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An mTORC1-to-CDK1 Switch Maintains Autophagy Suppression during Mitosis.

Odle RI, Walker SA, Oxley D, Kidger AM, Balmanno K, Gilley R, Okkenhaug H, Florey O, Ktistakis NT, Cook SJ.

Mol Cell. 2019 Nov 6. pii: S1097-2765(19)30794-4. doi: 10.1016/j.molcel.2019.10.016. [Epub ahead of print]


MEK1/2 inhibitor withdrawal reverses acquired resistance driven by BRAFV600E amplification whereas KRASG13D amplification promotes EMT-chemoresistance.

Sale MJ, Balmanno K, Saxena J, Ozono E, Wojdyla K, McIntyre RE, Gilley R, Woroniuk A, Howarth KD, Hughes G, Dry JR, Arends MJ, Caro P, Oxley D, Ashton S, Adams DJ, Saez-Rodriguez J, Smith PD, Cook SJ.

Nat Commun. 2019 May 2;10(1):2030. doi: 10.1038/s41467-019-09438-w.


Correction to: Comparison of whole-genome bisulfite sequencing library preparation strategies identifies sources of biases affecting DNA methylation data.

Olova N, Krueger F, Andrews S, Oxley D, Berrens RV, Branco MR, Reik W.

Genome Biol. 2019 Feb 22;20(1):43. doi: 10.1186/s13059-019-1656-9.


Evaluation of the ray-casting analytical algorithm for pencil beam scanning proton therapy.

Winterhalter C, Zepter S, Shim S, Meier G, Bolsi A, Fredh A, Hrbacek J, Oxley D, Zhang Y, Weber DC, Lomax A, Safai S.

Phys Med Biol. 2019 Mar 18;64(6):065021. doi: 10.1088/1361-6560/aafe58.


Contour scanning, multi-leaf collimation and the combination thereof for proton pencil beam scanning.

Winterhalter C, Meier G, Oxley D, Weber DC, Lomax AJ, Safai S.

Phys Med Biol. 2018 Dec 20;64(1):015002. doi: 10.1088/1361-6560/aaf2e8.


Log file based Monte Carlo calculations for proton pencil beam scanning therapy.

Winterhalter C, Meier G, Oxley D, Weber DC, Lomax AJ, Safai S.

Phys Med Biol. 2019 Jan 29;64(3):035014. doi: 10.1088/1361-6560/aaf82d.


Quantitation of class IA PI3Ks in mice reveals p110-free-p85s and isoform-selective subunit associations and recruitment to receptors.

Tsolakos N, Durrant TN, Chessa T, Suire SM, Oxley D, Kulkarni S, Downward J, Perisic O, Williams RL, Stephens L, Hawkins PT.

Proc Natl Acad Sci U S A. 2018 Nov 27;115(48):12176-12181. doi: 10.1073/pnas.1803446115. Epub 2018 Nov 15.


Comment on 'Collimated proton pencil-beam scanning for superficial targets: impact of the order of range shifter and aperture'.

Winterhalter C, Lomax AJ, Oxley D, Weber DC, Safai S.

Phys Med Biol. 2018 Oct 17;63(20):208001. doi: 10.1088/1361-6560/aae0e1.


Validating a Monte Carlo approach to absolute dose quality assurance for proton pencil beam scanning.

Winterhalter C, Fura E, Tian Y, Aitkenhead A, Bolsi A, Dieterle M, Fredh A, Meier G, Oxley D, Siewert D, Weber DC, Lomax A, Safai S.

Phys Med Biol. 2018 Aug 23;63(17):175001. doi: 10.1088/1361-6560/aad3ae.


Comparison of whole-genome bisulfite sequencing library preparation strategies identifies sources of biases affecting DNA methylation data.

Olova N, Krueger F, Andrews S, Oxley D, Berrens RV, Branco MR, Reik W.

Genome Biol. 2018 Mar 15;19(1):33. doi: 10.1186/s13059-018-1408-2. Erratum in: Genome Biol. 2019 Feb 22;20(1):43.


Contractile responses to endothelin-1 are regulated by PKC phosphorylation of cardiac myosin binding protein-C in rat ventricular myocytes.

Smyrnias I, Goodwin N, Wachten D, Skogestad J, Aronsen JM, Robinson EL, Demydenko K, Segonds-Pichon A, Oxley D, Sadayappan S, Sipido K, Bootman MD, Roderick HL.

J Mol Cell Cardiol. 2018 Apr;117:1-18. doi: 10.1016/j.yjmcc.2018.02.012. Epub 2018 Feb 19.


Experimental validation of a deforming grid 4D dose calculation for PBS proton therapy.

Krieger M, Klimpki G, Fattori G, Hrbacek J, Oxley D, Safai S, Weber DC, Lomax AJ, Zhang Y.

Phys Med Biol. 2018 Mar 1;63(5):055005. doi: 10.1088/1361-6560/aaad1e.


A study of lateral fall-off (penumbra) optimisation for pencil beam scanning (PBS) proton therapy.

Winterhalter C, Lomax A, Oxley D, Weber DC, Safai S.

Phys Med Biol. 2018 Jan 11;63(2):025022. doi: 10.1088/1361-6560/aaa2ad.


A comprehensive study of lateral fall-off (penumbra) optimisation for pencil beam scanning (PBS) proton therapy.

Winterhalter C, Lomax AJ, Oxley D, Weber DC, Safai S.

Phys Med Biol. 2017 Dec 19. doi: 10.1088/1361-6560/aaa2ad. [Epub ahead of print]


The Ageing Brain: Effects on DNA Repair and DNA Methylation in Mice.

Langie SA, Cameron KM, Ficz G, Oxley D, Tomaszewski B, Gorniak JP, Maas LM, Godschalk RW, van Schooten FJ, Reik W, von Zglinicki T, Mathers JC.

Genes (Basel). 2017 Feb 17;8(2). pii: E75. doi: 10.3390/genes8020075.


Retinol and ascorbate drive erasure of epigenetic memory and enhance reprogramming to naïve pluripotency by complementary mechanisms.

Hore TA, von Meyenn F, Ravichandran M, Bachman M, Ficz G, Oxley D, Santos F, Balasubramanian S, Jurkowski TP, Reik W.

Proc Natl Acad Sci U S A. 2016 Oct 25;113(43):12202-12207. Epub 2016 Oct 11.


Exosomes bind to autotaxin and act as a physiological delivery mechanism to stimulate LPA receptor signalling in cells.

Jethwa SA, Leah EJ, Zhang Q, Bright NA, Oxley D, Bootman MD, Rudge SA, Wakelam MJ.

J Cell Sci. 2016 Oct 15;129(20):3948-3957. Epub 2016 Aug 24.


Gender bias in nineteenth-century England: Evidence from factory children.

Horrell S, Oxley D.

Econ Hum Biol. 2016 Sep;22:47-64. doi: 10.1016/j.ehb.2016.03.006. Epub 2016 Mar 17.


Norbin Stimulates the Catalytic Activity and Plasma Membrane Localization of the Guanine-Nucleotide Exchange Factor P-Rex1.

Pan D, Barber MA, Hornigold K, Baker MJ, Toth JM, Oxley D, Welch HC.

J Biol Chem. 2016 Mar 18;291(12):6359-75. doi: 10.1074/jbc.M115.686592. Epub 2016 Jan 20.


Elf5-centered transcription factor hub controls trophoblast stem cell self-renewal and differentiation through stoichiometry-sensitive shifts in target gene networks.

Latos PA, Sienerth AR, Murray A, Senner CE, Muto M, Ikawa M, Oxley D, Burge S, Cox BJ, Hemberger M.

Genes Dev. 2015 Dec 1;29(23):2435-48. doi: 10.1101/gad.268821.115. Epub 2015 Nov 19.


Fgf and Esrrb integrate epigenetic and transcriptional networks that regulate self-renewal of trophoblast stem cells.

Latos PA, Goncalves A, Oxley D, Mohammed H, Turro E, Hemberger M.

Nat Commun. 2015 Jul 24;6:7776. doi: 10.1038/ncomms8776.


Resetting Transcription Factor Control Circuitry toward Ground-State Pluripotency in Human.

Takashima Y, Guo G, Loos R, Nichols J, Ficz G, Krueger F, Oxley D, Santos F, Clarke J, Mansfield W, Reik W, Bertone P, Smith A.

Cell. 2015 Jul 16;162(2):452-453. doi: 10.1016/j.cell.2015.06.052. Epub 2015 Jul 16. No abstract available.


DYRK1A-mediated Cyclin D1 Degradation in Neural Stem Cells Contributes to the Neurogenic Cortical Defects in Down Syndrome.

Najas S, Arranz J, Lochhead PA, Ashford AL, Oxley D, Delabar JM, Cook SJ, Barallobre MJ, Arbonés ML.

EBioMedicine. 2015 Jan 17;2(2):120-34. doi: 10.1016/j.ebiom.2015.01.010. eCollection 2015.


Resetting transcription factor control circuitry toward ground-state pluripotency in human.

Takashima Y, Guo G, Loos R, Nichols J, Ficz G, Krueger F, Oxley D, Santos F, Clarke J, Mansfield W, Reik W, Bertone P, Smith A.

Cell. 2014 Sep 11;158(6):1254-1269. doi: 10.1016/j.cell.2014.08.029. Erratum in: Cell. 2015 Jul 16;162(2):152-3. Cell. 2015 Jul 16;162(2):452-453.


The nuclear exosome is active and important during budding yeast meiosis.

Frenk S, Oxley D, Houseley J.

PLoS One. 2014 Sep 11;9(9):e107648. doi: 10.1371/journal.pone.0107648. eCollection 2014.


Dictyostelium uses ether-linked inositol phospholipids for intracellular signalling.

Clark J, Kay RR, Kielkowska A, Niewczas I, Fets L, Oxley D, Stephens LR, Hawkins PT.

EMBO J. 2014 Oct 1;33(19):2188-200. doi: 10.15252/embj.201488677. Epub 2014 Sep 1.


The immune system GTPase GIMAP6 interacts with the Atg8 homologue GABARAPL2 and is recruited to autophagosomes.

Pascall JC, Rotondo S, Mukadam AS, Oxley D, Webster J, Walker SA, Piron J, Carter C, Ktistakis NT, Butcher GW.

PLoS One. 2013 Oct 17;8(10):e77782. doi: 10.1371/journal.pone.0077782. eCollection 2013.


A screen for hydroxymethylcytosine and formylcytosine binding proteins suggests functions in transcription and chromatin regulation.

Iurlaro M, Ficz G, Oxley D, Raiber EA, Bachman M, Booth MJ, Andrews S, Balasubramanian S, Reik W.

Genome Biol. 2013;14(10):R119.


A novel DYRK1B inhibitor AZ191 demonstrates that DYRK1B acts independently of GSK3β to phosphorylate cyclin D1 at Thr(286), not Thr(288).

Ashford AL, Oxley D, Kettle J, Hudson K, Guichard S, Cook SJ, Lochhead PA.

Biochem J. 2014 Jan 1;457(1):43-56. doi: 10.1042/BJ20130461.


Differential isolation and identification of PI(3)P and PI(3,5)P2 binding proteins from Arabidopsis thaliana using an agarose-phosphatidylinositol-phosphate affinity chromatography.

Oxley D, Ktistakis N, Farmaki T.

J Proteomics. 2013 Oct 8;91:580-94. doi: 10.1016/j.jprot.2013.08.020. Epub 2013 Sep 2.


Treatment resistant depression in primary care: co-constructing difficult encounters.

McPherson S, Byng R, Oxley D.

Health (London). 2014 May;18(3):261-78. doi: 10.1177/1363459313497607. Epub 2013 Aug 30.


FGF signaling inhibition in ESCs drives rapid genome-wide demethylation to the epigenetic ground state of pluripotency.

Ficz G, Hore TA, Santos F, Lee HJ, Dean W, Arand J, Krueger F, Oxley D, Paul YL, Walter J, Cook SJ, Andrews S, Branco MR, Reik W.

Cell Stem Cell. 2013 Sep 5;13(3):351-9. doi: 10.1016/j.stem.2013.06.004. Epub 2013 Jul 11.


Regulation of lineage specific DNA hypomethylation in mouse trophectoderm.

Oda M, Oxley D, Dean W, Reik W.

PLoS One. 2013 Jun 25;8(6):e68846. doi: 10.1371/journal.pone.0068846. Print 2013.


Maternal folate depletion and high-fat feeding from weaning affects DNA methylation and DNA repair in brain of adult offspring.

Langie SA, Achterfeldt S, Gorniak JP, Halley-Hogg KJ, Oxley D, van Schooten FJ, Godschalk RW, McKay JA, Mathers JC.

FASEB J. 2013 Aug;27(8):3323-34. doi: 10.1096/fj.12-224121. Epub 2013 Apr 19.


p38α MAPK regulates adult muscle stem cell fate by restricting progenitor proliferation during postnatal growth and repair.

Brien P, Pugazhendhi D, Woodhouse S, Oxley D, Pell JM.

Stem Cells. 2013 Aug;31(8):1597-610. doi: 10.1002/stem.1399.


The Arabidopsis thaliana immunophilin ROF1 directly interacts with PI(3)P and PI(3,5)P2 and affects germination under osmotic stress.

Karali D, Oxley D, Runions J, Ktistakis N, Farmaki T.

PLoS One. 2012;7(11):e48241. doi: 10.1371/journal.pone.0048241. Epub 2012 Nov 2.


DNA methylation profiles define stem cell identity and reveal a tight embryonic-extraembryonic lineage boundary.

Senner CE, Krueger F, Oxley D, Andrews S, Hemberger M.

Stem Cells. 2012 Dec;30(12):2732-45. doi: 10.1002/stem.1249.


Time-of-flight neutron rejection to improve prompt gamma imaging for proton range verification: a simulation study.

Biegun AK, Seravalli E, Lopes PC, Rinaldi I, Pinto M, Oxley DC, Dendooven P, Verhaegen F, Parodi K, Crespo P, Schaart DR.

Phys Med Biol. 2012 Oct 21;57(20):6429-44. doi: 10.1088/0031-9155/57/20/6429. Epub 2012 Sep 21.


Genome-wide distribution of 5-formylcytosine in embryonic stem cells is associated with transcription and depends on thymine DNA glycosylase.

Raiber EA, Beraldi D, Ficz G, Burgess HE, Branco MR, Murat P, Oxley D, Booth MJ, Reik W, Balasubramanian S.

Genome Biol. 2012 Aug 17;13(8):R69. doi: 10.1186/gb-2012-13-8-r69.


The H19 lincRNA is a developmental reservoir of miR-675 that suppresses growth and Igf1r.

Keniry A, Oxley D, Monnier P, Kyba M, Dandolo L, Smits G, Reik W.

Nat Cell Biol. 2012 Jun 10;14(7):659-65. doi: 10.1038/ncb2521.


SU-E-T-294: Maximizing the Availability of Positron Emitting Nuclei for Proton Therapy Verification Using Different Beam Irradiation Sequences.

Yagi M, Oxley D, Dendooven P, Brandenburg S, Koizumi M, Teshima T.

Med Phys. 2012 Jun;39(6Part14):3771. doi: 10.1118/1.4735364.


Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution.

Booth MJ, Branco MR, Ficz G, Oxley D, Krueger F, Reik W, Balasubramanian S.

Science. 2012 May 18;336(6083):934-7. doi: 10.1126/science.1220671. Epub 2012 Apr 26.


RYBP-PRC1 complexes mediate H2A ubiquitylation at polycomb target sites independently of PRC2 and H3K27me3.

Tavares L, Dimitrova E, Oxley D, Webster J, Poot R, Demmers J, Bezstarosti K, Taylor S, Ura H, Koide H, Wutz A, Vidal M, Elderkin S, Brockdorff N.

Cell. 2012 Feb 17;148(4):664-78. doi: 10.1016/j.cell.2011.12.029. Epub 2012 Feb 9. Erratum in: Cell. 2012 Jun 22;149(7):1647-8.


The guanine-nucleotide-exchange factor P-Rex1 is activated by protein phosphatase 1α.

Barber MA, Hendrickx A, Beullens M, Ceulemans H, Oxley D, Thelen S, Thelen M, Bollen M, Welch HC.

Biochem J. 2012 Apr 1;443(1):173-83. doi: 10.1042/BJ20112078.


Disgust sensitivity and the neurophysiology of left-right political orientations.

Smith KB, Oxley D, Hibbing MV, Alford JR, Hibbing JR.

PLoS One. 2011;6(10):e25552. doi: 10.1371/journal.pone.0025552. Epub 2011 Oct 19.


Protein identification by MALDI-TOF mass spectrometry.

Webster J, Oxley D.

Methods Mol Biol. 2012;800:227-40. doi: 10.1007/978-1-61779-349-3_15.


CDK1, not ERK1/2 or ERK5, is required for mitotic phosphorylation of BIMEL.

Gilley R, Lochhead PA, Balmanno K, Oxley D, Clark J, Cook SJ.

Cell Signal. 2012 Jan;24(1):170-80. doi: 10.1016/j.cellsig.2011.08.018. Epub 2011 Sep 8.


Maintenance of silent chromatin through replication requires SWI/SNF-like chromatin remodeler SMARCAD1.

Rowbotham SP, Barki L, Neves-Costa A, Santos F, Dean W, Hawkes N, Choudhary P, Will WR, Webster J, Oxley D, Green CM, Varga-Weisz P, Mermoud JE.

Mol Cell. 2011 May 6;42(3):285-96. doi: 10.1016/j.molcel.2011.02.036.


PI3Kβ plays a critical role in neutrophil activation by immune complexes.

Kulkarni S, Sitaru C, Jakus Z, Anderson KE, Damoulakis G, Davidson K, Hirose M, Juss J, Oxley D, Chessa TA, Ramadani F, Guillou H, Segonds-Pichon A, Fritsch A, Jarvis GE, Okkenhaug K, Ludwig R, Zillikens D, Mocsai A, Vanhaesebroeck B, Stephens LR, Hawkins PT.

Sci Signal. 2011 Apr 12;4(168):ra23. doi: 10.1126/scisignal.2001617.


Cancer protocols.

Oxley DK, Uthman EO.

Arch Pathol Lab Med. 2011 Mar;135(3):289-90. doi: 10.1043/2010-0152-LE.1. No abstract available.


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