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.


Navigation/Query Panel:
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 2430 to 2479 of 6456 in total 
Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
1215	cyclin m2; ancient conserved domain protein 2. [source:refseq;acc:nm_017649]	Subtracted	5736.34	6226.88	490.54	
1216	cyclin m4; ancient conserved domain protein 4. [source:refseq;acc:nm_020184]	Subtracted	5736	6226.52	490.52	
1216	fibulin-2 precursor. [source:swissprot;acc:p98095]	Divided	8670.59	9412.9	1.08561	
1217	cad protein [includes: glutamine-dependent carbamoyl-phosphate synthase (ec 6.3.5.5); aspartate carbamoyltransferase (ec 2.1.3.2); dihydroorotase (ec 3.5.2.3)]. [source:swissprot;acc:p27708]	Divided	6021.21	6536.45	1.08557	
1217	tcd37 homolog; prune. [source:refseq;acc:nm_021222]	Subtracted	5735.95	6226.46	490.51	
1218	cyclin m1; ancient conserved domain protein 1. [source:refseq;acc:nm_020348]	Subtracted	5735.74	6226.23	490.49	
1218	cyclin m4; ancient conserved domain protein 4. [source:refseq;acc:nm_020184]	Divided	5736	6226.52	1.08552	
1219	cyclin m3; ancient conserved domain protein 3. [source:refseq;acc:nm_017623]	Subtracted	5735.65	6226.13	490.48	
1219	tcd37 homolog; prune. [source:refseq;acc:nm_021222]	Divided	5735.95	6226.46	1.08552	
1220	cyclin m3; ancient conserved domain protein 3. [source:refseq;acc:nm_017623]	Divided	5735.65	6226.13	1.08551	
1220	mesoderm induction early response 1. [source:refseq;acc:nm_020948]	Subtracted	6291.89	6781.6	489.71	
1221	cyclin m2; ancient conserved domain protein 2. [source:refseq;acc:nm_017649]	Divided	5736.34	6226.88	1.08551	
1221	proteasome subunit alpha type 3 (ec 3.4.25.1) (proteasome component c8) (macropain subunit c8) (multicatalytic endopeptidase complex subunit c8). [source:swissprot;acc:p25788]	Subtracted	6291.89	6781.6	489.71	
1222	cyclin c. [source:swissprot;acc:p24863]	Subtracted	6200.93	6690.57	489.64	
1222	cyclin m1; ancient conserved domain protein 1. [source:refseq;acc:nm_020348]	Divided	5735.74	6226.23	1.08551	
1223	serine/threonine protein kinase 23 (ec 2.7.1.37) (muscle-specific serine kinase 1) (mssk-1). [source:swissprot;acc:q9upe1]	Subtracted	5894.47	6383.73	489.26	
1223	transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [source:swissprot;acc:p51854]	Divided	6011.44	6524.55	1.08536	
1224	gtp binding protein 2. [source:refseq;acc:nm_019096]	Subtracted	5894.47	6383.73	489.26	
1224	splicing factor 3b subunit 4 (spliceosome associated protein 49) (sap 49) (sf3b50) (pre-mrna splicing factor sf3b 49 kda subunit). [source:swissprot;acc:q15427]	Divided	4331.35	4700.91	1.08532	
1225	apurinic/apyrimidinic endonuclease 2; apurinic/apyrimidinic endonuclease-like 2; apex nuclease-like 2. [source:refseq;acc:nm_014481]	Divided	5546.5	6019.57	1.08529	
1225	cyclic-amp-dependent transcription factor atf-6 beta (activating transcription factor 6 beta) (atf6-beta) (camp responsive element binding protein-like 1) (camp response element binding protein-related protein) (creb-rp) (g13 protein). [source:swissprot;acc:q99941]	Subtracted	5894.47	6383.73	489.26	
1226	dna segment on chromosome 6(unique) 2654 expressed sequence; dna segment on chromosome x (unique) 2654 expressed sequence. [source:refseq;acc:nm_012135]	Subtracted	5894.47	6383.73	489.26	
1226	tyrosinase-related gene segment, exon 5 (fragment). [source:sptrembl;acc:q15677]	Divided	5997.24	6508.62	1.08527	
1227	nucleolar protein family a, member 2; component of the h/aca snornp. [source:refseq;acc:nm_017838]	Subtracted	5144.74	5634	489.26	
1227	pinin, desmosome associated protein; pinin. [source:refseq;acc:nm_002687]	Divided	5973.95	6483.32	1.08527	
1228	dopachrome tautomerase precursor (ec 5.3.3.12) (dt) (dct) (dopachrome delta-isomerase) (tyrosinase-related protein 2) (trp-2) (trp2). [source:swissprot;acc:p40126]	Divided	5998.58	6509.65	1.0852	
1228	sfrs protein kinase 2 isoform b. [source:refseq;acc:nm_182691]	Subtracted	5894.47	6383.73	489.26	
1229	5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [source:swissprot;acc:p17643]	Divided	5998.69	6509.74	1.08519	
1229	transcription initiation factor iif, alpha subunit (tfiif-alpha) (transcription initiation factor rap74). [source:swissprot;acc:p35269]	Subtracted	5144.74	5634	489.26	
1230	cyclic-amp-dependent transcription factor atf-6 alpha (activating transcription factor 6 alpha) (atf6-alpha). [source:swissprot;acc:p18850]	Subtracted	5894.47	6383.73	489.26	
1230	dystrobrevin binding protein 1; dysbindin. [source:refseq;acc:nm_032122]	Divided	5678.02	6161.65	1.08518	
1231	probable dimethyladenosine transferase (ec 2.1.1.-) (s- adenosylmethionine-6-n',n'-adenosyl(rrna) dimethyltransferase) (18s rrna dimethylase). [source:swissprot;acc:q9unq2]	Divided	5132.68	5569.54	1.08511	
1231	sfrs protein kinase 1; sr protein kinase 1. [source:refseq;acc:nm_003137]	Subtracted	5894.47	6383.73	489.26	
1232	nuclear factor, interleukin 3 regulated. [source:refseq;acc:nm_005384]	Divided	5869.24	6367.8	1.08494	
1232	xap-5 protein (hxc-26 protein). [source:swissprot;acc:q14320]	Subtracted	5894.47	6383.73	489.26	
1233	midasin (midas-containing protein). [source:swissprot;acc:q9nu22]	Subtracted	4483.08	4971.62	488.54	
1233	tyrosinase precursor (ec 1.14.18.1) (monophenol monooxygenase) (tumor rejection antigen ab) (sk29-ab) (lb24-ab). [source:swissprot;acc:p14679]	Divided	6004.54	6514.24	1.08489	
1234	programmed cell death protein 5 (tfar19 protein) (tf-1 cell apoptosis related gene-19 protein). [source:swissprot;acc:o14737]	Subtracted	4749.52	5237.77	488.25	
1234	similar to ecotropic viral integration site 5; neuroblastoma stage 4s gene. [source:refseq;acc:nm_145245]	Divided	5807.83	6300.47	1.08482	
1235	ecotropic viral integration site 5; neuroblastoma stage 4s gene. [source:refseq;acc:nm_005665]	Divided	5807.83	6300.47	1.08482	
1235	p47 protein isoform a. [source:refseq;acc:nm_016143]	Subtracted	6444.4	6932.39	487.99	
1236	p10-binding protein. [source:refseq;acc:nm_024491]	Divided	5594.18	6067.49	1.08461	
1236	presenilins associated rhomboid-like protein. [source:refseq;acc:nm_018622]	Subtracted	6153.36	6640.77	487.41	
1237	gamma-butyrobetaine,2-oxoglutarate dioxygenase (ec 1.14.11.1) (gamma-butyrobetaine hydroxylase) (gamma-bbh). [source:swissprot;acc:o75936]	Subtracted	6153.36	6640.77	487.41	
1237	tsc22-related inducible leucine zipper protein 2 (tsc-22-like protein thg-1). [source:swissprot;acc:q9y3q8]	Divided	5873.56	6370.31	1.08457	
1238	potential phospholipid-transporting atpase ih (ec 3.6.3.1) (atpase class i type 11a) (atpase is). [source:swissprot;acc:p98196]	Subtracted	6153.36	6640.77	487.41	
1238	sphingolipid delta 4 desaturase; membrane fatty acid (lipid) desaturase; dihydroceramide desaturase. [source:refseq;acc:nm_003676]	Divided	5873.56	6370.31	1.08457	
1239	daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [source:refseq;acc:nm_018959]	Divided	5654.53	6132.76	1.08457	
1239	kccr13l. [source:refseq;acc:nm_139179]	Subtracted	5538.8	6025.51	486.71	
1240	dna repair protein rad51 homolog 1 (hrad51) (hsrad51). [source:swissprot;acc:q06609]	Subtracted	5538.8	6025.51	486.71	

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/