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 network_comparison green
Results: HTML CSV LaTeX Showing element 51 to 100 of 6456 in total 
Value Type	Ranked
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	network_comparison	green	
26	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [source:swissprot;acc:q9h999]	Divided	58	1.31818	44	
26	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]	Subtracted	322	69	253	
27	guanine nucleotide-binding protein g(q), alpha subunit. [source:swissprot;acc:p50148]	Subtracted	267.136	68.941	336.077	
27	mitochondrial solute carrier protein. [source:refseq;acc:nm_145305]	Divided	58	1.31818	44	
28	cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [source:swissprot;acc:p18847]	Divided	201.949	1.31416	153.671	
28	guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [source:swissprot;acc:p29992]	Subtracted	267.136	68.941	336.077	
29	guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [source:swissprot;acc:p19086]	Subtracted	267.139	68.936	336.075	
29	uncharacterized hematopoietic stem/progenitor cells protein mds026. [source:sptrembl;acc:q9nz48]	Divided	187.458	1.29991	243.678	
30	guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [source:swissprot;acc:p19087]	Subtracted	267.14	68.935	336.075	
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]	Divided	187.457	1.29991	243.678	
31	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [source:swissprot;acc:p11488]	Subtracted	267.14	68.935	336.075	
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]	Divided	187.458	1.2999	243.677	
32	guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [source:swissprot;acc:p04899]	Subtracted	267.142	68.932	336.074	
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]	Divided	187.462	1.29985	243.673	
33	guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [source:swissprot;acc:p04898]	Subtracted	267.144	68.929	336.073	
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]	Divided	188.688	1.28647	242.742	
34	guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [source:swissprot;acc:p08754]	Subtracted	267.144	68.929	336.073	
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]	Divided	189.07	1.28235	242.453	
35	guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [source:swissprot;acc:o14775]	Subtracted	267.636	67.723	335.359	
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]	Divided	260.532	1.27519	204.309	
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]	Divided	260.532	1.27519	204.309	
36	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [source:refseq;acc:nm_003690]	Subtracted	320.927	66.493	254.434	
37	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [source:swissprot;acc:p04901]	Subtracted	266.716	66.449	333.165	
37	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [source:refseq;acc:nm_033256]	Divided	322	1.27273	253	
38	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [source:swissprot;acc:q9hav0]	Subtracted	266.933	66.348	333.281	
38	microfibril-associated glycoprotein 4 precursor. [source:swissprot;acc:p55083]	Divided	322	1.27273	253	
39	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [source:swissprot;acc:p16520]	Subtracted	268.565	65.918	334.483	
39	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [source:refseq;acc:nm_017726]	Divided	322	1.27273	253	
40	deltex 2. [source:refseq;acc:nm_020892]	Subtracted	333.144	65.751	267.393	
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]	Divided	322	1.27273	253	
41	deltex homolog 1; hdx-1. [source:refseq;acc:nm_004416]	Subtracted	332.925	65.651	267.274	
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]	Divided	322	1.27273	253	
42	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [source:swissprot;acc:p01100]	Divided	204.641	1.2714	160.957	
42	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]	Subtracted	332.874	65.628	267.246	
43	jun dimerization protein. [source:refseq;acc:nm_130469]	Divided	204.641	1.2714	160.957	
43	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [source:refseq;acc:nm_006558]	Subtracted	332.874	65.628	267.246	
44	fos-related antigen 2. [source:swissprot;acc:p15408]	Divided	204.641	1.2707	161.046	
44	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [source:refseq;acc:nm_006559]	Subtracted	332.874	65.628	267.246	
45	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [source:refseq;acc:nm_152688]	Subtracted	332.874	65.628	267.246	
45	protein fosb (g0/g1 switch regulatory protein 3). [source:swissprot;acc:p53539]	Divided	204.641	1.27066	161.051	
46	fos-related antigen 1 (fra-1). [source:swissprot;acc:p15407]	Divided	204.642	1.27053	161.068	
46	neuralized-like. [source:refseq;acc:nm_004210]	Subtracted	332.326	65.378	266.948	
47	gbp protein isoform a. [source:refseq;acc:nm_017870]	Divided	325.586	1.26938	256.492	
47	tob2 protein (transducer of erbb-2 2). [source:swissprot;acc:q14106]	Subtracted	350	60	290	
48	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [source:refseq;acc:nm_007278]	Divided	65.4586	1.26868	83.0461	
48	tob1 protein (transducer of erbb-2 1). [source:swissprot;acc:p50616]	Subtracted	350	60	290	
49	beta-arrestin 2 (arrestin, beta 2). [source:swissprot;acc:p32121]	Divided	133	1.26667	105	
49	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [source:refseq;acc:nm_032552]	Subtracted	350	60	290	
50	beta-arrestin 1 (arrestin, beta 1). [source:swissprot;acc:p49407]	Divided	133	1.26667	105	
50	cytoplasmic polyadenylation element binding protein 4. [source:refseq;acc:nm_030627]	Subtracted	350	60	290	

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/