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 green network_comparison
Results: HTML CSV LaTeX Showing element 63 to 112 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	green	network_comparison	
63	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [source:swissprot;acc:q9y3k8]	266.865	336.178	1.25973	
64	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [source:swissprot;acc:p50152]	266.868	336.159	1.25965	
65	guanine nucleotide-binding protein g(q), alpha subunit. [source:swissprot;acc:p50148]	267.136	336.077	1.25807	
66	guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [source:swissprot;acc:p29992]	267.136	336.077	1.25807	
67	guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [source:swissprot;acc:p19087]	267.14	336.075	1.25805	
68	guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [source:swissprot;acc:p19086]	267.139	336.075	1.25805	
69	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [source:swissprot;acc:p11488]	267.14	336.075	1.25805	
70	guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [source:swissprot;acc:p04899]	267.142	336.074	1.25804	
71	guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [source:swissprot;acc:p04898]	267.144	336.073	1.25802	
72	guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [source:swissprot;acc:p08754]	267.144	336.073	1.25802	
73	junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2]	288	362	1.25694	
74	junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39]	288	362	1.25694	
75	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]	288	362	1.25694	
76	db83 protein. [source:swissprot;acc:p57088]	288	362	1.25694	
77	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [source:swissprot;acc:q9y698]	254.692	202.668	1.2567	
78	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [source:swissprot;acc:q8wxs5]	254.693	202.668	1.2567	
79	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [source:swissprot;acc:o60359]	254.693	202.668	1.2567	
80	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [source:swissprot;acc:q9ubn1]	254.691	202.668	1.25669	
81	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [source:swissprot;acc:q9uf02]	254.614	202.646	1.25645	
82	guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [source:swissprot;acc:o14775]	267.636	335.359	1.25304	
83	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [source:refseq;acc:nm_030801]	88.2482	110.265	1.24949	
84	hepatocellular carcinoma-associated protein hca3. [source:refseq;acc:nm_138703]	88.2482	110.265	1.24949	
85	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [source:swissprot;acc:p43357]	88.2482	110.265	1.24949	
86	melanoma-associated antigen 11 (mage-11 antigen). [source:swissprot;acc:p43364]	88.2482	110.265	1.24949	
87	melanoma-associated antigen 2 (mage-2 antigen). [source:swissprot;acc:p43356]	88.2482	110.265	1.24949	
88	hepatocellular carcinoma-associated protein hca1. [source:refseq;acc:nm_020932]	88.2482	110.265	1.24949	
89	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [source:swissprot;acc:p43360]	88.2482	110.265	1.24949	
90	necdin. [source:swissprot;acc:q99608]	88.2482	110.265	1.24949	
91	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [source:swissprot;acc:q9y5v3]	88.2482	110.265	1.24949	
92	melanoma-associated antigen f1 (mage-f1 antigen). [source:swissprot;acc:q9hay2]	88.2482	110.265	1.24949	
93	melanoma antigen, family b, 6. [source:refseq;acc:nm_173523]	88.2482	110.265	1.24949	
94	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [source:swissprot;acc:p43358]	88.2482	110.265	1.24949	
95	melanoma-associated antigen 9 (mage-9 antigen). [source:swissprot;acc:p43362]	88.2482	110.265	1.24949	
96	melanoma-associated antigen 8 (mage-8 antigen). [source:swissprot;acc:p43361]	88.2482	110.265	1.24949	
97	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [source:swissprot;acc:o60732]	88.2482	110.265	1.24949	
98	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [source:swissprot;acc:p43365]	88.2482	110.265	1.24949	
99	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [source:swissprot;acc:p43355]	88.2482	110.265	1.24949	
100	melanoma-associated antigen 10 (mage-10 antigen). [source:swissprot;acc:p43363]	88.2482	110.265	1.24949	
101	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [source:swissprot;acc:p43366]	88.2482	110.265	1.24949	
102	melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [source:swissprot;acc:q9unf1]	88.2482	110.265	1.24949	
103	trophinin. [source:swissprot;acc:q12816]	88.2482	110.265	1.24949	
104	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [source:refseq;acc:nm_004839]	252.371	202.016	1.24926	
105	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [source:swissprot;acc:p04901]	266.716	333.165	1.24914	
106	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [source:swissprot;acc:q99807]	252.329	202.004	1.24913	
107	homer, neuronal immediate early gene, 1b. [source:refseq;acc:nm_004272]	252.309	201.998	1.24907	
108	homer, neuronal immediate early gene, 3. [source:refseq;acc:nm_004838]	252.296	201.995	1.24902	
109	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [source:swissprot;acc:q9hav0]	266.933	333.281	1.24856	
110	deltex 2. [source:refseq;acc:nm_020892]	333.144	267.393	1.2459	
111	deltex homolog 1; hdx-1. [source:refseq;acc:nm_004416]	332.925	267.274	1.24563	
112	t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [source:refseq;acc:nm_018492]	332.874	267.246	1.24557	

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/