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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Value Type Interaction Map description Network Comparison Type Rank Gene Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1375 to 1424 of 3228 in total 
Value Type	Measured
Interaction Map	High confidence
Network Comparison Type	Divided
Filtered	1

description	Rank	red	green	network_comparison	
hydroxyacid oxidase 2 (ec 1.1.3.15) (haox2) ((s)-2-hydroxy-acid oxidase, peroxisomal) (long chain alpha-hydroxy acid oxidase) (long- chain l-2-hydroxy acid oxidase). [source:swissprot;acc:q9nyq3]	2382	4457.6	4642.72	1.04153	
hydroxyacylglutathione hydrolase (ec 3.1.2.6) (glyoxalase ii) (glx ii). [source:swissprot;acc:q16775]	2398	6707.29	6970.07	1.03918	
hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [source:swissprot;acc:p46597]	1919	5444.6	5783.95	1.06233	
hydroxymethylglutaryl-coa synthase, cytoplasmic (ec 2.3.3.10) (hmg-coa synthase) (3-hydroxy-3-methylglutaryl coenzyme a synthase). [source:swissprot;acc:q01581]	2303	6946.6	7263.68	1.04565	
hydroxymethylglutaryl-coa synthase, mitochondrial precursor (ec 2.3.3.10) (hmg-coa synthase) (3-hydroxy-3-methylglutaryl coenzyme a synthase). [source:swissprot;acc:p54868]	2301	6946.6	7263.68	1.04565	
hyporthetical protein mgc27169. [source:refseq;acc:nm_176782]	2468	7765.3	8004	1.03074	
hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [source:swissprot;acc:p00492]	420	10235.2	11830.8	1.15589	
hypoxia-inducible factor-3 alpha isoform a; inhibitory pas domain protein. [source:refseq;acc:nm_152794]	1007	5707.73	6249.1	1.09485	
i-kappa-b-interacting ras-like protein 2. [source:refseq;acc:nm_017595]	1197	5721.19	6217.2	1.0867	
immature colon carcinoma transcript 1 (digestion substraction 1) (ds- 1). [source:swissprot;acc:q14197]	1045	5364.32	5862.09	1.09279	
immunoglobulin-binding protein 1 (cd79a-binding protein 1) (b cell signal transduction molecule alpha 4) (alpha 4 protein). [source:swissprot;acc:p78318]	1257	5438.66	5893.87	1.0837	
imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [source:refseq;acc:nm_032549]	357	5061.11	5950.22	1.17567	
importin 4. [source:refseq;acc:nm_024658]	1403	5613.16	6050.16	1.07785	
importin 7; ran-binding protein 7. [source:refseq;acc:nm_006391]	1421	5628.53	6063.61	1.0773	
importin 8; ran-binding protein 8. [source:refseq;acc:nm_006390]	1422	5628.53	6063.61	1.0773	
importin 9. [source:refseq;acc:nm_018085]	2860	0.00001	0.00001	1	
importin alpha-1 subunit (karyopherin alpha-1 subunit) (srp1-beta) (rag cohort protein 2) (nucleoprotein interactor 1) (npi-1). [source:swissprot;acc:p52294]	1142	5789.07	6302.01	1.0886	
importin alpha-2 subunit (karyopherin alpha-2 subunit) (srp1-alpha) (rag cohort protein 1). [source:swissprot;acc:p52292]	2780	0.00001	0.00001	1	
importin alpha-3 subunit (karyopherin alpha-3 subunit) (srp1-gamma). [source:swissprot;acc:o00505]	801	6456.35	7169.75	1.1105	
importin alpha-4 subunit (karyopherin alpha-4 subunit) (qip1 protein). [source:swissprot;acc:o00629]	803	6455.02	7167.96	1.11045	
importin alpha-6 subunit (karyopherin alpha-5 subunit). [source:swissprot;acc:o15131]	1126	5792.08	6305.67	1.08867	
importin beta-1 subunit (karyopherin beta-1 subunit) (nuclear factor p97) (importin 90). [source:swissprot;acc:q14974]	797	6834.54	7590.49	1.11061	
importin beta-2 subunit (karyopherin beta-2 subunit) (transportin) (m9 region interaction protein) (mip). [source:swissprot;acc:q92973]	2149	5778.62	6086.03	1.0532	
importin beta-3 subunit (karyopherin beta-3 subunit) (ran-binding protein 5). [source:swissprot;acc:o00410]	904	6167.33	6785.98	1.10031	
importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [source:swissprot;acc:p55060]	701	7802.31	8731.82	1.11913	
indolethylamine n-methyltransferase (ec 2.1.1.49) (aromatic alkylamine n-methyltransferase) (indolamine n-methyltransferase) (arylamine n- methyltransferase) (amine n-methyltransferase). [source:swissprot;acc:o95050]	1676	5791.14	6193.02	1.0694	
inflammation-related g protein-coupled receptor ex33. [source:refseq;acc:nm_020370]	2714	5603.24	5583.64	1.00351	
inhibitor of growth family, member 1-like; inhibitor of growth 1-like. [source:refseq;acc:nm_001564]	2739	4877.74	4890.64	1.00264	
inhibitor of growth family, member 1; inhibitor of growth 1. [source:refseq;acc:nm_005537]	2736	4887.59	4902.08	1.00296	
inorganic pyrophosphatase (ec 3.6.1.1) (pyrophosphate phospho- hydrolase) (ppase). [source:swissprot;acc:q15181]	1901	5204.25	5530.11	1.06261	
inorganic pyrophosphatase 2 isoform 1. [source:refseq;acc:nm_176869]	1902	5204.25	5530.11	1.06261	
inosine-5'-monophosphate dehydrogenase 1 (ec 1.1.1.205) (imp dehydrogenase 1) (impdh-i) (impd 1). [source:swissprot;acc:p20839]	2245	5776.96	6049.61	1.0472	
inosine-5'-monophosphate dehydrogenase 2 (ec 1.1.1.205) (imp dehydrogenase 2) (impdh-ii) (impd 2). [source:swissprot;acc:p12268]	2243	5776.96	6049.61	1.0472	
inositol polyphosphate 5-phosphatase ocrl-1 (ec 3.1.3.36) (lowe's oculocerebrorenal syndrome protein). [source:swissprot;acc:q01968]	1981	5475.74	5800.97	1.05939	
inositol polyphosphate multikinase. [source:refseq;acc:nm_152230]	1542	5466	5865.33	1.07306	
inositol polyphosphate-4-phosphatase, type 1 isoform b; inositol polyphosphate-4-phosphatase, type i, 107kd; 4-phosphatase i; inositol polyphosphate-4-phosphatase i. [source:refseq;acc:nm_001566]	559	6167.93	7007.7	1.13615	
inositol polyphosphate-4-phosphatase, type ii, 105kd; inositol polyphosphate 4-phosphatase ii; 4-phosphatase ii. [source:refseq;acc:nm_003866]	557	6167.93	7007.7	1.13615	
inositol polyphosphate-5-phosphatase; phosphatidylinositol polyphosphate 5-phosphatase type iv; phosphatidylinositol (4,5) bisphosphate 5-phosphatase. [source:refseq;acc:nm_019892]	2912	0.00001	0.00001	1	
inositol-1(or 4)-monophosphatase (ec 3.1.3.25) (impase) (imp) (inositol monophosphatase) (lithium-sensitive myo-inositol monophosphatase a1). [source:swissprot;acc:p29218]	1717	6069.65	6484.94	1.06842	
inositol-1(or 4)-monophosphatase 2 (ec 3.1.3.25) (impase 2) (imp 2) (inositol monophosphatase 2) (myo-inositol monophosphatase a2). [source:swissprot;acc:o14732]	1716	6070.41	6485.85	1.06844	
insulin gene enhancer protein isl-1 (islet-1). [source:swissprot;acc:p20663]	2626	7424.26	7534.05	1.01479	
insulin gene enhancer protein isl-2 (islet-2). [source:swissprot;acc:q96a47]	2638	7433.72	7525.14	1.0123	
integral membrane protein 2a (e25 protein). [source:swissprot;acc:o43736]	986	6362.64	6976.1	1.09642	
integral membrane protein 2b (transmembrane protein bri) [contains: abri/adan amyloid peptide]. [source:swissprot;acc:q9y287]	984	6362.64	6976.1	1.09642	
integral membrane protein 2c (transmembrane protein bri3) (npd018). [source:swissprot;acc:q9nqx7]	985	6362.64	6976.1	1.09642	
integral membrane protein cii-3b. [source:sptrembl;acc:o75609]	2511	6256.42	6415.04	1.02535	
integrin alpha-3 precursor (galactoprotein b3) (gapb3) (vla-3 alpha chain) (cd49c). [source:swissprot;acc:p26006]	3224	0.00001	0.00001	1	
integrin alpha-6 precursor (vla-6) (cd49f). [source:swissprot;acc:p23229]	3158	0.00001	0.00001	1	
integrin alpha-7 precursor. [source:swissprot;acc:q13683]	2978	0.00001	0.00001	1	
integrin beta-1 precursor (fibronectin receptor beta subunit) (cd29 antigen) (integrin vla-4 beta subunit). [source:swissprot;acc:p05556]	2905	0.00001	0.00001	1	

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/