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.

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Value Type Interaction Map description Rank Network Comparison Type Gene red green Filtered network_comparison

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Showing element 1032 to 1081 of 3228 in total

Value Type	Measured
Interaction Map	High confidence
Network Comparison Type	Divided
Filtered	1

description	Rank	red	green	network_comparison	
fibrillin 2 precursor. [source:swissprot;acc:p35556]	2955	0.00001	0.00001	1	
fibrillin 3. [source:refseq;acc:nm_032447]	2939	0.00001	0.00001	1	
fibulin-1 precursor. [source:swissprot;acc:p23142]	1304	8550.79	9248.06	1.08154	
fibulin-2 precursor. [source:swissprot;acc:p98095]	1216	8670.59	9412.9	1.08561	
ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [source:swissprot;acc:q15485]	21	677.5	1865.5	2.75351	
fidgetin-like 1. [source:refseq;acc:nm_022116]	1491	6057.46	6510.9	1.07486	
filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [source:swissprot;acc:p21333]	113	4366.44	5899.76	1.35116	
filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [source:refseq;acc:nm_001457]	108	4366.44	5899.76	1.35116	
fip1-like 1; rearranged in hypereosinophilia. [source:refseq;acc:nm_030917]	270	23640.2	19479.8	1.21358	
fk506-binding protein 1a (ec 5.2.1.8) (peptidyl-prolyl cis-trans isomerase) (ppiase) (rotamase) (12 kda fkbp) (fkbp-12) (immunophilin fkbp12). [source:swissprot;acc:p20071]	1207	5946.33	6459.79	1.08635	
flap endonuclease-1 (ec 3.-.-.-) (maturation factor 1) (mf1). [source:swissprot;acc:p39748]	2831	0.00001	0.00001	1	
flavoprotein oxidoreductase mical2. [source:refseq;acc:nm_014632]	556	6167.93	7007.7	1.13615	
flotillin-1. [source:swissprot;acc:o75955]	1296	5655.85	6120.64	1.08218	
folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [source:swissprot;acc:q05932]	2009	4934.48	5223.69	1.05861	
forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [source:refseq;acc:nm_138457]	130	2234.68	2978.53	1.33287	
forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [source:swissprot;acc:q14488]	578	6739.81	7644.62	1.13425	
forkhead box protein p1 (hspc215). [source:swissprot;acc:q9h334]	131	2234.73	2978.57	1.33285	
forkhead box protein p3 (zinc finger protein jm2) (scurfin). [source:swissprot;acc:q9bzs1]	132	2236.61	2980.35	1.33253	
formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [source:refseq;acc:nm_017892]	93	4245.52	5942.75	1.39977	
fos-related antigen 1 (fra-1). [source:swissprot;acc:p15407]	87	4944.3	7038.04	1.42347	
fos-related antigen 2. [source:swissprot;acc:p15408]	85	4941.95	7037.11	1.42395	
fragile x mental retardation 1 protein (protein fmr-1) (fmrp). [source:swissprot;acc:q06787]	2431	7242.75	7508.98	1.03676	
fragile x mental retardation syndrome related protein 1. [source:swissprot;acc:p51114]	2429	7243.19	7509.81	1.03681	
fragile x mental retardation syndrome related protein 2. [source:swissprot;acc:p51116]	2428	7243.19	7509.81	1.03681	
frg1 protein (fshd region gene 1 protein). [source:swissprot;acc:q14331]	1926	7260.23	7711.3	1.06213	
fructose-1,6-bisphosphatase (ec 3.1.3.11) (d-fructose-1,6-bisphosphate 1-phosphohydrolase) (fbpase). [source:swissprot;acc:p09467]	1036	6077.65	6649.22	1.09404	
fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [source:swissprot;acc:o00757]	1033	6080.91	6653.52	1.09417	
fructose-bisphosphate aldolase a (ec 4.1.2.13) (muscle-type aldolase) (lung cancer antigen ny-lu-1). [source:swissprot;acc:p04075]	2907	0.00001	0.00001	1	
fructose-bisphosphate aldolase b (ec 4.1.2.13) (liver-type aldolase). [source:swissprot;acc:p05062]	2973	0.00001	0.00001	1	
fructose-bisphosphate aldolase c (ec 4.1.2.13) (brain-type aldolase). [source:swissprot;acc:p09972]	3087	0.00001	0.00001	1	
ftsj homolog 3; likely ortholog of mouse ectoplacental cone, invasive trophoblast giant cells, extraembryonic ectoderm and chorion sequence 3. [source:refseq;acc:nm_017647]	621	4115.39	4633.96	1.12601	
fumarate hydratase, mitochondrial precursor (ec 4.2.1.2) (fumarase). [source:swissprot;acc:p07954]	2726	5332.98	5351.72	1.00351	
fuse binding protein 3 (fragment). [source:sptrembl;acc:q92946]	2093	5817.56	6138.9	1.05524	
fuse-binding protein-interacting repressor isoform b; siah binding protein 1; pyrimidine tract binding splicing factor; ro ribonucleoprotein-binding protein 1; poly-u binding splicing factor puf60. [source:refseq;acc:nm_014281]	1590	6364.01	6819.38	1.07155	
fused toes homolog; likely ortholog of mouse fused toes. [source:refseq;acc:nm_022476]	1820	5633.44	5997	1.06454	
fyve-finger-containing rab5 effector protein rabenosyn-5. [source:refseq;acc:nm_022340]	2998	0.00001	0.00001	1	
fzr1 protein; fizzy-related protein; cdc20-like 1b. [source:refseq;acc:nm_016263]	733	13241.4	11864	1.1161	
g protein-coupled receptor 66. [source:refseq;acc:nm_006056]	2815	0.00001	0.00001	1	
g-rich sequence factor-1 (grsf-1). [source:swissprot;acc:q12849]	1396	5803.54	6256.54	1.07806	
g1 to s phase transition protein 1 homolog (gtp-binding protein gst1-hs). [source:swissprot;acc:p15170]	1336	6140.18	6632.24	1.08014	
g2/mitotic-specific cyclin b1. [source:swissprot;acc:p14635]	362	12786.6	10879.9	1.17525	
g2/mitotic-specific cyclin b2. [source:swissprot;acc:o95067]	360	12796.8	10886	1.17553	
ga binding protein alpha chain (gabp-alpha subunit) (transcription factor e4tf1-60) (nuclear respiratory factor-2 subunit alpha). [source:swissprot;acc:q06546]	455	4890.51	5610.95	1.14731	
ga binding protein beta-2 chain (gabp-beta-2 subunit) (transcription factor e4tf1-47) (gapbp-2) (nuclear respiratory factor-2 subunit gamma). [source:swissprot;acc:q06545]	456	4890.51	5610.95	1.14731	
gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [source:refseq;acc:nm_007278]	133	23421.5	17580.4	1.33225	
gaba-a receptor-associated protein. [source:sptrembl;acc:q9by60]	134	21785.2	16426.1	1.32626	
galactose-1-phosphate uridylyltransferase (ec 2.7.7.12) (gal-1-p uridylyltransferase) (udp-glucose--hexose-1-phosphate uridylyltransferase). [source:swissprot;acc:p07902]	517	4910.6	5600.61	1.14051	
galectin-4 (lactose-binding lectin 4) (l-36 lactose binding protein) (l36lbp) (antigen ny-co-27). [source:swissprot;acc:p56470]	966	7817.9	8575.12	1.09686	
galectin-9 (hom-hd-21) (ecalectin). [source:swissprot;acc:o00182]	973	7810.11	8566.29	1.09682	
gamma adducin (adducin-like protein 70). [source:swissprot;acc:q9uey8]	1365	5799.14	6255.04	1.07862	

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/