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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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 2208 to 2257 of 3228 in total 
Value Type	Measured
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	green	network_comparison	
2208	visinin-like protein 3 (vilip-3) (calcium-binding protein bdr-1) (hlp2) (hippocalcin-like protein 1). [source:swissprot;acc:p37235]	5259.97	5518.26	1.0491	
2209	neuron specific calcium-binding protein hippocalcin (p23k) (calcium- binding protein bdr-2). [source:swissprot;acc:p32076]	5259.1	5517.22	1.04908	
2210	neurocalcin delta. [source:swissprot;acc:p29554]	5258.96	5517.06	1.04908	
2211	40s ribosomal protein s20. [source:swissprot;acc:p17075]	3590.56	3422.6	1.04907	
2212	thioredoxin domain containing; thioredoxin-related transmembrane protein; thioredoxin domain-containing. [source:refseq;acc:nm_030755]	6087.68	6385.84	1.04898	
2213	proteasome subunit beta type 1 (ec 3.4.25.1) (proteasome component c5) (macropain subunit c5) (multicatalytic endopeptidase complex subunit c5) (proteasome gamma chain). [source:swissprot;acc:p20618]	6642.32	6967.61	1.04897	
2214	chromosome 11 open reading frame2; chromosome  11 open reading frame2. [source:refseq;acc:nm_013265]	5910.12	6199.28	1.04893	
2215	kinesin-like protein kif13a (kinesin-like protein rbkin). [source:swissprot;acc:q9h1h9]	5910.12	6199.28	1.04893	
2216	conserved oligomeric golgi complex component 2 (low density lipoprotein receptor defect c-complementing protein). [source:swissprot;acc:q14746]	5910.12	6199.28	1.04893	
2217	kinesin-like protein kif13b (kinesin-like protein gakin). [source:swissprot;acc:q9nqt8]	5910.12	6199.28	1.04893	
2218	wilms' tumor 1-associating protein (wt1-associated protein). [source:swissprot;acc:q15007]	6628.99	6952.04	1.04873	
2219	arf gtpase-activating protein git1 (g protein-coupled receptor kinase- interactor 1). [source:swissprot;acc:q9y2x7]	5853.67	6136.97	1.0484	
2220	cartilage oligomeric matrix protein precursor (comp). [source:swissprot;acc:p49747]	3936.2	3755.33	1.04816	
2221	thrombospondin 3 precursor. [source:swissprot;acc:p49746]	3936.33	3755.5	1.04815	
2222	sqv-7-like protein (fragment). [source:sptrembl;acc:o95454]	5309.65	5066.82	1.04793	
2223	abhydrolase domain containing protein 2 (protein phps1-2). [source:swissprot;acc:p08910]	5864.49	6145.14	1.04786	
2224	quaking isoform 6. [source:sptrembl;acc:q9p0x9]	5864.49	6145.14	1.04786	
2225	60s ribosomal protein l9. [source:swissprot;acc:p32969]	3750.99	3580.35	1.04766	
2226	ump-cmp kinase (ec 2.7.4.14) (cytidylate kinase) (deoxycytidylate kinase) (cytidine monophosphate kinase). [source:swissprot;acc:p30085]	3650.78	3484.91	1.0476	
2227	gtp:amp phosphotransferase mitochondrial (ec 2.7.4.10) (ak3) (adenylate kinase 3 alpha like 1). [source:swissprot;acc:q9uij7]	3650.78	3484.91	1.0476	
2228	adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [source:swissprot;acc:p27144]	3650.82	3484.97	1.04759	
2229	surfeit locus protein 5. [source:swissprot;acc:q15528]	3650.8	3484.94	1.04759	
2230	zinc finger protein 291. [source:swissprot;acc:q9by12]	3650.8	3484.94	1.04759	
2231	peroxisome biogenesis factor 1 (peroxin-1) (peroxisome biogenesis disorder protein 1). [source:swissprot;acc:o43933]	3650.8	3484.94	1.04759	
2232	protein 1-4 (atp binding protein associated with cell differentiation). [source:swissprot;acc:o14530]	3650.8	3484.94	1.04759	
2233	60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [source:swissprot;acc:p27635]	3614.08	3450.07	1.04754	
2234	ribosomal protein l10-like protein. [source:refseq;acc:nm_080746]	3614.07	3450.07	1.04754	
2235	40s ribosomal protein s3. [source:swissprot;acc:p23396]	3674.29	3508.13	1.04736	
2236	sodium/potassium-transporting atpase alpha-1 chain precursor (ec 3.6.3.9) (sodium pump 1) (na+/k+ atpase 1). [source:swissprot;acc:p05023]	5902.27	6181.21	1.04726	
2237	cathepsin l2 precursor (ec 3.4.22.43) (cathepsin v) (cathepsin u). [source:swissprot;acc:o60911]	5902.26	6181.21	1.04726	
2238	cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [source:swissprot;acc:p07711]	5902.27	6181.21	1.04726	
2239	sodium/potassium-transporting atpase alpha-3 chain (ec 3.6.3.9) (sodium pump 3) (na+/k+ atpase 3) (alpha(iii)). [source:swissprot;acc:p13637]	5902.27	6181.21	1.04726	
2240	sodium/potassium-transporting atpase alpha-2 chain precursor (ec 3.6.3.9) (sodium pump 2) (na+/k+ atpase 2). [source:swissprot;acc:p50993]	5902.27	6181.21	1.04726	
2241	protein arginine n-methyltransferase 3 (ec 2.1.1.-) (fragment). [source:swissprot;acc:o60678]	3670.45	3504.91	1.04723	
2242	40s ribosomal protein s2 (s4) (llrep3 protein). [source:swissprot;acc:p15880]	3670.45	3504.91	1.04723	
2243	inosine-5'-monophosphate dehydrogenase 2 (ec 1.1.1.205) (imp dehydrogenase 2) (impdh-ii) (impd 2). [source:swissprot;acc:p12268]	5776.96	6049.61	1.0472	
2244	gmp synthase [glutamine-hydrolyzing] (ec 6.3.5.2) (glutamine amidotransferase) (gmp synthetase). [source:swissprot;acc:p49915]	5776.96	6049.61	1.0472	
2245	inosine-5'-monophosphate dehydrogenase 1 (ec 1.1.1.205) (imp dehydrogenase 1) (impdh-i) (impd 1). [source:swissprot;acc:p20839]	5776.96	6049.61	1.0472	
2246	dj718p11.1.2 (novel class ii aminotransferase similar to serine palmotyltransferase (isoform 2)) (fragment). [source:sptrembl;acc:q9ugb5]	6209.77	6501.99	1.04706	
2247	rna-binding protein with multiple splicing (rbp-ms). [source:swissprot;acc:q93062]	5819.36	6092.93	1.04701	
2248	signal recognition particle 54 kda protein (srp54). [source:swissprot;acc:p13624]	5833.01	6106.48	1.04688	
2249	alcohol dehydrogenase class iii chi chain (ec 1.1.1.1) (glutathione- dependent formaldehyde dehydrogenase) (ec 1.2.1.1) (fdh). [source:swissprot;acc:p11766]	6834.03	7153.66	1.04677	
2250	esterase d (ec 3.1.1.1). [source:swissprot;acc:p10768]	6834.03	7153.66	1.04677	
2251	serine palmitoyltransferase 2 (ec 2.3.1.50) (long chain base biosynthesis protein 2) (lcb 2) (serine-palmitoyl-coa transferase 2) (spt 2). [source:swissprot;acc:o15270]	6196.65	6486.12	1.04671	
2252	arf gtpase-activating protein git2 (g protein-coupled receptor kinase- interactor 2). [source:swissprot;acc:q14161]	5840.54	6113.01	1.04665	
2253	mitochondrial ribosomal protein l17; lyst-interacting protein lip2. [source:refseq;acc:nm_022061]	3629.21	3467.48	1.04664	
2254	alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [source:swissprot;acc:p19652]	7383.13	7727.39	1.04663	
2255	60s ribosomal protein l10a (csa-19). [source:swissprot;acc:p53025]	3624.59	3463.37	1.04655	
2256	ubiquitin. [source:swissprot;acc:p02248]	7390.36	7733.85	1.04648	
2257	sr rich protein. [source:refseq;acc:nm_032870]	6245.32	6534.23	1.04626	

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/