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

Results: HTML CSV LaTeX

Showing element 73 to 122 of 3730 in total

Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence

Rank	description	Filtered	red	green	network_comparison	
37	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [source:sptrembl;acc:q9uge0]	0	3859	2582	1.49458	
37	protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [source:refseq;acc:nm_033256]	1	322	253	1.27273	
38	cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [source:swissprot;acc:p49336]	0	7230	10771	1.48976	
38	microfibril-associated glycoprotein 4 precursor. [source:swissprot;acc:p55083]	1	322	253	1.27273	
39	ero1-like. [source:refseq;acc:nm_014584]	0	13853	20536	1.48242	
39	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [source:refseq;acc:nm_017726]	1	322	253	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	322	253	1.27273	
40	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [source:swissprot;acc:p21333]	0	3845	5699	1.48218	
41	60s ribosomal protein l21. [source:swissprot;acc:p46778]	0	9994.33	6758.83	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	322	253	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	8158	5530.5	1.47509	
42	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [source:swissprot;acc:p01100]	1	204.641	160.957	1.2714	
43	glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [source:swissprot;acc:p30712]	0	12143.8	8356.02	1.4533	
43	jun dimerization protein. [source:refseq;acc:nm_130469]	1	204.641	160.957	1.2714	
44	fos-related antigen 2. [source:swissprot;acc:p15408]	1	204.641	161.046	1.2707	
44	serpin b12. [source:swissprot;acc:q96p63]	0	14604.2	21138.6	1.44743	
45	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [source:swissprot;acc:q9uiv8]	0	14592	21113.7	1.44694	
45	protein fosb (g0/g1 switch regulatory protein 3). [source:swissprot;acc:p53539]	1	204.641	161.051	1.27066	
46	60s ribosomal protein l37a. [source:swissprot;acc:p12751]	0	12941.7	18499.2	1.42943	
46	fos-related antigen 1 (fra-1). [source:swissprot;acc:p15407]	1	204.642	161.068	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	12941.7	18499.2	1.42943	
47	gbp protein isoform a. [source:refseq;acc:nm_017870]	1	325.586	256.492	1.26938	
48	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [source:refseq;acc:nm_007278]	1	65.4586	83.0461	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	9830	6909	1.42278	
49	beta-arrestin 2 (arrestin, beta 2). [source:swissprot;acc:p32121]	1	133	105	1.26667	
49	brain protein 16. [source:refseq;acc:nm_016458]	0	6890.54	4854.99	1.41927	
50	beta-arrestin 1 (arrestin, beta 1). [source:swissprot;acc:p49407]	1	133	105	1.26667	
50	cartilage oligomeric matrix protein precursor (comp). [source:swissprot;acc:p49747]	0	9249.73	13091.4	1.41533	
51	importin alpha-2 subunit (karyopherin alpha-2 subunit) (srp1-alpha) (rag cohort protein 1). [source:swissprot;acc:p52292]	0	7168	5102	1.40494	
51	spermatogenesis associated 6. [source:refseq;acc:nm_019073]	1	133	105	1.26667	
52	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [source:swissprot;acc:q01433]	1	133	105	1.26667	
52	ariadne-2 protein homolog (ari-2) (triad1 protein) (ht005). [source:swissprot;acc:o95376]	0	3284	4554.5	1.38688	
53	transcription factor jun-b. [source:swissprot;acc:p17275]	1	201.144	158.868	1.26611	
53	ubiquitin-conjugating enzyme e2-18 kda ubch7 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (ubcm4) (e2-f1) (l-ubc). [source:swissprot;acc:p51966]	0	3284	4554.5	1.38688	
54	syntaxin 10 (syn10). [source:swissprot;acc:o60499]	0	13884.4	19014.6	1.36949	
54	transcription factor jun-d. [source:swissprot;acc:p17535]	1	200.941	158.941	1.26425	
55	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [source:refseq;acc:nm_003690]	1	320.927	254.434	1.26134	
55	sedlin. [source:swissprot;acc:o14582]	0	22440	16388	1.36929	
56	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [source:swissprot;acc:o60262]	1	266.856	336.233	1.25998	
56	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [source:swissprot;acc:q9y296]	0	22440	16388	1.36929	
57	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [source:swissprot;acc:q9ubi6]	1	266.856	336.233	1.25998	
57	hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [source:swissprot;acc:q16543]	0	8152.55	11134.8	1.36581	
58	dead-box protein. [source:refseq;acc:nm_018665]	0	10628.3	14486	1.36296	
58	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [source:swissprot;acc:p50150]	1	266.863	336.191	1.25979	
59	glutamate dehydrogenase 2, mitochondrial precursor (ec 1.4.1.3) (gdh). [source:swissprot;acc:p49448]	0	15863.6	11662.3	1.36025	
59	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [source:swissprot;acc:p29798]	1	266.863	336.19	1.25978	
60	glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [source:swissprot;acc:p46926]	0	11761	15924	1.35397	
60	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [source:swissprot;acc:q9uk08]	1	266.864	336.184	1.25976	
61	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [source:swissprot;acc:p30670]	1	266.864	336.182	1.25975	
61	testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [source:swissprot;acc:p16562]	0	15352	11346.5	1.35302	

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/