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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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Gene description Network Comparison Type Rank Value Type Filtered Interaction Map red network_comparison green

Results: HTML CSV LaTeX

Showing element 51 to 100 of 19268 in total

Value Type	Ranked

description	Network Comparison Type	Rank	Filtered	Interaction Map	red	network_comparison	green	
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [source:swissprot;acc:p29312]	Subtracted	2185	1	Low confidence	198.65	3.748	194.902	
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [source:swissprot;acc:p29312]	Subtracted	2391	1	High confidence	220.683	0.827	221.51	
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [source:swissprot;acc:p52758]	Divided	1044	1	Low confidence	201.723	1.02415	196.966	
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [source:swissprot;acc:p52758]	Divided	2366	1	High confidence	203.353	1.00407	202.529	
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [source:swissprot;acc:p52758]	Subtracted	1035	1	Low confidence	201.723	4.757	196.966	
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [source:swissprot;acc:p52758]	Subtracted	2393	1	High confidence	203.353	0.824	202.529	
15 kda selenoprotein precursor. [source:swissprot;acc:o60613]	Divided	1948	1	High confidence	214.522	1.00984	212.432	
15 kda selenoprotein precursor. [source:swissprot;acc:o60613]	Divided	4465	1	Low confidence	202.928	1.00907	201.104	
15 kda selenoprotein precursor. [source:swissprot;acc:o60613]	Subtracted	1920	1	High confidence	214.522	2.09	212.432	
15 kda selenoprotein precursor. [source:swissprot;acc:o60613]	Subtracted	4468	1	Low confidence	202.928	1.824	201.104	
15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [source:swissprot;acc:p15428]	Divided	2855	1	High confidence	0.00001	1	0.00001	
15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [source:swissprot;acc:p15428]	Divided	4126	1	Low confidence	197.858	1.01062	195.778	
15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [source:swissprot;acc:p15428]	Subtracted	2855	1	High confidence	0	0	0	
15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [source:swissprot;acc:p15428]	Subtracted	4182	1	Low confidence	197.858	2.08	195.778	
16.7kd protein. [source:refseq;acc:nm_016139]	Divided	3267	1	Low confidence	198.949	1.01575	195.864	
16.7kd protein. [source:refseq;acc:nm_016139]	Subtracted	3341	1	Low confidence	198.949	3.085	195.864	
17 beta-hydroxysteroid dehydrogenase. [source:sptrembl;acc:q13034]	Divided	1051	1	High confidence	211.449	1.03097	217.998	
17 beta-hydroxysteroid dehydrogenase. [source:sptrembl;acc:q13034]	Divided	1803	1	Low confidence	199.592	1.02012	195.655	
17 beta-hydroxysteroid dehydrogenase. [source:sptrembl;acc:q13034]	Subtracted	1029	1	High confidence	211.449	6.549	217.998	
17 beta-hydroxysteroid dehydrogenase. [source:sptrembl;acc:q13034]	Subtracted	1836	1	Low confidence	199.592	3.937	195.655	
17-beta-hydroxysteroid dehydrogenase type vii-like. [source:refseq;acc:nm_182829]	Divided	627	0	Low confidence	10347.7	1.02953	10050.9	
17-beta-hydroxysteroid dehydrogenase type vii-like. [source:refseq;acc:nm_182829]	Divided	2142	1	Low confidence	196.577	1.01915	192.884	
17-beta-hydroxysteroid dehydrogenase type vii-like. [source:refseq;acc:nm_182829]	Subtracted	641	0	Low confidence	10347.7	296.8	10050.9	
17-beta-hydroxysteroid dehydrogenase type vii-like. [source:refseq;acc:nm_182829]	Subtracted	2279	1	Low confidence	196.577	3.693	192.884	
2,4-dienoyl coa reductase 2, peroxisomal; peroxisomal 2,4-dienoyl-coa reductase. [source:refseq;acc:nm_020664]	Divided	3846	1	Low confidence	201.014	1.01306	198.422	
2,4-dienoyl coa reductase 2, peroxisomal; peroxisomal 2,4-dienoyl-coa reductase. [source:refseq;acc:nm_020664]	Subtracted	3842	1	Low confidence	201.014	2.592	198.422	
2-hydroxyacylsphingosine 1-beta-galactosyltransferase precursor (ec 2.4.1.45) (udp-galactose-ceramide galactosyltransferase) (ceramide udp-galactosyltransferase) (cerebroside synthase). [source:swissprot;acc:q16880]	Divided	4455	1	Low confidence	207	1.00928	205.097	
2-hydroxyacylsphingosine 1-beta-galactosyltransferase precursor (ec 2.4.1.45) (udp-galactose-ceramide galactosyltransferase) (ceramide udp-galactosyltransferase) (cerebroside synthase). [source:swissprot;acc:q16880]	Subtracted	4270	1	Low confidence	207	1.903	205.097	
2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [source:swissprot;acc:q9uj83]	Divided	941	1	Low confidence	207.026	1.02493	201.99	
2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [source:swissprot;acc:q9uj83]	Divided	2007	1	High confidence	225.019	1.00919	222.969	
2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [source:swissprot;acc:q9uj83]	Subtracted	870	1	Low confidence	207.026	5.036	201.99	
2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [source:swissprot;acc:q9uj83]	Subtracted	1954	1	High confidence	225.019	2.05	222.969	
2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [source:swissprot;acc:q02218]	Divided	994	1	Low confidence	201.562	1.02457	196.729	
2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [source:swissprot;acc:q02218]	Divided	1160	1	High confidence	208.55	1.02633	214.041	
2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [source:swissprot;acc:q02218]	Subtracted	992	1	Low confidence	201.562	4.833	196.729	
2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [source:swissprot;acc:q02218]	Subtracted	1164	1	High confidence	208.55	5.491	214.041	
2-oxoisovalerate dehydrogenase alpha subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component alpha chain) (bckdh e1-alpha). [source:swissprot;acc:p12694]	Divided	1484	1	High confidence	198.927	1.0191	202.726	
2-oxoisovalerate dehydrogenase alpha subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component alpha chain) (bckdh e1-alpha). [source:swissprot;acc:p12694]	Divided	4541	1	Low confidence	202.824	1.00806	201.202	
2-oxoisovalerate dehydrogenase alpha subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component alpha chain) (bckdh e1-alpha). [source:swissprot;acc:p12694]	Subtracted	1515	1	High confidence	198.927	3.799	202.726	
2-oxoisovalerate dehydrogenase alpha subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component alpha chain) (bckdh e1-alpha). [source:swissprot;acc:p12694]	Subtracted	4538	1	Low confidence	202.824	1.622	201.202	
2-oxoisovalerate dehydrogenase beta subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component beta chain) (bckdh e1-beta). [source:swissprot;acc:p21953]	Divided	1389	1	High confidence	218.47	1.02148	213.875	
2-oxoisovalerate dehydrogenase beta subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component beta chain) (bckdh e1-beta). [source:swissprot;acc:p21953]	Divided	1439	1	Low confidence	203.206	1.0217	198.891	
2-oxoisovalerate dehydrogenase beta subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component beta chain) (bckdh e1-beta). [source:swissprot;acc:p21953]	Subtracted	1336	1	High confidence	218.47	4.595	213.875	
2-oxoisovalerate dehydrogenase beta subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component beta chain) (bckdh e1-beta). [source:swissprot;acc:p21953]	Subtracted	1394	1	Low confidence	203.206	4.315	198.891	
20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [source:swissprot;acc:p52298]	Divided	183	1	High confidence	228.306	1.153	198.011	
20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [source:swissprot;acc:p52298]	Divided	276	1	Low confidence	199.939	1.04421	191.474	
20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [source:swissprot;acc:p52298]	Subtracted	140	1	High confidence	228.306	30.295	198.011	
20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [source:swissprot;acc:p52298]	Subtracted	295	1	Low confidence	199.939	8.465	191.474	
25 kda brain-specific protein (p25-alpha). [source:swissprot;acc:o94811]	Divided	1085	1	Low confidence	203.933	1.02382	199.188	
25 kda brain-specific protein (p25-alpha). [source:swissprot;acc:o94811]	Subtracted	1046	1	Low confidence	203.933	4.745	199.188	

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/