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 Network Comparison Type Value Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 51 to 100 of 3730 in total 
Network Comparison Type	Divided
Value Type	Ranked
Interaction Map	High confidence

Rank	description	Filtered	green	red	network_comparison	
26	dystrobrevin binding protein 1; dysbindin. [source:refseq;acc:nm_032122]	0	7533.33	12128.3	1.60995	
26	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [source:swissprot;acc:q9h999]	1	44	58	1.31818	
27	mitochondrial solute carrier protein. [source:refseq;acc:nm_145305]	1	44	58	1.31818	
27	ptd016 protein. [source:refseq;acc:nm_016125]	0	11234	18050	1.60673	
28	cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [source:swissprot;acc:p18847]	1	153.671	201.949	1.31416	
28	p28 ing5. [source:refseq;acc:nm_032329]	0	7562.05	12124.8	1.60337	
29	phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [source:swissprot;acc:p11086]	0	11625	7395	1.57201	
29	uncharacterized hematopoietic stem/progenitor cells protein mds026. [source:sptrembl;acc:q9nz48]	1	243.678	187.458	1.29991	
30	beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [source:refseq;acc:nm_031938]	0	11625	7395	1.57201	
30	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]	1	243.678	187.457	1.29991	
31	leucine rich repeat (in flii) interacting protein 1. [source:refseq;acc:nm_004735]	0	5266.67	8082.33	1.53462	
31	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]	1	243.677	187.458	1.2999	
32	importin 9. [source:refseq;acc:nm_018085]	0	8691.76	13292.2	1.52929	
32	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]	1	243.673	187.462	1.29985	
33	nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [source:swissprot;acc:q99733]	0	8691.76	13292.2	1.52929	
33	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]	1	242.742	188.688	1.28647	
34	microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [source:refseq;acc:nm_014268]	0	17173.8	11284	1.52196	
34	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]	1	242.453	189.07	1.28235	
35	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [source:refseq;acc:nm_006333]	0	4871.6	3208.8	1.5182	
35	nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [source:swissprot;acc:q13952]	1	204.309	260.532	1.27519	
36	ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [source:swissprot;acc:p23511]	1	204.309	260.532	1.27519	
36	guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [source:swissprot;acc:q9byb4]	0	14964	22422	1.4984	
37	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [source:sptrembl;acc:q9uge0]	0	2582	3859	1.49458	
37	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [source:refseq;acc:nm_033256]	1	253	322	1.27273	
38	cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [source:swissprot;acc:p49336]	0	10771	7230	1.48976	
38	microfibril-associated glycoprotein 4 precursor. [source:swissprot;acc:p55083]	1	253	322	1.27273	
39	ero1-like. [source:refseq;acc:nm_014584]	0	20536	13853	1.48242	
39	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [source:refseq;acc:nm_017726]	1	253	322	1.27273	
40	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]	1	253	322	1.27273	
40	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [source:swissprot;acc:p21333]	0	5699	3845	1.48218	
41	60s ribosomal protein l21. [source:swissprot;acc:p46778]	0	6758.83	9994.33	1.47871	
41	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]	1	253	322	1.27273	
42	adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [source:swissprot;acc:p12236]	0	5530.5	8158	1.47509	
42	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [source:swissprot;acc:p01100]	1	160.957	204.641	1.2714	
43	glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [source:swissprot;acc:p30712]	0	8356.02	12143.8	1.4533	
43	jun dimerization protein. [source:refseq;acc:nm_130469]	1	160.957	204.641	1.2714	
44	fos-related antigen 2. [source:swissprot;acc:p15408]	1	161.046	204.641	1.2707	
44	serpin b12. [source:swissprot;acc:q96p63]	0	21138.6	14604.2	1.44743	
45	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [source:swissprot;acc:q9uiv8]	0	21113.7	14592	1.44694	
45	protein fosb (g0/g1 switch regulatory protein 3). [source:swissprot;acc:p53539]	1	161.051	204.641	1.27066	
46	60s ribosomal protein l37a. [source:swissprot;acc:p12751]	0	18499.2	12941.7	1.42943	
46	fos-related antigen 1 (fra-1). [source:swissprot;acc:p15407]	1	161.068	204.642	1.27053	
47	25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [source:swissprot;acc:o15528]	0	18499.2	12941.7	1.42943	
47	gbp protein isoform a. [source:refseq;acc:nm_017870]	1	256.492	325.586	1.26938	
48	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [source:refseq;acc:nm_007278]	1	83.0461	65.4586	1.26868	
48	nadh-ubiquinone oxidoreductase 13 kda-b subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-b) (ci-13kd-b) (complex i subunit b13). [source:swissprot;acc:q16718]	0	6909	9830	1.42278	
49	beta-arrestin 2 (arrestin, beta 2). [source:swissprot;acc:p32121]	1	105	133	1.26667	
49	brain protein 16. [source:refseq;acc:nm_016458]	0	4854.99	6890.54	1.41927	
50	beta-arrestin 1 (arrestin, beta 1). [source:swissprot;acc:p49407]	1	105	133	1.26667	
50	cartilage oligomeric matrix protein precursor (comp). [source:swissprot;acc:p49747]	0	13091.4	9249.73	1.41533	

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/