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.

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 2018 to 2067 of 6456 in total

Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
1009	synapsin iii. [source:swissprot;acc:o14994]	Divided	5791.82	6340.86	1.0948	
1010	aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [source:refseq;acc:nm_032468]	Divided	5791.82	6340.86	1.0948	
1010	n-deacetylase/n-sulfotransferase (heparan glucosaminyl) 3. [source:refseq;acc:nm_004784]	Subtracted	5210.58	5749.33	538.75	
1011	hairy/enhancer-of-split related with yrpw motif 1 (hairy and enhancer of split related-1) (hesr-1) (cardiovascular helix-loop-helix factor 2) (hes-related repressor protein 2 herp2). [source:swissprot;acc:q9y5j3]	Divided	5791.82	6340.86	1.0948	
1011	n-deacetylase/n-sulfotransferase 4. [source:refseq;acc:nm_022569]	Subtracted	5210.58	5749.33	538.75	
1012	actin binding lim protein 2. [source:refseq;acc:nm_032432]	Divided	5791.82	6340.86	1.0948	
1012	heparan sulfate n-deacetylase/n-sulfotransferase (ec 2.8.2.8) (n-hsst) (hsnst) ([heparan sulfate]-glucosamine n-sulfotransferase) (n-heparan sulfate sulfotransferase) (glucosaminyl n-deacetylase/n- sulfotransferase). [source:swissprot;acc:p52848]	Subtracted	5210.58	5749.33	538.75	
1013	hairy/enhancer-of-split related with yrpw motif-like. [source:refseq;acc:nm_014571]	Divided	5791.82	6340.86	1.0948	
1013	protein cdc27hs (cell division cycle protein 27 homolog) (h-nuc). [source:swissprot;acc:p30260]	Subtracted	5210.58	5749.33	538.75	
1014	synapsin ii. [source:swissprot;acc:q92777]	Divided	5791.82	6340.86	1.0948	
1014	uridine kinase-like 1. [source:swissprot;acc:q9nwz5]	Subtracted	5548.78	6086.89	538.11	
1015	acetyl-coa carboxylase 2 (ec 6.4.1.2) (acc-beta) [includes: biotin carboxylase (ec 6.3.4.14)]. [source:swissprot;acc:o00763]	Subtracted	7237.39	7775.21	537.82	
1015	mitochondrial ribosome recycling factor. [source:refseq;acc:nm_138777]	Divided	5791.82	6340.86	1.0948	
1016	peroxisomal targeting signal 1 receptor (peroxismore receptor 1) (peroxisomal c-terminal targeting signal import receptor) (pts1-bp) (peroxin-5) (pts1 receptor). [source:swissprot;acc:p50542]	Divided	5791.82	6340.86	1.0948	
1016	rac-alpha serine/threonine kinase (ec 2.7.1.-) (rac-pk-alpha) (protein kinase b) (pkb) (c-akt). [source:swissprot;acc:p31749]	Subtracted	3889.27	4426.74	537.47	
1017	hairy/enhancer-of-split related with yrpw motif 2; gridlock; hes-related repressor protein 1. [source:refseq;acc:nm_012259]	Divided	5791.82	6340.86	1.0948	
1017	rac-gamma serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-gamma) (protein kinase akt-3) (protein kinase b, gamma) (pkb gamma) (stk-2). [source:swissprot;acc:q9y243]	Subtracted	3889.27	4426.74	537.47	
1018	rac-beta serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-beta) (protein kinase akt-2) (protein kinase b, beta) (pkb beta). [source:swissprot;acc:p31751]	Subtracted	3889.27	4426.74	537.47	
1018	transcription factor hes-1 (hairy and enhancer of split 1) (hairy- like) (hhl) (hairy homolog). [source:swissprot;acc:q14469]	Divided	5791.82	6340.86	1.0948	
1019	delta3,5-delta2,4-dienoyl-coa isomerase, mitochondrial precursor (ec 5.3.3.-). [source:swissprot;acc:q13011]	Divided	5791.82	6340.86	1.0948	
1019	nicotinate-nucleotide pyrophosphorylase [carboxylating] (ec 2.4.2.19) (quinolinate phosphoribosyltransferase [decarboxylating]) (qaprtase) (qprtase). [source:swissprot;acc:q15274]	Subtracted	5704	6241.36	537.36	
1020	actin-binding lim protein 1 isoform a; lim actin-binding protein 1; limatin; actin-binding lim protein. [source:refseq;acc:nm_002313]	Divided	5791.82	6340.86	1.0948	
1020	serine/threonine protein phosphatase 6 (ec 3.1.3.16) (pp6). [source:swissprot;acc:o00743]	Subtracted	7234.61	7771.58	536.97	
1021	sporulation-induced transcript 4-associated protein. [source:refseq;acc:nm_018312]	Subtracted	7234.61	7771.58	536.97	
1021	synapsin i (brain protein 4.1). [source:swissprot;acc:p17600]	Divided	5791.82	6340.86	1.0948	
1022	protein kinase clk2 (ec 2.7.1.-) (cdc-like kinase 2). [source:swissprot;acc:p49760]	Divided	6435.94	7045.75	1.09475	
1022	tetratricopeptide repeat protein 4 (my044 protein). [source:swissprot;acc:o95801]	Subtracted	6783.78	7320.39	536.61	
1023	acetyl-coa carboxylase 1 (ec 6.4.1.2) (acc-alpha) [includes: biotin carboxylase (ec 6.3.4.14)]. [source:swissprot;acc:q13085]	Subtracted	7232.14	7768.35	536.21	
1023	protein kinase clk3 (ec 2.7.1.-) (cdc-like kinase 3). [source:swissprot;acc:p49761]	Divided	6435.02	7044.65	1.09474	
1024	cysteine-rich protein 1 (cysteine-rich intestinal protein) (crip) (cysteine-rich heart protein) (hcrhp). [source:swissprot;acc:p50238]	Divided	5706.5	6245.55	1.09446	
1024	topoisomerase-related function protein 4-2. [source:refseq;acc:nm_022447]	Subtracted	4725.28	5261.06	535.78	
1025	nadph:adrenodoxin oxidoreductase, mitochondrial precursor (ec 1.18.1.2) (adrenodoxin reductase) (ar) (ferredoxin-nadp(+) reductase). [source:swissprot;acc:p22570]	Subtracted	5947.53	6481.56	534.03	
1025	phosphomannomutase 2 (ec 5.4.2.8) (pmm 2). [source:swissprot;acc:o15305]	Divided	5511.96	6031.95	1.09434	
1026	limbic system-associated membrane protein precursor (lsamp). [source:swissprot;acc:q13449]	Subtracted	5396.36	5929.41	533.05	
1026	phosphomannomutase 1 (ec 5.4.2.8) (pmm 1) (pmmh-22). [source:swissprot;acc:q92871]	Divided	5509.89	6029.29	1.09427	
1027	opioid binding protein/cell adhesion molecule precursor (obcam) (opioid-binding cell adhesion molecule) (opcml). [source:swissprot;acc:q14982]	Subtracted	5406.5	5939.42	532.92	
1027	s-adenosylmethionine synthetase gamma form (ec 2.5.1.6) (methionine adenosyltransferase) (adomet synthetase) (mat-ii). [source:swissprot;acc:p31153]	Divided	6123.15	6700.05	1.09422	
1028	neurotrimin precursor (hnt). [source:swissprot;acc:q9p121]	Subtracted	5413.63	5946.46	532.83	
1028	nicotinate-nucleotide pyrophosphorylase [carboxylating] (ec 2.4.2.19) (quinolinate phosphoribosyltransferase [decarboxylating]) (qaprtase) (qprtase). [source:swissprot;acc:q15274]	Divided	5704	6241.36	1.09421	
1029	beta-catenin (pro2286). [source:swissprot;acc:p35222]	Divided	5635.26	6166.09	1.0942	
1029	polymerase (dna directed) sigma; topoisomerase-related function protein 4-1; polymerase (dna-directed) sigma. [source:refseq;acc:nm_006999]	Subtracted	4726.38	5258.95	532.57	
1030	casein kinase i, epsilon isoform (ec 2.7.1.-) (cki-epsilon) (ckie). [source:swissprot;acc:p49674]	Divided	5048.33	5523.85	1.09419	
1030	electron transfer flavoprotein alpha-subunit, mitochondrial precursor (alpha-etf). [source:swissprot;acc:p13804]	Subtracted	7919.76	8452.01	532.25	
1031	membrane protein expressed in epithelial-like lung adenocarcinoma. [source:refseq;acc:nm_024792]	Divided	6136.99	6714.98	1.09418	
1031	peroxisomal membrane protein 2 (22 kda peroxisomal membrane protein). [source:swissprot;acc:q9nr77]	Subtracted	6437.99	6969.67	531.68	
1032	heat shock-related 70 kda protein 2 (heat shock 70 kda protein 2). [source:swissprot;acc:p54652]	Subtracted	6437.99	6969.67	531.68	
1032	ran binding protein 11. [source:refseq;acc:nm_016338]	Divided	6138.91	6717.05	1.09418	
1033	fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [source:swissprot;acc:o00757]	Divided	6080.91	6653.52	1.09417	
1033	heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [source:swissprot;acc:p08107]	Subtracted	6437.99	6969.67	531.68	
1034	heat shock cognate 71 kda protein. [source:swissprot;acc:p11142]	Subtracted	6437.99	6969.67	531.68	

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/