]	Divided	5233.86	6022.6	1.1507	
436	arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [source:refseq;acc:nm_021069]	Divided	6230.94	7168.2	1.15042	
436	gamma-aminobutyric-acid receptor alpha-1 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p14867]	Subtracted	6739.83	7644.63	904.8	
437	gamma-aminobutyric-acid receptor alpha-3 subunit precursor (gaba(a) receptor). [source:swissprot;acc:p34903]	Subtracted	6739.83	7644.63	904.8	
437	suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [source:swissprot;acc:q9nq55]	Divided	3779.92	4348.48	1.15042	

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/