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 2150 to 2199 of 3228 in total 
Value Type	Measured
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	green	network_comparison	
2150	karyopherin beta 2b, transportin; importin 3. [source:refseq;acc:nm_013433]	5779.82	6086.64	1.05308	
2151	early endosome antigen 1, 162kd; early endosome-associated protein. [source:refseq;acc:nm_003566]	4871.11	5129.63	1.05307	
2152	40s ribosomal protein s23. [source:swissprot;acc:p39028]	3560.63	3381.34	1.05302	
2153	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [source:swissprot;acc:o15235]	3560.63	3381.34	1.05302	
2154	acyl-coenzyme a oxidase 2, peroxisomal (ec 1.3.3.6) (branched-chain acyl-coa oxidase) (brcacox) (trihydroxycoprostanoyl-coa oxidase) (thccox) (thca-coa oxidase). [source:swissprot;acc:q99424]	6884.69	7247.36	1.05268	
2155	centaurin gamma 2. [source:swissprot;acc:q9upq3]	5701.81	6000.03	1.0523	
2156	general vesicular transport factor p115 (transcytosis associated protein) (tap) (vesicle docking protein). [source:swissprot;acc:o60763]	5701.81	6000.03	1.0523	
2157	centaurin gamma 1. [source:swissprot;acc:q99490]	5701.81	6000.03	1.0523	
2158	centaurin gamma 3. [source:swissprot;acc:q96p47]	5701.81	6000.03	1.0523	
2159	serine/threonine-protein kinase receptor r2 precursor (ec 2.7.1.37) (skr2) (activin receptor-like kinase 4) (alk-4) (actr-ib). [source:swissprot;acc:p36896]	5379.49	5660.18	1.05218	
2160	activin a receptor, type ic; activin receptor-like kinase 7. [source:refseq;acc:nm_145259]	5379.55	5660.25	1.05218	
2161	neuronal calcium sensor 1 (ncs-1) (frequenin homolog) (frequenin-like protein) (frequenin-like ubiquitous protein). [source:swissprot;acc:p36610]	5379.33	5660	1.05218	
2162	tgf-beta receptor type i precursor (ec 2.7.1.37) (tgfr-1) (tgf-beta type i receptor) (serine/threonine-protein kinase receptor r4) (skr4) (activin receptor-like kinase 5) (alk-5). [source:swissprot;acc:p36897]	5379.03	5659.64	1.05217	
2163	dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [source:swissprot;acc:p24928]	3569.06	3392.22	1.05213	
2164	ubiquinone biosynthesis monooxgenase coq6 (ec 1.14.13.-) (cgi-10). [source:swissprot;acc:q9y2z9]	6952.66	7315.06	1.05212	
2165	kynurenine 3-monooxygenase (kynurenine 3-hydroxylase). [source:refseq;acc:nm_003679]	6952.66	7315.06	1.05212	
2166	squalene monooxygenase (ec 1.14.99.7) (squalene epoxidase) (se). [source:swissprot;acc:q14534]	6952.66	7315.06	1.05212	
2167	mitochondrial 60s ribosomal protein l3 (l3mt). [source:swissprot;acc:p09001]	3641.62	3461.4	1.05207	
2168	hydroxyacid oxidase 1 (ec 1.1.3.15) (haox1) (glycolate oxidase) (gox). [source:swissprot;acc:q9ujm8]	4561.75	4799.24	1.05206	
2169	60s ribosomal protein l5. [source:swissprot;acc:p46777]	3639.65	3459.64	1.05203	
2170	exonuclease 1 isoform b; rad2 nuclease family member, homolog of s. cerevisiae exonuclease 1. [source:refseq;acc:nm_006027]	5825.61	6126.74	1.05169	
2171	phd finger protein 9. [source:refseq;acc:nm_018062]	5825.61	6126.74	1.05169	
2172	small optic lobes homolog; small optic lobes, drosophila, homolog of. [source:refseq;acc:nm_005632]	5825.61	6126.74	1.05169	
2173	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [source:swissprot;acc:p12830]	3641.4	3462.96	1.05153	
2174	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [source:sptrembl;acc:q9br02]	3641.45	3463.02	1.05152	
2175	60s ribosomal protein l23a. [source:swissprot;acc:p29316]	3642.13	3463.88	1.05146	
2176	potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [source:swissprot;acc:p16389]	6674.58	7015.93	1.05114	
2177	elav-like protein 3 (hu-antigen c) (huc) (paraneoplastic cerebellar degeneration-associated antigen) (paraneoplastic limbic encephalitis antigen 21). [source:swissprot;acc:q14576]	5887.43	6187.82	1.05102	
2178	elav-like protein 1 (hu-antigen r) (hur). [source:swissprot;acc:q15717]	5893.23	6193.33	1.05092	
2179	elav-like protein 4 (paraneoplastic encephalomyelitis antigen hud) (hu-antigen d). [source:swissprot;acc:p26378]	5896.51	6196.59	1.05089	
2180	elav-like protein 2 (hu-antigen b) (hub) (elav-like neuronal protein 1) (nervous system-specific rna binding protein hel-n1). [source:swissprot;acc:q12926]	5900.25	6200.24	1.05084	
2181	triosephosphate isomerase (ec 5.3.1.1) (tim). [source:swissprot;acc:p00938]	4915.05	5164.75	1.0508	
2182	cug triplet repeat rna-binding protein 1 (cug-bp1) (rna-binding protein brunol-2) (deadenylation factor cug-bp) (50 kda nuclear polyadenylated rna-binding protein) (eden-bp). [source:swissprot;acc:q92879]	5875.13	6173.41	1.05077	
2183	cug triplet repeat, rna binding protein 2; elav-type rna-binding protein; cug triplet repeat,rna-binding protein 2; cug triplet repeat, rna-binding protein 2; neuroblastoma apoptosis-related rna-binding protein. [source:refseq;acc:nm_006561]	5875.11	6173.39	1.05077	
2184	rna-binding region containing protein 1 (hsrnaseb) (ssdna binding protein seb4) (cll-associated antigen kw-5). [source:swissprot;acc:q9h0z9]	5838.01	6132.35	1.05042	
2185	60s ribosomal protein l12. [source:swissprot;acc:p30050]	3586.32	3414.42	1.05035	
2186	60s ribosomal protein l12 like protein. [source:sptrembl;acc:o60886]	3586.3	3414.4	1.05035	
2187	dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [source:sptrembl;acc:q9nq02]	3586.31	3414.41	1.05035	
2188	potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [source:swissprot;acc:q09470]	6682.7	7018.29	1.05022	
2189	clathrin heavy chain 1 (clh-17). [source:swissprot;acc:q00610]	5285.03	5033.55	1.04996	
2190	phosducin-like protein (phlp). [source:swissprot;acc:q13371]	5285.38	5034.86	1.04976	
2191	replication protein a 70 kda dna-binding subunit (rp-a) (rf-a) (replication factor-a protein 1) (single-stranded dna-binding protein). [source:swissprot;acc:p27694]	5285.38	5034.86	1.04976	
2192	replication protein a 32 kda subunit (rp-a) (rf-a) (replication factor-a protein 2). [source:swissprot;acc:p15927]	5285.38	5034.86	1.04976	
2193	phosducin (phd) (33 kda phototransducing protein) (meka protein). [source:swissprot;acc:p20941]	5285.38	5034.86	1.04976	
2194	dna repair protein rad52 homolog. [source:swissprot;acc:p43351]	5285.38	5034.86	1.04976	
2195	ribose 5-phosphate isomerase (ec 5.3.1.6) (phosphoriboisomerase). [source:swissprot;acc:p49247]	6197.11	6504.93	1.04967	
2196	potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [source:swissprot;acc:p22459]	6688.64	7020.02	1.04954	
2197	clathrin heavy chain 2 (clh-22). [source:swissprot;acc:p53675]	5285.79	5036.39	1.04952	
2198	complement component 1, q subcomponent binding protein, mitochondrial precursor (glycoprotein gc1qbp) (gc1q-r protein) (hyaluronan-binding protein 1) (p32) (p33). [source:swissprot;acc:q07021]	6344.31	6657.98	1.04944	
2199	sirtuin 1; sir2-like 1; sirtuin type 1; sir2alpha; sirtuin silent mating type information regulation 2 homolog 1 (s. cerevisiae). [source:refseq;acc:nm_012238]	6344.31	6657.98	1.04944	

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/