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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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 2013 to 2062 of 3228 in total

Value Type	Ranked
Network Comparison Type	Divided
Interaction Map	High confidence
Filtered	1

Rank	description	red	green	network_comparison	
2013	protein phosphatase 1, regulatory (inhibitor) subunit 12b isoform a; myosin phosphatase regulatory subunit; myosin phosphatase, target subunit 2. [source:refseq;acc:nm_002481]	217.662	215.693	1.00913	
2014	protein phosphatase 1, regulatory (inhibitor) subunit 12a; myosin phosphatase, target subunit 1. [source:refseq;acc:nm_002480]	217.676	215.709	1.00912	
2015	dna topoisomerase iii alpha (ec 5.99.1.2). [source:swissprot;acc:q13472]	217.941	215.979	1.00908	
2016	electron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial precursor (ec 1.5.5.1) (etf-qo) (etf-ubiquinone oxidoreductase) (etf dehydrogenase) (electron-transferring- flavoprotein dehydrogenase). [source:swissprot;acc:q16134]	199.092	197.301	1.00908	
2017	ribosome biogenesis regulatory protein homolog. [source:swissprot;acc:q15050]	127.397	128.553	1.00907	
2018	serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [source:swissprot;acc:p08129]	127.397	128.553	1.00907	
2019	acyl-coa dehydrogenase, short/branched chain specific, mitochondrial precursor (ec 1.3.99.-) (sbcad) (2-methyl branched chain acyl-coa dehydrogenase) (2-mebcad) (2-methylbutyryl-coenzyme a dehydrogenase) (2-methylbutyryl-coa dehydrogenase). [source:swissprot;acc:p45954]	215.799	213.865	1.00904	
2020	putative eukaryotic translation initiation factor 3 subunit (eif-3) (fragment). [source:swissprot;acc:o75153]	223.168	221.176	1.00901	
2021	hexaprenyldihydroxybenzoate methyltransferase, mitochondrial precursor (ec 2.1.1.114) (dihydroxyhexaprenylbenzoate methyltransferase) (3,4- dihydroxy-5-hexaprenylbenzoate methyltransferase) (dhhb methyltransferase) (dhhb-mt) (dhhb-mtase). [source:swissprot;acc:q9nzj6]	208.601	210.464	1.00893	
2022	atp synthase coupling factor b, mitochondrial precursor. [source:swissprot;acc:q99766]	208.601	210.464	1.00893	
2023	guanine deaminase (ec 3.5.4.3) (guanase) (guanine aminase) (guanine aminohydrolase) (gah) (p51-nedasin). [source:swissprot;acc:q9y2t3]	208.601	210.464	1.00893	
2024	vacuolar protein sorting 33b (hvps33b). [source:swissprot;acc:q9h267]	215.553	213.663	1.00885	
2025	alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [source:swissprot;acc:p24298]	189.987	191.668	1.00885	
2026	vacuolar protein sorting 11 (hvps11) (pp3476). [source:swissprot;acc:q9h270]	215.553	213.663	1.00885	
2027	lin-7 homolog c; lin-7 protein 3. [source:refseq;acc:nm_018362]	225.015	223.041	1.00885	
2028	vacuolar protein sorting 33a (hvps33a). [source:swissprot;acc:q96ax1]	215.553	213.663	1.00885	
2029	cytoplasmic cysteine conjugate-beta lyase; glutamine-phenylpyruvate aminotransferase. [source:refseq;acc:nm_004059]	189.999	191.677	1.00883	
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	

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/