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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 3430 to 3479 of 6456 in total 
Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
1715	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [source:swissprot;acc:q9uiv8]	Subtracted	5767.69	6165.87	398.18	
1716	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]	Divided	6070.41	6485.85	1.06844	
1716	oxysterols receptor lxr-beta (liver x receptor beta) (nuclear orphan receptor lxr-beta) (ubiquitously-expressed nuclear receptor) (nuclear receptor ner). [source:swissprot;acc:p55055]	Subtracted	5767.69	6165.87	398.18	
1717	inositol-1(or 4)-monophosphatase (ec 3.1.3.25) (impase) (imp) (inositol monophosphatase) (lithium-sensitive myo-inositol monophosphatase a1). [source:swissprot;acc:p29218]	Divided	6069.65	6484.94	1.06842	
1717	upf0183 protein. [source:swissprot;acc:q9bsu1]	Subtracted	5767.69	6165.87	398.18	
1718	antithrombin-iii precursor (atiii) (pro0309). [source:swissprot;acc:p01008]	Subtracted	5767.69	6165.87	398.18	
1718	coatomer alpha subunit (alpha-coat protein) (alpha-cop) (hepcop) (hep-cop) [contains: xenin (xenopsin-related peptide); proxenin]. [source:swissprot;acc:p53621]	Divided	9720.64	9099.1	1.06831	
1719	mannose-6-phosphate isomerase (ec 5.3.1.8) (phosphomannose isomerase) (pmi) (phosphohexomutase). [source:swissprot;acc:p34949]	Divided	5458.12	5830.76	1.06827	
1719	translation initiation factor eif-2b alpha subunit (eif-2b gdp-gtp exchange factor). [source:swissprot;acc:q14232]	Subtracted	5767.69	6165.87	398.18	
1720	putative ankyrin-repeat containing protein. [source:refseq;acc:nm_025185]	Divided	5458.12	5830.76	1.06827	
1720	squamous cell carcinoma antigen 1 (scca-1) (protein t4-a). [source:swissprot;acc:p29508]	Subtracted	5767.69	6165.87	398.18	
1721	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [source:swissprot;acc:q14849]	Divided	5458.12	5830.76	1.06827	
1721	oxysterols receptor lxr-alpha (liver x receptor alpha) (nuclear orphan receptor lxr-alpha). [source:swissprot;acc:q13133]	Subtracted	5767.69	6165.87	398.18	
1722	exocyst complex component sec6. [source:swissprot;acc:o60645]	Subtracted	7387.42	7785.45	398.03	
1722	protocadherin fat 2 precursor (hfat2) (multiple epidermal growth factor-like domains 1). [source:swissprot;acc:q9nyq8]	Divided	5458.12	5830.76	1.06827	
1723	cadherin-related tumor suppressor homolog precursor (fat protein homolog). [source:swissprot;acc:q14517]	Divided	5458.12	5830.76	1.06827	
1723	glutamine synthetase (ec 6.3.1.2) (glutamate--ammonia ligase). [source:swissprot;acc:p15104]	Subtracted	6215.55	6613.46	397.91	
1724	ischemia/reperfusion inducible protein. [source:refseq;acc:nm_024640]	Subtracted	5885.08	6282.97	397.89	
1724	mln64 n-terminal domain homolog (stard3 n-terminal like protein). [source:swissprot;acc:o95772]	Divided	5458.12	5830.76	1.06827	
1725	glucose-6-phosphate isomerase (ec 5.3.1.9) (gpi) (phosphoglucose isomerase) (pgi) (phosphohexose isomerase) (phi) (neuroleukin) (nlk) (sperm antigen-36) (sa-36). [source:swissprot;acc:p06744]	Divided	6051.06	6463.65	1.06818	
1725	homeobox protein six1 (sine oculis homeobox homolog 1). [source:swissprot;acc:q15475]	Subtracted	5778.4	6176.13	397.73	
1726	5-formyltetrahydrofolate cyclo-ligase (ec 6.3.3.2) (5,10-methenyl- tetrahydrofolate synthetase) (methenyl-thf synthetase) (mthfs). [source:swissprot;acc:p49914]	Subtracted	6175.23	6572.85	397.62	
1726	peroxisomal 3,2-trans-enoyl-coa isomerase (ec 5.3.3.8) (dodecenoyl-coa delta-isomerase) (d3,d2-enoyl-coa isomerase) (dbi-related protein 1) (drs-1) (hepatocellular carcinoma-associated antigen 88). [source:swissprot;acc:o75521]	Divided	7048.79	7527.42	1.0679	
1727	elongation factor 1-alpha 1 (ef-1-alpha-1) (elongation factor 1 a-1) (eef1a-1) (elongation factor tu) (ef-tu). [source:swissprot;acc:p04720]	Subtracted	5874.83	6272.26	397.43	
1727	phospholipid scramblase 2 (pl scramblase 2) (ca(2+)-dependent phospholipid scramblase 2). [source:swissprot;acc:q9nry7]	Divided	6260.43	6685.05	1.06783	
1728	ba138e2.1.2 (formin-binding protein 17 (fbp17), isoform 2). [source:sptrembl;acc:q96lh6]	Divided	5475.44	5127.66	1.06782	
1728	zinc-finger protein zpr1 (zinc finger protein 259). [source:swissprot;acc:o75312]	Subtracted	5874.83	6272.26	397.43	
1729	elongation factor 1-alpha 2 (ef-1-alpha-2) (elongation factor 1 a-2) (eef1a-2) (statin s1). [source:swissprot;acc:q05639]	Subtracted	5874.83	6272.26	397.43	
1729	phospholipid scramblase 3 (pl scramblase 3) (ca(2+)-dependent phospholipid scramblase 3). [source:swissprot;acc:q9nry6]	Divided	6259.8	6684.31	1.06782	
1730	phospholipid scramblase 4 (pl scramblase 4) (ca(2+)-dependent phospholipid scramblase 4). [source:swissprot;acc:q9nrq2]	Divided	6259.8	6684.3	1.06781	
1730	u3 small nucleolar ribonucleoprotein protein mpp10 (m phase phosphoprotein 10). [source:swissprot;acc:o00566]	Subtracted	4115.9	4513.14	397.24	
1731	lamin b2. [source:swissprot;acc:q03252]	Divided	5840.77	6236.53	1.06776	
1731	proliferation-associated protein 2g4 (cell cycle protein p38-2g4 homolog) (hg4-1). [source:swissprot;acc:q9uq80]	Subtracted	5777.1	6174.15	397.05	
1732	homeobox protein six2 (sine oculis homeobox homolog 2). [source:swissprot;acc:q9npc8]	Subtracted	5775.55	6171.79	396.24	
1732	proteasome subunit beta type 7 precursor (ec 3.4.25.1) (proteasome subunit z) (macropain chain z) (multicatalytic endopeptidase complex chain z). [source:swissprot;acc:q99436]	Divided	5781.8	6173.1	1.06768	
1733	elongation factor 1-alpha 1 (ef-1-alpha-1) (elongation factor 1 a-1) (eef1a-1) (elongation factor tu) (ef-tu). [source:swissprot;acc:p04720]	Divided	5874.83	6272.26	1.06765	
1733	serine/threonine-protein kinase plk (ec 2.7.1.-) (plk-1) (serine- threonine protein kinase 13) (stpk13). [source:swissprot;acc:p53350]	Subtracted	5878.2	6274.27	396.07	
1734	lamin b2. [source:swissprot;acc:q03252]	Subtracted	5840.77	6236.53	395.76	
1734	zinc-finger protein zpr1 (zinc finger protein 259). [source:swissprot;acc:o75312]	Divided	5874.83	6272.26	1.06765	
1735	elongation factor 1-alpha 2 (ef-1-alpha-2) (elongation factor 1 a-2) (eef1a-2) (statin s1). [source:swissprot;acc:q05639]	Divided	5874.83	6272.26	1.06765	
1735	topoisomerase (dna) ii binding protein. [source:refseq;acc:nm_007027]	Subtracted	6920.71	7315.59	394.88	
1736	acyl-coenzyme a oxidase 1, peroxisomal (ec 1.3.3.6) (palmitoyl-coa oxidase) (aox). [source:swissprot;acc:q15067]	Subtracted	6920.71	7315.59	394.88	
1736	twinkle; likely ortholog of mouse t7 gp4-like protein with intramitochondrial nucleoid localization. [source:refseq;acc:nm_021830]	Divided	5925.65	6326.43	1.06763	
1737	atp synthase f chain, mitochondrial (ec 3.6.3.14). [source:swissprot;acc:p56134]	Subtracted	6920.71	7315.59	394.88	
1737	rabaptin, rab gtpase binding effector protein 1; rabaptin-5; neurocrescin. [source:refseq;acc:nm_004703]	Divided	5925.65	6326.43	1.06763	
1738	ischemia/reperfusion inducible protein. [source:refseq;acc:nm_024640]	Divided	5885.08	6282.97	1.06761	
1738	probable atp-dependent helicase ddx35 (deah-box protein 35). [source:swissprot;acc:q9h5z1]	Subtracted	6920.71	7315.59	394.88	
1739	argininosuccinate synthase (ec 6.3.4.5) (citrulline--aspartate ligase). [source:swissprot;acc:p00966]	Divided	5695.57	6079.61	1.06743	
1739	calreticulin precursor (crp55) (calregulin) (hacbp) (erp60). [source:swissprot;acc:p27797]	Subtracted	5369.1	5763.72	394.62	
1740	epsin 2 isoform b; eps15 binding protein. [source:refseq;acc:nm_014964]	Subtracted	5948.26	6342.84	394.58	

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/