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

Results: HTML CSV LaTeX

Showing element 501 to 550 of 33156 in total

Network Comparison Type	Divided
Filtered	1

Rank	Value Type	description	Interaction Map	red	green	network_comparison	
63	Squared	core1 udp-galactose:n-acetylgalactosamine-alpha-r beta 1,3-galac. [source:refseq;acc:nm_020156]	Low confidence	73677.6	57498.7	1.28138	
63	Squared	melanoma-associated antigen f1 (mage-f1 antigen). [source:swissprot;acc:q9hay2]	High confidence	219048	129762	1.68808	
63	Rooted	kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [source:refseq;acc:nm_173193]	High confidence	43.4554	31.7576	1.36835	
63	Rooted	t-box transcription factor tbx19 (t-box protein 19). [source:swissprot;acc:o60806]	Low confidence	61.4851	68.1264	1.10801	
64	Measured	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [source:swissprot;acc:p11217]	High confidence	4489.19	2765.82	1.6231	
64	Measured	retinal short-chain dehydrogenase/reductase 3. [source:refseq;acc:nm_016246]	Low confidence	15464.1	17572.7	1.13635	
64	Ranked	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [source:swissprot;acc:p50152]	High confidence	266.868	336.159	1.25965	
64	Ranked	transcription factor jun-d. [source:swissprot;acc:p17535]	Low confidence	202.709	183.361	1.10552	
64	Squared	melanoma antigen, family b, 6. [source:refseq;acc:nm_173523]	High confidence	219048	129762	1.68808	
64	Squared	neurochondrin. [source:refseq;acc:nm_014284]	Low confidence	73677.6	57498.7	1.28138	
64	Rooted	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [source:swissprot;acc:q04446]	High confidence	63.8686	47.2654	1.35128	
64	Rooted	rab11-family interacting protein 4. [source:refseq;acc:nm_032932]	Low confidence	73.6221	81.4944	1.10693	
65	Measured	neuralized-like. [source:refseq;acc:nm_004210]	High confidence	1657.68	2690.25	1.6229	
65	Measured	septin 6. [source:swissprot;acc:q14141]	Low confidence	13005.8	14773.7	1.13593	
65	Ranked	guanine nucleotide-binding protein g(q), alpha subunit. [source:swissprot;acc:p50148]	High confidence	267.136	336.077	1.25807	
65	Ranked	transcription factor jun-b. [source:swissprot;acc:p17275]	Low confidence	202.728	183.388	1.10546	
65	Squared	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [source:swissprot;acc:p43358]	High confidence	219048	129762	1.68808	
65	Squared	septin-like protein kiaa0202 (fragment). [source:swissprot;acc:q92599]	Low confidence	75490.8	95493.3	1.26497	
65	Rooted	eferin. [source:swissprot;acc:o75154]	Low confidence	73.6221	81.4944	1.10693	
65	Rooted	glycogen phosphorylase, brain form (ec 2.4.1.1). [source:swissprot;acc:p11216]	High confidence	63.8686	47.2654	1.35128	
66	Measured	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]	High confidence	1991.03	3221.38	1.61795	
66	Measured	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [source:swissprot;acc:p18583]	Low confidence	4900.7	5555.81	1.13368	
66	Ranked	guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [source:swissprot;acc:p29992]	High confidence	267.136	336.077	1.25807	
66	Ranked	mitochondrial tumor suppressor gene 1; transcription factor mtsg1; at2 receptor-interacting protein 1; erythroid differentiation-related gene. [source:refseq;acc:nm_020749]	Low confidence	221.902	200.783	1.10518	
66	Squared	melanoma-associated antigen 9 (mage-9 antigen). [source:swissprot;acc:p43362]	High confidence	219048	129762	1.68808	
66	Squared	septin 10 isoform 1. [source:refseq;acc:nm_144710]	Low confidence	74803.9	94281	1.26038	
66	Rooted	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [source:refseq;acc:nm_032552]	Low confidence	55.8923	61.8016	1.10573	
66	Rooted	glycogen phosphorylase, liver form (ec 2.4.1.1). [source:swissprot;acc:p06737]	High confidence	63.8686	47.2654	1.35128	
67	Measured	beta-arrestin 2 (arrestin, beta 2). [source:swissprot;acc:p32121]	High confidence	6475.5	10307.5	1.59177	
67	Measured	hira-interacting protein 5 (cgi-33). [source:swissprot;acc:q9ums0]	Low confidence	12176.9	13781.8	1.1318	
67	Ranked	guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [source:swissprot;acc:p19087]	High confidence	267.14	336.075	1.25805	
67	Ranked	retinoblastoma-associated factor 600. [source:refseq;acc:nm_020765]	Low confidence	165.535	149.799	1.10505	
67	Squared	melanoma-associated antigen 8 (mage-8 antigen). [source:swissprot;acc:p43361]	High confidence	219048	129762	1.68808	
67	Squared	septin 6. [source:swissprot;acc:q14141]	Low confidence	74378.4	93531.9	1.25751	
67	Rooted	brachyury protein (t protein). [source:swissprot;acc:o15178]	Low confidence	61.687	68.2003	1.10559	
67	Rooted	myosin xv (unconventional myosin-15). [source:swissprot;acc:q9ukn7]	High confidence	63.8686	47.2654	1.35128	
68	Measured	beta-arrestin 1 (arrestin, beta 1). [source:swissprot;acc:p49407]	High confidence	6475.5	10307.5	1.59177	
68	Measured	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [source:refseq;acc:nm_016172]	Low confidence	19498.1	17265.4	1.12932	
68	Ranked	60s ribosomal protein l37a. [source:swissprot;acc:p12751]	Low confidence	239.692	217.005	1.10455	
68	Ranked	guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [source:swissprot;acc:p19086]	High confidence	267.139	336.075	1.25805	
68	Squared	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [source:swissprot;acc:o60732]	High confidence	219048	129762	1.68808	
68	Squared	retinoblastoma-associated factor 600. [source:refseq;acc:nm_020765]	Low confidence	27909.1	35068.7	1.25653	
68	Rooted	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [source:swissprot;acc:p11217]	High confidence	63.8686	47.2654	1.35128	
68	Rooted	ras gtpase-activating protein ngap (ras protein activator like 1). [source:swissprot;acc:q9ujf2]	Low confidence	55.9786	61.8641	1.10514	
69	Measured	amino acid transporter xat2; likely ortholog of mouse aspartate/glutamate transporter 1 (agt1). [source:refseq;acc:nm_138817]	Low confidence	6991.78	7848.45	1.12253	
69	Measured	spermatogenesis associated 6. [source:refseq;acc:nm_019073]	High confidence	6475.5	10307.5	1.59177	
69	Ranked	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [source:swissprot;acc:p11488]	High confidence	267.14	336.075	1.25805	
69	Ranked	testis-specific protein tex28. [source:swissprot;acc:o15482]	Low confidence	259.517	235.017	1.10425	
69	Squared	delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial precursor (ec 1.5.1.12) (p5c dehydrogenase). [source:swissprot;acc:p30038]	Low confidence	80538.1	64191.7	1.25465	
69	Squared	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [source:swissprot;acc:p43365]	High confidence	219048	129762	1.68808	

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/