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Items: 1 to 50 of 284

1.

Low complexity regions in the proteins of prokaryotes perform important functional roles and are highly conserved.

Ntountoumi C, Vlastaridis P, Mossialos D, Stathopoulos C, Iliopoulos I, Promponas V, Oliver SG, Amoutzias GD.

Nucleic Acids Res. 2019 Sep 4. pii: gkz730. doi: 10.1093/nar/gkz730. [Epub ahead of print]

PMID:
31504783
2.

Metabolic response to Parkinson's disease recapitulated by the haploinsufficient diploid yeast cells hemizygous for the adrenodoxin reductase gene.

Dikicioglu D, Coxon JWMT, Oliver SG.

Mol Omics. 2019 Aug 20. doi: 10.1039/c9mo00090a. [Epub ahead of print]

PMID:
31429849
3.

Metaheuristic approaches in biopharmaceutical process development data analysis.

Gangadharan N, Turner R, Field R, Oliver SG, Slater N, Dikicioglu D.

Bioprocess Biosyst Eng. 2019 Sep;42(9):1399-1408. doi: 10.1007/s00449-019-02147-0. Epub 2019 May 22. Review.

4.

Hidden in plain sight: what remains to be discovered in the eukaryotic proteome?

Wood V, Lock A, Harris MA, Rutherford K, Bähler J, Oliver SG.

Open Biol. 2019 Feb 28;9(2):180241. doi: 10.1098/rsob.180241.

5.

High-energy guanine nucleotides as a signal capable of linking growth to cellular energy status via the control of gene transcription.

Hesketh A, Oliver SG.

Curr Genet. 2019 Aug;65(4):893-897. doi: 10.1007/s00294-019-00963-1. Epub 2019 Apr 1. Review.

6.

Transcriptional regulation of the genes involved in protein metabolism and processing in Saccharomyces cerevisiae.

Dikicioglu D, Nightingale DJH, Wood V, Lilley KS, Oliver SG.

FEMS Yeast Res. 2019 Mar 1;19(2). pii: foz014. doi: 10.1093/femsyr/foz014.

PMID:
30753445
7.

Enhancing the functionality of a microscale bioreactor system as an industrial process development tool for mammalian perfusion culture.

Sewell DJ, Turner R, Field R, Holmes W, Pradhan R, Spencer C, Oliver SG, Slater NK, Dikicioglu D.

Biotechnol Bioeng. 2019 Jun;116(6):1315-1325. doi: 10.1002/bit.26946. Epub 2019 Feb 20.

8.

Determination of the Global Pattern of Gene Expression in Yeast Cells by Intracellular Levels of Guanine Nucleotides.

Hesketh A, Vergnano M, Oliver SG.

MBio. 2019 Jan 22;10(1). pii: e02500-18. doi: 10.1128/mBio.02500-18.

9.

Correction: esyN: Network Building, Sharing and Publishing.

Bean DM, Heimbach J, Ficorella L, Micklem G, Oliver SG, Favrin G.

PLoS One. 2019 Jan 9;14(1):e0204058. doi: 10.1371/journal.pone.0204058. eCollection 2019.

10.

A heuristic approach to handling missing data in biologics manufacturing databases.

Mante J, Gangadharan N, Sewell DJ, Turner R, Field R, Oliver SG, Slater N, Dikicioglu D.

Bioprocess Biosyst Eng. 2019 Apr;42(4):657-663. doi: 10.1007/s00449-018-02059-5. Epub 2019 Jan 8.

11.
12.

TAMMiCol: Tool for analysis of the morphology of microbial colonies.

Tronnolone H, Gardner JM, Sundstrom JF, Jiranek V, Oliver SG, Binder BJ.

PLoS Comput Biol. 2018 Dec 3;14(12):e1006629. doi: 10.1371/journal.pcbi.1006629. eCollection 2018 Dec.

13.

The subcellular organisation of Saccharomyces cerevisiae.

Nightingale DJ, Geladaki A, Breckels LM, Oliver SG, Lilley KS.

Curr Opin Chem Biol. 2019 Feb;48:86-95. doi: 10.1016/j.cbpa.2018.10.026. Epub 2018 Nov 29. Review.

14.

Saccharomyces cerevisiae adapted to grow in the presence of low-dose rapamycin exhibit altered amino acid metabolism.

Dikicioglu D, Dereli Eke E, Eraslan S, Oliver SG, Kirdar B.

Cell Commun Signal. 2018 Nov 20;16(1):85. doi: 10.1186/s12964-018-0298-y.

15.

PomBase 2018: user-driven reimplementation of the fission yeast database provides rapid and intuitive access to diverse, interconnected information.

Lock A, Rutherford K, Harris MA, Hayles J, Oliver SG, Bähler J, Wood V.

Nucleic Acids Res. 2019 Jan 8;47(D1):D821-D827. doi: 10.1093/nar/gky961.

16.

Process development for the continuous production of heterologous proteins by the industrial yeast, Komagataella phaffii.

Cankorur-Cetinkaya A, Narraidoo N, Kasavi C, Slater NKH, Archer DB, Oliver SG.

Biotechnol Bioeng. 2018 Dec;115(12):2962-2973. doi: 10.1002/bit.26846. Epub 2018 Oct 24.

17.

Diffusion-Limited Growth of Microbial Colonies.

Tronnolone H, Tam A, Szenczi Z, Green JEF, Balasuriya S, Tek EL, Gardner JM, Sundstrom JF, Jiranek V, Oliver SG, Binder BJ.

Sci Rep. 2018 Apr 16;8(1):5992. doi: 10.1038/s41598-018-23649-z.

18.

Antiplasmodial and trypanocidal activity of violacein and deoxyviolacein produced from synthetic operons.

Bilsland E, Tavella TA, Krogh R, Stokes JE, Roberts A, Ajioka J, Spring DR, Andricopulo AD, Costa FTM, Oliver SG.

BMC Biotechnol. 2018 Apr 11;18(1):22. doi: 10.1186/s12896-018-0428-z.

19.

Evaluation of the ability of commercial wine yeasts to form biofilms (mats) and adhere to plastic: implications for the microbiota of the winery environment.

Tek EL, Sundstrom JF, Gardner JM, Oliver SG, Jiranek V.

FEMS Microbiol Ecol. 2018 Feb 1;94(2). doi: 10.1093/femsec/fix188.

PMID:
29394344
20.

Handling variability and incompleteness of biological data by flexible nets: a case study for Wilson disease.

Júlvez J, Dikicioglu D, Oliver SG.

NPJ Syst Biol Appl. 2018 Jan 11;4:7. doi: 10.1038/s41540-017-0044-x. eCollection 2018.

21.

Plasmodium dihydrofolate reductase is a second enzyme target for the antimalarial action of triclosan.

Bilsland E, van Vliet L, Williams K, Feltham J, Carrasco MP, Fotoran WL, Cubillos EFG, Wunderlich G, Grøtli M, Hollfelder F, Jackson V, King RD, Oliver SG.

Sci Rep. 2018 Jan 18;8(1):1038. doi: 10.1038/s41598-018-19549-x.

22.

Quantifying the dominant growth mechanisms of dimorphic yeast using a lattice-based model.

Tronnolone H, Gardner JM, Sundstrom JF, Jiranek V, Oliver SG, Binder BJ.

J R Soc Interface. 2017 Sep;14(134). pii: 20170314. doi: 10.1098/rsif.2017.0314.

23.

Erratum: CamOptimus: a tool for exploiting complex adaptive evolution to optimise experiments and processes in biotechnology.

Cankorur-Cetinkaya A, Dias JML, Kludas J, Slater NKH, Rousu J, Oliver SG, Dikicioglu D.

Microbiology. 2017 Sep;163(9):1369. doi: 10.1099/mic.0.000530. Epub 2017 Sep 8.

24.

Bacterial Signaling Nucleotides Inhibit Yeast Cell Growth by Impacting Mitochondrial and Other Specifically Eukaryotic Functions.

Hesketh A, Vergnano M, Wan C, Oliver SG.

MBio. 2017 Jul 25;8(4). pii: e01047-17. doi: 10.1128/mBio.01047-17.

25.

Metabolic modeling to identify engineering targets for Komagataella phaffii: The effect of biomass composition on gene target identification.

Cankorur-Cetinkaya A, Dikicioglu D, Oliver SG.

Biotechnol Bioeng. 2017 Nov;114(11):2605-2615. doi: 10.1002/bit.26380. Epub 2017 Aug 15.

26.

CamOptimus: a tool for exploiting complex adaptive evolution to optimize experiments and processes in biotechnology.

Cankorur-Cetinkaya A, Dias JML, Kludas J, Slater NKH, Rousu J, Oliver SG, Dikicioglu D.

Microbiology. 2017 Jun;163(6):829-839. doi: 10.1099/mic.0.000477. Epub 2017 Jun 21. Erratum in: Microbiology. 2017 Sep;163(9):1369.

27.

Cholinergic neuron gene expression differences captured by translational profiling in a mouse model of Alzheimer's disease.

McKeever PM, Kim T, Hesketh AR, MacNair L, Miletic D, Favrin G, Oliver SG, Zhang Z, St George-Hyslop P, Robertson J.

Neurobiol Aging. 2017 Sep;57:104-119. doi: 10.1016/j.neurobiolaging.2017.05.014. Epub 2017 May 25.

PMID:
28628896
28.

Spinal motor neuron protein supersaturation patterns are associated with inclusion body formation in ALS.

Ciryam P, Lambert-Smith IA, Bean DM, Freer R, Cid F, Tartaglia GG, Saunders DN, Wilson MR, Oliver SG, Morimoto RI, Dobson CM, Vendruscolo M, Favrin G, Yerbury JJ.

Proc Natl Acad Sci U S A. 2017 May 16;114(20):E3935-E3943. doi: 10.1073/pnas.1613854114. Epub 2017 Apr 10.

29.

Estimating the total number of phosphoproteins and phosphorylation sites in eukaryotic proteomes.

Vlastaridis P, Kyriakidou P, Chaliotis A, Van de Peer Y, Oliver SG, Amoutzias GD.

Gigascience. 2017 Feb 1;6(2):1-11. doi: 10.1093/gigascience/giw015.

30.

The Pivotal Role of Protein Phosphorylation in the Control of Yeast Central Metabolism.

Vlastaridis P, Papakyriakou A, Chaliotis A, Stratikos E, Oliver SG, Amoutzias GD.

G3 (Bethesda). 2017 Apr 3;7(4):1239-1249. doi: 10.1534/g3.116.037218.

31.

Chronological Lifespan in Yeast Is Dependent on the Accumulation of Storage Carbohydrates Mediated by Yak1, Mck1 and Rim15 Kinases.

Cao L, Tang Y, Quan Z, Zhang Z, Oliver SG, Zhang N.

PLoS Genet. 2016 Dec 6;12(12):e1006458. doi: 10.1371/journal.pgen.1006458. eCollection 2016 Dec.

32.

The metabolome 18 years on: a concept comes of age.

Kell DB, Oliver SG.

Metabolomics. 2016;12(9):148. Epub 2016 Sep 2. Review.

33.

Model organism databases: essential resources that need the support of both funders and users.

Oliver SG, Lock A, Harris MA, Nurse P, Wood V.

BMC Biol. 2016 Jun 22;14:49. doi: 10.1186/s12915-016-0276-z.

34.

Response to 'The Need for Speed', by Matsson et al.

Mendes P, Oliver SG, Kell DB.

Trends Pharmacol Sci. 2016 Apr;37(4):245-246. doi: 10.1016/j.tips.2016.02.004. Epub 2016 Feb 26. No abstract available.

35.

Yeast-Based High-Throughput Screens to Identify Novel Compounds Active against Brugia malayi.

Bilsland E, Bean DM, Devaney E, Oliver SG.

PLoS Negl Trop Dis. 2016 Jan 26;10(1):e0004401. doi: 10.1371/journal.pntd.0004401. eCollection 2016 Jan.

36.

A Tool for Multiple Targeted Genome Deletions that Is Precise, Scar-Free, and Suitable for Automation.

Aubrey W, Riley MC, Young M, King RD, Oliver SG, Clare A.

PLoS One. 2015 Dec 2;10(12):e0142494. doi: 10.1371/journal.pone.0142494. eCollection 2015.

37.

Fitting Transporter Activities to Cellular Drug Concentrations and Fluxes: Why the Bumblebee Can Fly.

Mendes P, Oliver SG, Kell DB.

Trends Pharmacol Sci. 2015 Nov;36(11):710-723. doi: 10.1016/j.tips.2015.07.006. Epub 2015 Nov 1. Review.

38.

Biomass composition: the "elephant in the room" of metabolic modelling.

Dikicioglu D, Kırdar B, Oliver SG.

Metabolomics. 2015;11(6):1690-1701. Epub 2015 Jun 11.

39.

Systems Biology of Alzheimer's Disease. Preface.

Castrillo JI, Oliver SG.

Methods Mol Biol. 2016;1303:v-vi. No abstract available.

PMID:
26443872
40.

CLUSTERnGO: a user-defined modelling platform for two-stage clustering of time-series data.

Fidaner IB, Cankorur-Cetinkaya A, Dikicioglu D, Kirdar B, Cemgil AT, Oliver SG.

Bioinformatics. 2016 Feb 1;32(3):388-97. doi: 10.1093/bioinformatics/btv532. Epub 2015 Sep 26.

41.

Alzheimer's as a Systems-Level Disease Involving the Interplay of Multiple Cellular Networks.

Castrillo JI, Oliver SG.

Methods Mol Biol. 2016;1303:3-48. doi: 10.1007/978-1-4939-2627-5_1. Review.

PMID:
26235058
42.

The Yeast GSK-3 Homologue Mck1 Is a Key Controller of Quiescence Entry and Chronological Lifespan.

Quan Z, Cao L, Tang Y, Yan Y, Oliver SG, Zhang N.

PLoS Genet. 2015 Jun 23;11(6):e1005282. doi: 10.1371/journal.pgen.1005282. eCollection 2015 Jun.

43.

Membrane transporter engineering in industrial biotechnology and whole cell biocatalysis.

Kell DB, Swainston N, Pir P, Oliver SG.

Trends Biotechnol. 2015 Apr;33(4):237-46. doi: 10.1016/j.tibtech.2015.02.001. Epub 2015 Mar 3. Review.

44.

Quantifying two-dimensional filamentous and invasive growth spatial patterns in yeast colonies.

Binder BJ, Sundstrom JF, Gardner JM, Jiranek V, Oliver SG.

PLoS Comput Biol. 2015 Feb 26;11(2):e1004070. doi: 10.1371/journal.pcbi.1004070. eCollection 2015 Feb.

45.

Cheaper faster drug development validated by the repositioning of drugs against neglected tropical diseases.

Williams K, Bilsland E, Sparkes A, Aubrey W, Young M, Soldatova LN, De Grave K, Ramon J, de Clare M, Sirawaraporn W, Oliver SG, King RD.

J R Soc Interface. 2015 Mar 6;12(104):20141289. doi: 10.1098/rsif.2014.1289.

46.

Identification and deconvolution of cross-resistance signals from antimalarial compounds using multidrug-resistant Plasmodium falciparum strains.

Chugh M, Scheurer C, Sax S, Bilsland E, van Schalkwyk DA, Wicht KJ, Hofmann N, Sharma A, Bashyam S, Singh S, Oliver SG, Egan TJ, Malhotra P, Sutherland CJ, Beck HP, Wittlin S, Spangenberg T, Ding XC.

Antimicrob Agents Chemother. 2015 Feb;59(2):1110-8. doi: 10.1128/AAC.03265-14. Epub 2014 Dec 8.

47.

How drugs get into cells: tested and testable predictions to help discriminate between transporter-mediated uptake and lipoidal bilayer diffusion.

Kell DB, Oliver SG.

Front Pharmacol. 2014 Oct 31;5:231. doi: 10.3389/fphar.2014.00231. eCollection 2014. Review.

48.

PomBase 2015: updates to the fission yeast database.

McDowall MD, Harris MA, Lock A, Rutherford K, Staines DM, Bähler J, Kersey PJ, Oliver SG, Wood V.

Nucleic Acids Res. 2015 Jan;43(Database issue):D656-61. doi: 10.1093/nar/gku1040. Epub 2014 Oct 31.

49.

esyN: network building, sharing and publishing.

Bean DM, Heimbach J, Ficorella L, Micklem G, Oliver SG, Favrin G.

PLoS One. 2014 Sep 2;9(9):e106035. doi: 10.1371/journal.pone.0106035. eCollection 2014. Erratum in: PLoS One. 2019 Jan 9;14(1):e0204058.

50.

The TRiC/CCT chaperone is implicated in Alzheimer's disease based on patient GWAS and an RNAi screen in Aβ-expressing Caenorhabditis elegans.

Khabirova E, Moloney A, Marciniak SJ, Williams J, Lomas DA, Oliver SG, Favrin G, Sattelle DB, Crowther DC.

PLoS One. 2014 Jul 31;9(7):e102985. doi: 10.1371/journal.pone.0102985. eCollection 2014.

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