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 3858 to 3907 of 6456 in total

Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
1929	pxr2b protein. [source:refseq;acc:nm_016559]	Divided	6996.51	7429.18	1.06184	
1930	coactosin-like protein. [source:swissprot;acc:q14019]	Subtracted	5888.32	6245.89	357.57	
1930	p28 ing5. [source:refseq;acc:nm_032329]	Divided	5784.06	6141.48	1.06179	
1931	ring finger protein 25 (ec 6.3.2.-). [source:swissprot;acc:q96bh1]	Divided	9946.21	9367.66	1.06176	
1931	uracil-dna glycosylase, mitochondrial precursor (ec 3.2.2.-) (udg). [source:swissprot;acc:p13051]	Subtracted	5888.32	6245.89	357.57	
1932	hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [source:refseq;acc:nm_004712]	Divided	10300	9701.33	1.06171	
1932	probable glutamyl-trna(gln) amidotransferase subunit b, mitochondrial precursor (ec 6.3.5.-) (glu-adt subunit b) (cytochrome oxidase assembly factor pet112 homolog). [source:swissprot;acc:o75879]	Subtracted	5888.32	6245.89	357.57	
1933	conserved oligomeric golgi complex component 7. [source:swissprot;acc:p83436]	Divided	10300	9701.33	1.06171	
1933	rad9 homolog; cell cycle checkpoint control protein; rad9 homolog (s. pombe). [source:refseq;acc:nm_004584]	Subtracted	6218.34	6575.81	357.47	
1934	hrd1 protein isoform a; synoviolin1. [source:refseq;acc:nm_032431]	Subtracted	5514.19	5871.64	357.45	
1934	transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [source:swissprot;acc:q9y4p3]	Divided	5949.31	6313.1	1.06115	
1935	p28 ing5. [source:refseq;acc:nm_032329]	Subtracted	5784.06	6141.48	357.42	
1935	serine palmitoyltransferase 1 (ec 2.3.1.50) (long chain base biosynthesis protein 1) (lcb 1) (serine-palmitoyl-coa transferase 1) (spt 1) (spt1). [source:swissprot;acc:o15269]	Divided	6167.29	6544.12	1.0611	
1936	translation initiation factor eif-2b delta subunit (eif-2b gdp-gtp exchange factor). [source:swissprot;acc:q9ui10]	Subtracted	5424.3	5781.58	357.28	
1936	williams-beuren syndrome critical region protein 20 copy b. [source:refseq;acc:nm_145645]	Divided	5171.45	5486.96	1.06101	
1937	40s ribosomal protein s26. [source:swissprot;acc:p02383]	Subtracted	5488.7	5131.89	356.81	
1937	williams beuren syndrome critical region 20a isoform 2; nol1/nop2/sun gene family member; williams-beuren syndrome critical region protein 20 copy a; williams beuren syndrome chromosome region 20. [source:refseq;acc:nm_018044]	Divided	5171.45	5486.96	1.06101	
1938	mitochondrial import inner membrane translocase subunit tim22. [source:swissprot;acc:q9y584]	Subtracted	5488.7	5131.89	356.81	
1938	williams beuren syndrome chromosome region 20c isoform 1. [source:refseq;acc:nm_032158]	Divided	5171.45	5486.96	1.06101	
1939	atp synthase mitochondrial f1 complex assembly factor 2. [source:refseq;acc:nm_145691]	Subtracted	5488.7	5131.89	356.81	
1939	brca1-associated ring domain protein 1 (bard-1). [source:swissprot;acc:q99728]	Divided	5669.9	6015.75	1.061	
1940	m-phase inducer phosphatase 3 (ec 3.1.3.48) (dual specificity phosphatase cdc25c). [source:swissprot;acc:p30307]	Divided	4450.17	4721.37	1.06094	
1940	ubiquinol-cytochrome c reductase complex 14 kda protein (ec 1.10.2.2) (complex iii subunit vi) (qp-c). [source:swissprot;acc:p14927]	Subtracted	5488.7	5131.89	356.81	
1941	atp-citrate synthase (ec 2.3.3.8) (atp-citrate (pro-s-)-lyase) (citrate cleavage enzyme). [source:swissprot;acc:p53396]	Subtracted	6064.92	6421.65	356.73	
1941	rac gtpase activating protein 1; gtpase activating protein. [source:refseq;acc:nm_013277]	Divided	5521.07	5856.93	1.06083	
1942	c-jun-amino-terminal kinase interacting protein 3 (jnk-interacting protein 3) (jip-3) (jnk map kinase scaffold protein 3) (mitogen- activated protein kinase 8-interacting protein 3). [source:swissprot;acc:q9upt6]	Subtracted	5941.24	6297.78	356.54	
1942	pre-mrna cleavage factor i, 59 kda subunit. [source:refseq;acc:nm_024811]	Divided	5805.06	6158.16	1.06083	
1943	p300/cbp-associated factor (ec 2.3.1.-) (p/caf) (histone acetylase pcaf). [source:swissprot;acc:q92831]	Divided	7210.87	7649.23	1.06079	
1943	proliferating cell nuclear antigen (pcna) (cyclin). [source:swissprot;acc:p12004]	Subtracted	4977.77	5333.78	356.01	
1944	general control of amino acid synthesis protein 5-like 2 (ec 2.3.1.-) (histone acetyltransferase gcn5) (hsgcn5). [source:swissprot;acc:q92830]	Divided	7210.64	7648.94	1.06079	
1944	tubulin tyrosine ligase-like protein hottl (hqp0207). [source:swissprot;acc:q9y4r7]	Subtracted	5387.64	5743.5	355.86	
1945	cofilin, non-muscle isoform (18 kda phosphoprotein) (p18). [source:swissprot;acc:p23528]	Divided	6230.21	6608.64	1.06074	
1945	splicing factor arginine/serine-rich 11 (arginine-rich 54 kda nuclear protein) (p54). [source:swissprot;acc:q05519]	Subtracted	5939.85	6294.91	355.06	
1946	cofilin, muscle isoform (cofilin 2). [source:swissprot;acc:q9y281]	Divided	6230.21	6608.64	1.06074	
1946	pre-mrna cleavage factor i, 59 kda subunit. [source:refseq;acc:nm_024811]	Subtracted	5805.06	6158.16	353.1	
1947	carboxypeptidase a5. [source:refseq;acc:nm_080385]	Subtracted	8353.97	8001.45	352.52	
1947	transcription initiation factor tfiid 100 kda subunit (tafii-100) (tafii100). [source:swissprot;acc:q15542]	Divided	7195.76	7632.83	1.06074	
1948	carboxypeptidase b precursor (ec 3.4.17.2) (pancreas-specific protein) (pasp). [source:swissprot;acc:p15086]	Subtracted	8353.97	8001.45	352.52	
1948	destrin (actin-depolymerizing factor) (adf). [source:swissprot;acc:p18282]	Divided	6230.21	6608.64	1.06074	
1949	neutral and basic amino acid transport protein rbat (b(0,+)-type amino acid transport protein) (nbat) (d2h). [source:swissprot;acc:q07837]	Subtracted	8353.97	8001.45	352.52	
1949	ubiquitin fusion degradation protein 1 homolog (ub fusion protein 1). [source:swissprot;acc:q92890]	Divided	6230.21	6608.64	1.06074	
1950	aminoacylase-1 (ec 3.5.1.14) (n-acyl-l-amino-acid amidohydrolase) (acy-1). [source:swissprot;acc:q03154]	Subtracted	8353.97	8001.45	352.52	
1950	glutaminyl-trna synthase (glutamine-hydrolyzing)-like 1. [source:refseq;acc:nm_018292]	Divided	5888.32	6245.89	1.06073	
1951	carboxypeptidase a1 precursor (ec 3.4.17.1). [source:swissprot;acc:p15085]	Subtracted	8353.97	8001.45	352.52	
1951	fatty-acid amide hydrolase (ec 3.1.-.-) (oleamide hydrolase) (anandamide amidohydrolase). [source:swissprot;acc:o00519]	Divided	5888.32	6245.89	1.06073	
1952	coactosin-like protein. [source:swissprot;acc:q14019]	Divided	5888.32	6245.89	1.06073	
1952	paired box protein pax-6 (oculorhombin) (aniridia, type ii protein). [source:swissprot;acc:p26367]	Subtracted	6318.3	6670.1	351.8	
1953	hiv-1 rev binding protein 2; rev interacting protein. [source:refseq;acc:nm_007043]	Subtracted	4077.89	4428.28	350.39	
1953	uracil-dna glycosylase, mitochondrial precursor (ec 3.2.2.-) (udg). [source:swissprot;acc:p13051]	Divided	5888.32	6245.89	1.06073	
1954	dead-box protein abstrakt homolog. [source:swissprot;acc:q9ujv9]	Subtracted	6101.12	6449.87	348.75	

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/