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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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 [...,...].
Gene Network Comparison Type Rank description Value Type Interaction Map red Filtered network_comparison green
Results: HTML CSV LaTeX Showing element 77 to 126 of 3228 in total 
Network Comparison Type	Divided
Value Type	Ranked
Interaction Map	High confidence
Filtered	1

Rank	description	red	network_comparison	green	
77	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [source:swissprot;acc:q9y698]	254.692	1.2567	202.668	
78	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [source:swissprot;acc:q8wxs5]	254.693	1.2567	202.668	
79	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [source:swissprot;acc:o60359]	254.693	1.2567	202.668	
80	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [source:swissprot;acc:q9ubn1]	254.691	1.25669	202.668	
81	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [source:swissprot;acc:q9uf02]	254.614	1.25645	202.646	
82	guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [source:swissprot;acc:o14775]	267.636	1.25304	335.359	
83	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [source:refseq;acc:nm_030801]	88.2482	1.24949	110.265	
84	hepatocellular carcinoma-associated protein hca3. [source:refseq;acc:nm_138703]	88.2482	1.24949	110.265	
85	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [source:swissprot;acc:p43357]	88.2482	1.24949	110.265	
86	melanoma-associated antigen 11 (mage-11 antigen). [source:swissprot;acc:p43364]	88.2482	1.24949	110.265	
87	melanoma-associated antigen 2 (mage-2 antigen). [source:swissprot;acc:p43356]	88.2482	1.24949	110.265	
88	hepatocellular carcinoma-associated protein hca1. [source:refseq;acc:nm_020932]	88.2482	1.24949	110.265	
89	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [source:swissprot;acc:p43360]	88.2482	1.24949	110.265	
90	necdin. [source:swissprot;acc:q99608]	88.2482	1.24949	110.265	
91	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [source:swissprot;acc:q9y5v3]	88.2482	1.24949	110.265	
92	melanoma-associated antigen f1 (mage-f1 antigen). [source:swissprot;acc:q9hay2]	88.2482	1.24949	110.265	
93	melanoma antigen, family b, 6. [source:refseq;acc:nm_173523]	88.2482	1.24949	110.265	
94	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [source:swissprot;acc:p43358]	88.2482	1.24949	110.265	
95	melanoma-associated antigen 9 (mage-9 antigen). [source:swissprot;acc:p43362]	88.2482	1.24949	110.265	
96	melanoma-associated antigen 8 (mage-8 antigen). [source:swissprot;acc:p43361]	88.2482	1.24949	110.265	
97	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [source:swissprot;acc:o60732]	88.2482	1.24949	110.265	
98	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [source:swissprot;acc:p43365]	88.2482	1.24949	110.265	
99	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [source:swissprot;acc:p43355]	88.2482	1.24949	110.265	
100	melanoma-associated antigen 10 (mage-10 antigen). [source:swissprot;acc:p43363]	88.2482	1.24949	110.265	
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	1.24949	110.265	
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	1.24949	110.265	
103	trophinin. [source:swissprot;acc:q12816]	88.2482	1.24949	110.265	
104	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [source:refseq;acc:nm_004839]	252.371	1.24926	202.016	
105	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [source:swissprot;acc:p04901]	266.716	1.24914	333.165	
106	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [source:swissprot;acc:q99807]	252.329	1.24913	202.004	
107	homer, neuronal immediate early gene, 1b. [source:refseq;acc:nm_004272]	252.309	1.24907	201.998	
108	homer, neuronal immediate early gene, 3. [source:refseq;acc:nm_004838]	252.296	1.24902	201.995	
109	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [source:swissprot;acc:q9hav0]	266.933	1.24856	333.281	
110	deltex 2. [source:refseq;acc:nm_020892]	333.144	1.2459	267.393	
111	deltex homolog 1; hdx-1. [source:refseq;acc:nm_004416]	332.925	1.24563	267.274	
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	1.24557	267.246	
113	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [source:refseq;acc:nm_006558]	332.874	1.24557	267.246	
114	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [source:refseq;acc:nm_006559]	332.874	1.24557	267.246	
115	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [source:refseq;acc:nm_152688]	332.874	1.24557	267.246	
116	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [source:swissprot;acc:p16520]	268.565	1.24545	334.483	
117	neuralized-like. [source:refseq;acc:nm_004210]	332.326	1.24491	266.948	
118	nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [source:swissprot;acc:q9ui09]	284.753	1.24382	228.934	
119	nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [source:swissprot;acc:o43181]	318.982	1.23157	259.004	
120	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [source:refseq;acc:nm_012281]	269.278	1.21699	327.709	
121	cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [source:swissprot;acc:p32929]	269.254	1.2169	327.655	
122	potassium voltage-gated channel, shal-related subfamily, member 3 isoform 1; sha1-related potassium channel kv4.3; voltage-gated k+ channel; potassium ionic channel kv4.3; voltage-gated potassium channel kv4.3. [source:refseq;acc:nm_004980]	269.248	1.21688	327.642	
123	potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [source:refseq;acc:nm_004979]	269.23	1.21681	327.601	
124	high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [source:refseq;acc:nm_006339]	208.52	1.21519	171.595	
125	high-mobility group 20a. [source:refseq;acc:nm_018200]	208.588	1.21429	171.778	
126	associated molecule with the sh3 domain of stam (amsh) like protein. [source:refseq;acc:nm_020799]	94	1.21277	114	

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/