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.

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 151 to 200 of 12912 in total

Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	Value Type	red	green	network_comparison	
38	microfibril-associated glycoprotein 4 precursor. [source:swissprot;acc:p55083]	Ranked	322	253	1.27273	
38	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [source:swissprot;acc:q9h999]	Squared	106226	192141	1.80879	
39	guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [source:swissprot;acc:p04899]	Measured	1836.8	907.903	2.02312	
39	guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [source:swissprot;acc:p04899]	Rooted	40.28	24.37	1.65285	
39	mitochondrial solute carrier protein. [source:refseq;acc:nm_145305]	Squared	106226	192141	1.80879	
39	protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [source:refseq;acc:nm_017726]	Ranked	322	253	1.27273	
40	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [source:refseq;acc:nm_052936]	Squared	144940	81169.7	1.78564	
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]	Ranked	322	253	1.27273	
40	guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [source:swissprot;acc:p04898]	Measured	1836.81	907.978	2.02297	
40	guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [source:swissprot;acc:p04898]	Rooted	40.2797	24.3705	1.65281	
41	guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [source:swissprot;acc:p08754]	Measured	1836.81	907.978	2.02297	
41	guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [source:swissprot;acc:p08754]	Rooted	40.2797	24.3705	1.65281	
41	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [source:swissprot;acc:q9gzq8]	Squared	144912	81155	1.78562	
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]	Ranked	322	253	1.27273	
42	guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [source:swissprot;acc:o14775]	Measured	1857.32	958.237	1.93827	
42	guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [source:swissprot;acc:o14775]	Rooted	40.225	24.7051	1.62821	
42	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [source:swissprot;acc:q9h492]	Squared	144911	81154.7	1.78561	
42	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [source:swissprot;acc:p01100]	Ranked	204.641	160.957	1.2714	
43	cysteine endopeptidase aut-like isoform b. [source:refseq;acc:nm_178326]	Squared	144876	81136.5	1.78558	
43	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [source:swissprot;acc:p04901]	Rooted	40.6302	25.4452	1.59677	
43	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [source:swissprot;acc:p16520]	Measured	1881.02	1027.36	1.83093	
43	jun dimerization protein. [source:refseq;acc:nm_130469]	Ranked	204.641	160.957	1.2714	
44	fos-related antigen 2. [source:swissprot;acc:p15408]	Ranked	204.641	161.046	1.2707	
44	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [source:refseq;acc:nm_007278]	Squared	139741	78454.6	1.78117	
44	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [source:swissprot;acc:q9hav0]	Rooted	40.5691	25.4263	1.59556	
44	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [source:swissprot;acc:p04901]	Measured	1931.34	1057.39	1.82652	
45	gaba-a receptor-associated protein. [source:sptrembl;acc:q9by60]	Squared	129597	73157.5	1.77148	
45	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [source:swissprot;acc:q9hav0]	Measured	1926.69	1056.02	1.82448	
45	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [source:swissprot;acc:p16520]	Rooted	40.081	25.1546	1.59339	
45	protein fosb (g0/g1 switch regulatory protein 3). [source:swissprot;acc:p53539]	Ranked	204.641	161.051	1.27066	
46	apg3p; pc3-96 protein. [source:refseq;acc:nm_022488]	Squared	129597	73157.5	1.77148	
46	deltex 2. [source:refseq;acc:nm_020892]	Rooted	27.634	43.9629	1.5909	
46	fos-related antigen 1 (fra-1). [source:swissprot;acc:p15407]	Ranked	204.642	161.068	1.27053	
46	neurogenic differentiation factor 2 (neurod2). [source:swissprot;acc:q15784]	Measured	779.167	1390.33	1.78438	
47	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [source:swissprot;acc:q12873]	Measured	779.167	1390.33	1.78438	
47	deltex homolog 1; hdx-1. [source:refseq;acc:nm_004416]	Rooted	27.7078	44.017	1.58861	
47	gbp protein isoform a. [source:refseq;acc:nm_017870]	Ranked	325.586	256.492	1.26938	
47	ubiquitin activating enzyme e1-like protein. [source:refseq;acc:nm_006395]	Squared	98517.9	56927.2	1.73059	
48	doc-1 related protein (doc-1r). [source:swissprot;acc:o75956]	Measured	779.167	1390.33	1.78438	
48	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [source:refseq;acc:nm_007278]	Ranked	65.4586	83.0461	1.26868	
48	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [source:refseq;acc:nm_022075]	Squared	6300.2	10703.5	1.69891	
48	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]	Rooted	27.7254	44.0299	1.58807	
49	associated molecule with the sh3 domain of stam (amsh) like protein. [source:refseq;acc:nm_020799]	Squared	28994.2	17134.8	1.69212	
49	beta-arrestin 2 (arrestin, beta 2). [source:swissprot;acc:p32121]	Ranked	133	105	1.26667	
49	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [source:refseq;acc:nm_006558]	Rooted	27.7254	44.0299	1.58807	
49	neurogenic differentiation factor 6 (neurod6) (my051 protein). [source:swissprot;acc:q96nk8]	Measured	779.167	1390.33	1.78438	
50	beta-arrestin 1 (arrestin, beta 1). [source:swissprot;acc:p49407]	Ranked	133	105	1.26667	
50	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [source:refseq;acc:nm_006559]	Rooted	27.7254	44.0299	1.58807	
50	neurogenic differentiation factor 1 (neurod1) (neurod). [source:swissprot;acc:q13562]	Measured	779.167	1390.33	1.78438	
50	putative breast adenocarcinoma marker (32kd). [source:refseq;acc:nm_014453]	Squared	28994.2	17134.8	1.69212	

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/