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 2030 to 2079 of 3228 in total 
Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	green	network_comparison	
2030	alanine aminotransferase 2; glutamic-pyruvate transaminase 2. [source:refseq;acc:nm_133443]	189.999	191.677	1.00883	
2031	traf and tnf receptor-associated protein; ets1-associated protein 2. [source:refseq;acc:nm_016614]	218.466	216.562	1.00879	
2032	f-actin capping protein alpha-3 subunit (capz alpha-3) (germ cell- specific protein 3). [source:swissprot;acc:q96kx2]	215.322	213.46	1.00872	
2033	f-actin capping protein beta subunit (capz beta). [source:swissprot;acc:p47756]	215.322	213.46	1.00872	
2034	centaurin beta 5 (cnt-b5). [source:swissprot;acc:q96p50]	218.919	220.812	1.00865	
2035	centaurin beta 2 (cnt-b2). [source:swissprot;acc:q15057]	218.919	220.812	1.00865	
2036	lamin b1. [source:swissprot;acc:p20700]	218.919	220.813	1.00865	
2037	centaurin beta 1 (cnt-b1). [source:swissprot;acc:q15027]	218.919	220.812	1.00865	
2038	lamin a/c (70 kda lamin). [source:swissprot;acc:p02545]	218.92	220.811	1.00864	
2039	acetyl-coenzyme a synthetase, cytoplasmic (ec 6.2.1.1) (acetate--coa ligase) (acyl-activating enzyme) (acetyl-coa synthetase) (acs) (acecs). [source:swissprot;acc:q9nr19]	190.551	192.191	1.00861	
2040	brachyury protein (t protein). [source:swissprot;acc:o15178]	210.586	208.803	1.00854	
2041	ataxin-1 ubiquitin-like interacting protein. [source:refseq;acc:nm_020131]	196.808	195.141	1.00854	
2042	t-box transcription factor tbx19 (t-box protein 19). [source:swissprot;acc:o60806]	210.586	208.803	1.00854	
2043	ubiquilin 1 isoform 1. [source:refseq;acc:nm_013438]	196.837	195.173	1.00853	
2044	adapter-related protein complex 3 beta 1 subunit (beta-adaptin 3a) (ap-3 complex beta-3a subunit) (beta-3a-adaptin). [source:swissprot;acc:o00203]	199.928	198.24	1.00851	
2045	ny-ren-24 antigen (fragment). [source:sptrembl;acc:q9y5a4]	199.928	198.24	1.00851	
2046	adapter-related protein complex 3 beta 2 subunit (beta-adaptin 3b) (ap-3 complex beta-3b subunit) (beta-3b-adaptin) (neuron-specific vesicle coat protein beta-nap). [source:swissprot;acc:q13367]	199.928	198.24	1.00851	
2047	solute carrier family 2, facilitated glucose transporter, member 6 (glucose transporter type 6) (glucose transporter type 9). [source:swissprot;acc:q9ugq3]	224.124	226.003	1.00838	
2048	solute carrier family 2, facilitated glucose transporter, member 8 (glucose transporter type 8) (glucose transporter type x1). [source:swissprot;acc:q9ny64]	224.124	226.003	1.00838	
2049	translation initiation factor eif-2b beta subunit (eif-2b gdp-gtp exchange factor) (s20i15) (s20iii15). [source:swissprot;acc:p49770]	220.787	222.634	1.00837	
2050	sh3 domain-binding glutamic acid-rich protein (sh3bgr protein) (21- glutamic acid-rich protein) (21-garp). [source:swissprot;acc:p55822]	218.79	216.981	1.00834	
2051	oxidation resistance 1. [source:refseq;acc:nm_181354]	218.79	216.981	1.00834	
2052	ornithine decarboxylase antizyme inhibitor. [source:swissprot;acc:o14977]	207.667	205.95	1.00834	
2053	lats, large tumor suppressor, homolog 2; lats (large tumor suppressor, drosophila) homolog 2. [source:refseq;acc:nm_014572]	218.79	216.981	1.00834	
2054	ornithine decarboxylase-like protein (ec 4.1.1.17) (odc-paralogue) (odc-p). [source:swissprot;acc:q96a70]	207.665	205.948	1.00834	
2055	dymeclin. [source:refseq;acc:nm_017653]	218.79	216.981	1.00834	
2056	sh3 domain-binding glutamic acid-rich-like protein. [source:swissprot;acc:o75368]	218.79	216.981	1.00834	
2057	lats homolog 1. [source:refseq;acc:nm_004690]	218.79	216.981	1.00834	
2058	sh3 domain-binding glutamic acid-rich-like protein 2 (fovea-associated sh3 domain binding protein). [source:swissprot;acc:q9ujc5]	218.79	216.981	1.00834	
2059	nuclear receptor coactivator 7; estrogen receptor associated protein 140 kda. [source:refseq;acc:nm_181782]	218.79	216.981	1.00834	
2060	dj132f21.2 (contains a novel protein similar to the l82e from drosophila) (fragment). [source:sptrembl;acc:q9h125]	218.79	216.981	1.00834	
2061	tbc1 domain family protein c22orf4-like (fragment). [source:swissprot;acc:q9nu19]	218.79	216.981	1.00834	
2062	tbc1 domain family protein c22orf4. [source:swissprot;acc:q8wua7]	218.79	216.981	1.00834	
2063	ornithine decarboxylase (ec 4.1.1.17) (odc). [source:swissprot;acc:p11926]	207.638	205.923	1.00833	
2064	aminoadipate-semialdehyde synthase; lysine-ketoglutarate reductase /saccharopine dehydrogenase; lysine-2-oxoglutarate reductase; aminoadipic semialdehyde synthase. [source:refseq;acc:nm_005763]	207.655	205.939	1.00833	
2065	ubiquitin-conjugating enzyme e2 n (ec 6.3.2.19) (ubiquitin-protein ligase n) (ubiquitin carrier protein n) (ubc13) (bendless-like ubiquitin conjugating enzyme). [source:swissprot;acc:q16781]	214.328	212.561	1.00831	
2066	proliferating cell nuclear antigen (pcna) (cyclin). [source:swissprot;acc:p12004]	229.102	231.001	1.00829	
2067	adenylosuccinate lyase (ec 4.3.2.2) (adenylosuccinase) (asl) (asase). [source:swissprot;acc:p30566]	193.226	191.639	1.00828	
2068	fas apoptotic inhibitory molecule. [source:refseq;acc:nm_018147]	220.8	222.61	1.0082	
2069	dual specificity mitogen-activated protein kinase kinase 1 (ec 2.7.1.-) (map kinase kinase 1) (mapkk 1) (erk activator kinase 1) (mapk/erk kinase 1) (mek1). [source:swissprot;acc:q02750]	217.555	215.807	1.0081	
2070	rac gtpase activating protein 1; gtpase activating protein. [source:refseq;acc:nm_013277]	223.199	225.008	1.0081	
2071	similar to kinase suppressor of ras (fragment). [source:sptrembl;acc:q8ivt5]	217.555	215.807	1.0081	
2072	dual specificity mitogen-activated protein kinase kinase 2 (ec 2.7.1.-) (map kinase kinase 2) (mapkk 2) (erk activator kinase 2) (mapk/erk kinase 2) (mek2). [source:swissprot;acc:p36507]	217.555	215.807	1.0081	
2073	topoisomerase-related function protein 4-2. [source:refseq;acc:nm_022447]	229.267	227.433	1.00806	
2074	dna polymerase gamma subunit 1 (ec 2.7.7.7) (mitochondrial dna polymerase catalytic subunit) (polg-alpha). [source:swissprot;acc:p54098]	216.324	214.599	1.00804	
2075	cd109; gov system alloantigens on platelets. [source:refseq;acc:nm_133493]	221.703	223.483	1.00803	
2076	peptidyl-prolyl cis-trans isomerase nima-interacting 1 (ec 5.2.1.8) (rotamase pin1) (ppiase pin1). [source:swissprot;acc:q13526]	221.703	223.483	1.00803	
2077	iroquois-class homeodomain protein irx-4 (iroquois homeobox protein 4). [source:swissprot;acc:p78413]	221.703	223.483	1.00803	
2078	fidgetin-like 1. [source:refseq;acc:nm_022116]	215.511	213.814	1.00794	
2079	phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing gamma polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-gamma) (ptdins-3-kinase c2 gamma) (pi3k-c2gamma). [source:swissprot;acc:o75747]	215.967	214.28	1.00787	

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/