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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 3228 in total

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

Rank	description	red	network_comparison	green	
1	rad50-interacting protein 1. [source:refseq;acc:nm_021930]	450.5	5.31521	2394.5	
2	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [source:swissprot;acc:q9byz6]	450.5	5.31521	2394.5	
3	homeobox protein hlx1 (homeobox protein hb24). [source:swissprot;acc:q14774]	2597.5	3.71868	698.5	
4	hbs1-like. [source:refseq;acc:nm_006620]	2597.5	3.71868	698.5	
5	junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2]	1153.5	3.39764	339.5	
6	junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39]	1153.5	3.39764	339.5	
7	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [source:swissprot;acc:o60906]	1153.5	3.39764	339.5	
8	db83 protein. [source:swissprot;acc:p57088]	1153.5	3.39764	339.5	
9	tob2 protein (transducer of erbb-2 2). [source:swissprot;acc:q14106]	398.5	3.21581	1281.5	
10	tob1 protein (transducer of erbb-2 1). [source:swissprot;acc:p50616]	398.5	3.21581	1281.5	
11	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [source:refseq;acc:nm_032552]	398.5	3.21581	1281.5	
12	cytoplasmic polyadenylation element binding protein 4. [source:refseq;acc:nm_030627]	398.5	3.21581	1281.5	
13	cytoplasmic polyadenylation element binding protein 3. [source:refseq;acc:nm_014912]	398.5	3.21581	1281.5	
14	ras gtpase-activating protein ngap (ras protein activator like 1). [source:swissprot;acc:q9ujf2]	398.5	3.21581	1281.5	
15	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [source:refseq;acc:nm_007266]	2671	3.06659	871	
16	protein x 0004. [source:refseq;acc:nm_016301]	2671	3.06659	871	
17	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [source:swissprot;acc:q96df8]	460	2.96739	1365	
18	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [source:refseq;acc:nm_033256]	677.5	2.75351	1865.5	
19	microfibril-associated glycoprotein 4 precursor. [source:swissprot;acc:p55083]	677.5	2.75351	1865.5	
20	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [source:refseq;acc:nm_017726]	677.5	2.75351	1865.5	
21	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]	677.5	2.75351	1865.5	
22	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [source:refseq;acc:nm_030949]	677.5	2.75351	1865.5	
23	gbp protein isoform a. [source:refseq;acc:nm_017870]	699.76	2.7072	1894.39	
24	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [source:refseq;acc:nm_003690]	950.561	2.21818	2108.52	
25	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [source:swissprot;acc:o60262]	1833.01	2.0534	892.67	
26	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [source:swissprot;acc:q9ubi6]	1833.01	2.0534	892.67	
27	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [source:swissprot;acc:p50150]	1834.33	2.04922	895.134	
28	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [source:swissprot;acc:p29798]	1834.36	2.04912	895.194	
29	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [source:swissprot;acc:q9uk08]	1834.52	2.04858	895.507	
30	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [source:swissprot;acc:p30670]	1834.59	2.04837	895.633	
31	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [source:swissprot;acc:p50151]	1834.63	2.04827	895.697	
32	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [source:swissprot;acc:q9y3k8]	1834.73	2.04793	895.893	
33	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [source:swissprot;acc:p50152]	1835.3	2.04611	896.972	
34	guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [source:swissprot;acc:p29992]	1836.71	2.02382	907.546	
35	guanine nucleotide-binding protein g(q), alpha subunit. [source:swissprot;acc:p50148]	1836.71	2.02378	907.564	
36	guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [source:swissprot;acc:p19086]	1836.76	2.02344	907.741	
37	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [source:swissprot;acc:p11488]	1836.76	2.02339	907.763	
38	guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [source:swissprot;acc:p19087]	1836.76	2.02337	907.774	
39	guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [source:swissprot;acc:p04899]	1836.8	2.02312	907.903	
40	guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [source:swissprot;acc:p04898]	1836.81	2.02297	907.978	
41	guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [source:swissprot;acc:p08754]	1836.81	2.02297	907.978	
42	guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [source:swissprot;acc:o14775]	1857.32	1.93827	958.237	
43	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [source:swissprot;acc:p16520]	1881.02	1.83093	1027.36	
44	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [source:swissprot;acc:p04901]	1931.34	1.82652	1057.39	
45	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [source:swissprot;acc:q9hav0]	1926.69	1.82448	1056.02	
46	neurogenic differentiation factor 2 (neurod2). [source:swissprot;acc:q15784]	779.167	1.78438	1390.33	
47	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [source:swissprot;acc:q12873]	779.167	1.78438	1390.33	
48	doc-1 related protein (doc-1r). [source:swissprot;acc:o75956]	779.167	1.78438	1390.33	
49	neurogenic differentiation factor 6 (neurod6) (my051 protein). [source:swissprot;acc:q96nk8]	779.167	1.78438	1390.33	
50	neurogenic differentiation factor 1 (neurod1) (neurod). [source:swissprot;acc:q13562]	779.167	1.78438	1390.33	

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/