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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


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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 262 to 311 of 12912 in total 
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	Value Type	red	green	network_comparison	
66	guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [source:swissprot;acc:p29992]	Ranked	267.136	336.077	1.25807	
66	melanoma-associated antigen 9 (mage-9 antigen). [source:swissprot;acc:p43362]	Squared	219048	129762	1.68808	
66	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]	Measured	1991.03	3221.38	1.61795	
67	beta-arrestin 2 (arrestin, beta 2). [source:swissprot;acc:p32121]	Measured	6475.5	10307.5	1.59177	
67	guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [source:swissprot;acc:p19087]	Ranked	267.14	336.075	1.25805	
67	melanoma-associated antigen 8 (mage-8 antigen). [source:swissprot;acc:p43361]	Squared	219048	129762	1.68808	
67	myosin xv (unconventional myosin-15). [source:swissprot;acc:q9ukn7]	Rooted	63.8686	47.2654	1.35128	
68	beta-arrestin 1 (arrestin, beta 1). [source:swissprot;acc:p49407]	Measured	6475.5	10307.5	1.59177	
68	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [source:swissprot;acc:p11217]	Rooted	63.8686	47.2654	1.35128	
68	guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [source:swissprot;acc:p19086]	Ranked	267.139	336.075	1.25805	
68	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [source:swissprot;acc:o60732]	Squared	219048	129762	1.68808	
69	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [source:swissprot;acc:p11488]	Ranked	267.14	336.075	1.25805	
69	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [source:swissprot;acc:p43365]	Squared	219048	129762	1.68808	
69	neurogenic differentiation factor 2 (neurod2). [source:swissprot;acc:q15784]	Rooted	27.9136	37.2872	1.33581	
69	spermatogenesis associated 6. [source:refseq;acc:nm_019073]	Measured	6475.5	10307.5	1.59177	
70	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [source:swissprot;acc:q01433]	Measured	6475.5	10307.5	1.59177	
70	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [source:swissprot;acc:q12873]	Rooted	27.9136	37.2872	1.33581	
70	guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [source:swissprot;acc:p04899]	Ranked	267.142	336.074	1.25804	
70	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [source:swissprot;acc:p43355]	Squared	219048	129762	1.68808	
71	doc-1 related protein (doc-1r). [source:swissprot;acc:o75956]	Rooted	27.9136	37.2872	1.33581	
71	guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [source:swissprot;acc:p04898]	Ranked	267.144	336.073	1.25802	
71	melanoma-associated antigen 10 (mage-10 antigen). [source:swissprot;acc:p43363]	Squared	219048	129762	1.68808	
71	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [source:swissprot;acc:q00007]	Measured	4556.78	2945.26	1.54716	
72	guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [source:swissprot;acc:p08754]	Ranked	267.144	336.073	1.25802	
72	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [source:swissprot;acc:p43366]	Squared	219048	129762	1.68808	
72	neurogenic differentiation factor 6 (neurod6) (my051 protein). [source:swissprot;acc:q96nk8]	Rooted	27.9136	37.2872	1.33581	
72	uncharacterized hematopoietic stem/progenitor cells protein mds026. [source:sptrembl;acc:q9nz48]	Measured	4556.79	2945.28	1.54715	
73	junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2]	Ranked	288	362	1.25694	
73	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]	Squared	219048	129762	1.68808	
73	neurogenic differentiation factor 1 (neurod1) (neurod). [source:swissprot;acc:q13562]	Rooted	27.9136	37.2872	1.33581	
73	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [source:swissprot;acc:q00005]	Measured	4556.83	2945.38	1.54711	
74	junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39]	Ranked	288	362	1.25694	
74	neurogenic differentiation factor 4 (neurod4). [source:swissprot;acc:q9hd90]	Rooted	27.9136	37.2872	1.33581	
74	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, gamma isoform (pp2a, subunit b, b-gamma isoform) (pp2a, subunit b, b55-gamma isoform) (pp2a, subunit b, pr55-gamma isoform) (pp2a, subunit b, r2-gamma isoform) (imypno1). [source:swissprot;acc:q9y2t4]	Measured	4556.99	2945.8	1.54694	
74	trophinin. [source:swissprot;acc:q12816]	Squared	219048	129762	1.68808	
75	chromodomain helicase dna binding protein 5. [source:refseq;acc:nm_015557]	Rooted	27.9136	37.2872	1.33581	
75	myosin vb (myosin 5b) (fragment). [source:swissprot;acc:q9ulv0]	Squared	110342	184298	1.67024	
75	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]	Measured	1920.75	2907.43	1.5137	
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]	Ranked	288	362	1.25694	
76	cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [source:swissprot;acc:o14519]	Rooted	27.9136	37.2872	1.33581	
76	db83 protein. [source:swissprot;acc:p57088]	Ranked	288	362	1.25694	
76	myosin vc (myosin 5c). [source:swissprot;acc:q9nqx4]	Squared	110342	184298	1.67024	
76	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [source:swissprot;acc:p30154]	Measured	4599.26	3058.57	1.50373	
77	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [source:swissprot;acc:q9y4i1]	Squared	110342	184298	1.67024	
77	sad1/unc-84 protein-like 1. [source:swissprot;acc:o94901]	Rooted	39.9725	52.9973	1.32584	
77	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, alpha isoform (pp2a, subunit a, pr65-alpha isoform) (pp2a, subunit a, r1-alpha isoform) (medium tumor antigen-associated 61 kda protein). [source:swissprot;acc:p30153]	Measured	4612.39	3093.6	1.49095	
77	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [source:swissprot;acc:q9y698]	Ranked	254.692	202.668	1.2567	
78	a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [source:swissprot;acc:p10398]	Squared	117858	70570.1	1.67008	
78	cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [source:swissprot;acc:p18847]	Measured	4800.81	7132.71	1.48573	
78	uncharacterized hematopoietic stem/progenitor cells protein mds026. [source:sptrembl;acc:q9nz48]	Rooted	63.7477	48.1589	1.3237	

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/