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Plant Phenotyping: An Active Vision Cell for Three-Dimensional Plant Shoot Reconstruction.

Gibbs JA, Pound M, French AP, Wells DM, Murchie E, Pridmore T.

Plant Physiol. 2018 Oct;178(2):524-534. doi: 10.1104/pp.18.00664. Epub 2018 Aug 10.


Erratum to: Combining semi-automated image analysis techniques with machine learning algorithms to accelerate large-scale genetic studies.

Atkinson JA, Lobet G, Noll M, Meyer PE, Griffiths M, Wells DM.

Gigascience. 2018 Jul 1;7(7). doi: 10.1093/gigascience/giy043. No abstract available.


Erratum to: Deep machine learning provides state-of-the-art performance in image-based plant phenotyping.

Pound MP, Atkinson JA, Townsend AJ, Wilson MH, Griffiths M, Jackson AS, Bulat A, Tzimiropoulos G, Wells DM, Murchie EH, Pridmore TP, French AP.

Gigascience. 2018 Jul 1;7(7). doi: 10.1093/gigascience/giy042. No abstract available.


Uncovering the hidden half of plants using new advances in root phenotyping.

Atkinson JA, Pound MP, Bennett MJ, Wells DM.

Curr Opin Biotechnol. 2019 Feb;55:1-8. doi: 10.1016/j.copbio.2018.06.002. Epub 2018 Jul 19. Review.


Root Gravitropism: Quantification, Challenges, and Solutions.

Muller L, Bennett MJ, French A, Wells DM, Swarup R.

Methods Mol Biol. 2018;1761:103-112. doi: 10.1007/978-1-4939-7747-5_8.


Adding a Piece to the Leaf Epidermal Cell Shape Puzzle.

von Wangenheim D, Wells DM, Bennett MJ.

Dev Cell. 2017 Nov 6;43(3):255-256. doi: 10.1016/j.devcel.2017.10.020. Review.


Linear discriminant analysis reveals differences in root architecture in wheat seedlings related to nitrogen uptake efficiency.

Kenobi K, Atkinson JA, Wells DM, Gaju O, De Silva JG, Foulkes MJ, Dryden IL, Wood ATA, Bennett MJ.

J Exp Bot. 2017 Oct 13;68(17):4969-4981. doi: 10.1093/jxb/erx300.


An Updated Protocol for High Throughput Plant Tissue Sectioning.

Atkinson JA, Wells DM.

Front Plant Sci. 2017 Oct 4;8:1721. doi: 10.3389/fpls.2017.01721. eCollection 2017.


Combining semi-automated image analysis techniques with machine learning algorithms to accelerate large-scale genetic studies.

Atkinson JA, Lobet G, Noll M, Meyer PE, Griffiths M, Wells DM.

Gigascience. 2017 Oct 1;6(10):1-7. doi: 10.1093/gigascience/gix084. Erratum in: Gigascience. 2018 Jul 1;7(7):.


Deep machine learning provides state-of-the-art performance in image-based plant phenotyping.

Pound MP, Atkinson JA, Townsend AJ, Wilson MH, Griffiths M, Jackson AS, Bulat A, Tzimiropoulos G, Wells DM, Murchie EH, Pridmore TP, French AP.

Gigascience. 2017 Oct 1;6(10):1-10. doi: 10.1093/gigascience/gix083. Erratum in: Gigascience. 2018 Jul 1;7(7):.


Shaping 3D Root System Architecture.

Morris EC, Griffiths M, Golebiowska A, Mairhofer S, Burr-Hersey J, Goh T, von Wangenheim D, Atkinson B, Sturrock CJ, Lynch JP, Vissenberg K, Ritz K, Wells DM, Mooney SJ, Bennett MJ.

Curr Biol. 2017 Sep 11;27(17):R919-R930. doi: 10.1016/j.cub.2017.06.043. Review.


Root hydrotropism is controlled via a cortex-specific growth mechanism.

Dietrich D, Pang L, Kobayashi A, Fozard JA, Boudolf V, Bhosale R, Antoni R, Nguyen T, Hiratsuka S, Fujii N, Miyazawa Y, Bae TW, Wells DM, Owen MR, Band LR, Dyson RJ, Jensen OE, King JR, Tracy SR, Sturrock CJ, Mooney SJ, Roberts JA, Bhalerao RP, Dinneny JR, Rodriguez PL, Nagatani A, Hosokawa Y, Baskin TI, Pridmore TP, De Veylder L, Takahashi H, Bennett MJ.

Nat Plants. 2017 May 8;3:17057. doi: 10.1038/nplants.2017.57.


Quiescent center initiation in the Arabidopsis lateral root primordia is dependent on the SCARECROW transcription factor.

Goh T, Toyokura K, Wells DM, Swarup K, Yamamoto M, Mimura T, Weijers D, Fukaki H, Laplaze L, Bennett MJ, Guyomarc'h S.

Development. 2016 Sep 15;143(18):3363-71. doi: 10.1242/dev.135319. Epub 2016 Aug 10.


Characterization of Pearl Millet Root Architecture and Anatomy Reveals Three Types of Lateral Roots.

Passot S, Gnacko F, Moukouanga D, Lucas M, Guyomarc'h S, Ortega BM, Atkinson JA, Belko MN, Bennett MJ, Gantet P, Wells DM, Guédon Y, Vigouroux Y, Verdeil JL, Muller B, Laplaze L.

Front Plant Sci. 2016 Jun 13;7:829. doi: 10.3389/fpls.2016.00829. eCollection 2016.


Socioeconomic status and survival from ventricular fibrillation out-of-hospital cardiac arrest.

Wells DM, White LL, Fahrenbruch CE, Rea TD.

Ann Epidemiol. 2016 Jun;26(6):418-423.e1. doi: 10.1016/j.annepidem.2016.04.001. Epub 2016 Apr 12.


Development, Experience, and Expression of Meaning in Genetic Counselors' Lives: an Exploratory Analysis.

Wells DM, McCarthy Veach P, Martyr MA, LeRoy BS.

J Genet Couns. 2016 Aug;25(4):799-817. doi: 10.1007/s10897-015-9901-1. Epub 2015 Oct 24.


When Faced With Facebook: What Role Should Social Media Play in Selecting Residents?

Wells DM.

J Grad Med Educ. 2015 Mar;7(1):14-5. doi: 10.4300/JGME-D-14-00363.1. No abstract available.


The circadian clock rephases during lateral root organ initiation in Arabidopsis thaliana.

Voß U, Wilson MH, Kenobi K, Gould PD, Robertson FC, Peer WA, Lucas M, Swarup K, Casimiro I, Holman TJ, Wells DM, Péret B, Goh T, Fukaki H, Hodgman TC, Laplaze L, Halliday KJ, Ljung K, Murphy AS, Hall AJ, Webb AA, Bennett MJ.

Nat Commun. 2015 Jul 6;6:7641. doi: 10.1038/ncomms8641.


Imaging and quantitative methods for studying cytoskeletal rearrangements during root development and gravitropism.

Jacques E, Wells DM, Bennett MJ, Vissenberg K.

Methods Mol Biol. 2015;1309:81-9. doi: 10.1007/978-1-4939-2697-8_8.


Multi-omics analysis identifies genes mediating the extension of cell walls in the Arabidopsis thaliana root elongation zone.

Wilson MH, Holman TJ, Sørensen I, Cancho-Sanchez E, Wells DM, Swarup R, Knox JP, Willats WG, Ubeda-Tomás S, Holdsworth M, Bennett MJ, Vissenberg K, Hodgman TC.

Front Cell Dev Biol. 2015 Feb 20;3:10. doi: 10.3389/fcell.2015.00010. eCollection 2015.


Phenotyping pipeline reveals major seedling root growth QTL in hexaploid wheat.

Atkinson JA, Wingen LU, Griffiths M, Pound MP, Gaju O, Foulkes MJ, Le Gouis J, Griffiths S, Bennett MJ, King J, Wells DM.

J Exp Bot. 2015 Apr;66(8):2283-92. doi: 10.1093/jxb/erv006. Epub 2015 Mar 4.


Sounding off on social media: the ethics of patient storytelling in the modern era.

Wells DM, Lehavot K, Isaac ML.

Acad Med. 2015 Aug;90(8):1015-9. doi: 10.1097/ACM.0000000000000668.


Metastability of the atomic structures of size-selected gold nanoparticles.

Wells DM, Rossi G, Ferrando R, Palmer RE.

Nanoscale. 2015 Apr 21;7(15):6498-503. doi: 10.1039/c4nr05811a.


Artist's statement: what's on your mind?

Wells DM.

Acad Med. 2015 Feb;90(2):153. doi: 10.1097/ACM.0000000000000602. No abstract available.


Quantification of fluorescent reporters in plant cells.

Pound M, French AP, Wells DM.

Methods Mol Biol. 2015;1242:123-31. doi: 10.1007/978-1-4939-1902-4_11.


Radiation-induced refraction artifacts in the optical CT readout of polymer gel dosimeters.

Campbell WG, Wells DM, Jirasek A.

Med Phys. 2014 Nov;41(11):112102. doi: 10.1118/1.4897245.


Smaller pelvic volume is associated with postoperative infection after pelvic salvage surgery for recurrent malignancy.

Jones EL, Jones TS, Paniccia A, Merkow JS, Wells DM, Pearlman NW, McCarter MD.

Am J Surg. 2014 Dec;208(6):1016-22; discussion 1021-2. doi: 10.1016/j.amjsurg.2014.08.015. Epub 2014 Sep 28.


Nothing artful about the term 'pimping'.

Martin GC, Wells DM.

Med Educ. 2014 Oct;48(10):1028. doi: 10.1111/medu.12528. No abstract available.


Branching out in roots: uncovering form, function, and regulation.

Atkinson JA, Rasmussen A, Traini R, Voß U, Sturrock C, Mooney SJ, Wells DM, Bennett MJ.

Plant Physiol. 2014 Oct;166(2):538-50. doi: 10.1104/pp.114.245423. Epub 2014 Aug 18. Review.


Sugar cane makes the medicine go down.

Wells DM.

J Gen Intern Med. 2014 Aug;29(8):1211-2. doi: 10.1007/s11606-014-2829-6. No abstract available.


Mechanical modelling quantifies the functional importance of outer tissue layers during root elongation and bending.

Dyson RJ, Vizcay-Barrena G, Band LR, Fernandes AN, French AP, Fozard JA, Hodgman TC, Kenobi K, Pridmore TP, Stout M, Wells DM, Wilson MH, Bennett MJ, Jensen OE.

New Phytol. 2014 Jun;202(4):1212-22. doi: 10.1111/nph.12764. Epub 2014 Mar 18.


Systems analysis of auxin transport in the Arabidopsis root apex.

Band LR, Wells DM, Fozard JA, Ghetiu T, French AP, Pound MP, Wilson MH, Yu L, Li W, Hijazi HI, Oh J, Pearce SP, Perez-Amador MA, Yun J, Kramer E, Alonso JM, Godin C, Vernoux T, Hodgman TC, Pridmore TP, Swarup R, King JR, Bennett MJ.

Plant Cell. 2014 Mar;26(3):862-75. doi: 10.1105/tpc.113.119495. Epub 2014 Mar 14.


Time-profiling fluorescent reporters in the Arabidopsis root.

Larrieu AP, French AP, Pridmore TP, Bennett MJ, Wells DM.

Methods Mol Biol. 2014;1056:11-7. doi: 10.1007/978-1-62703-592-7_2.


From jellyfish to biosensors: the use of fluorescent proteins in plants.

Voss U, Larrieu A, Wells DM.

Int J Dev Biol. 2013;57(6-8):525-33. doi: 10.1387/ijdb.130208dw. Review.


Sequential induction of auxin efflux and influx carriers regulates lateral root emergence.

Péret B, Middleton AM, French AP, Larrieu A, Bishopp A, Njo M, Wells DM, Porco S, Mellor N, Band LR, Casimiro I, Kleine-Vehn J, Vanneste S, Sairanen I, Mallet R, Sandberg G, Ljung K, Beeckman T, Benkova E, Friml J, Kramer E, King JR, De Smet I, Pridmore T, Owen M, Bennett MJ.

Mol Syst Biol. 2013 Oct 22;9:699. doi: 10.1038/msb.2013.43.


RootNav: navigating images of complex root architectures.

Pound MP, French AP, Atkinson JA, Wells DM, Bennett MJ, Pridmore T.

Plant Physiol. 2013 Aug;162(4):1802-14. doi: 10.1104/pp.113.221531. Epub 2013 Jun 13.


A prototype fan-beam optical CT scanner for 3D dosimetry.

Campbell WG, Rudko DA, Braam NA, Wells DM, Jirasek A.

Med Phys. 2013 Jun;40(6):061712. doi: 10.1118/1.4805111.


MicroFilament Analyzer, an image analysis tool for quantifying fibrillar orientation, reveals changes in microtubule organization during gravitropism.

Jacques E, Buytaert J, Wells DM, Lewandowski M, Bennett MJ, Dirckx J, Verbelen JP, Vissenberg K.

Plant J. 2013 Jun;74(6):1045-58. doi: 10.1111/tpj.12174. Epub 2013 Apr 22.


Biosensors for phytohormone quantification: challenges, solutions, and opportunities.

Wells DM, Laplaze L, Bennett MJ, Vernoux T.

Trends Plant Sci. 2013 May;18(5):244-9. doi: 10.1016/j.tplants.2012.12.005. Epub 2013 Jan 4.


A biomechanical model of anther opening reveals the roles of dehydration and secondary thickening.

Nelson MR, Band LR, Dyson RJ, Lessinnes T, Wells DM, Yang C, Everitt NM, Jensen OE, Wilson ZA.

New Phytol. 2012 Dec;196(4):1030-7. doi: 10.1111/j.1469-8137.2012.04329.x. Epub 2012 Sep 21.


Auxin regulates aquaporin function to facilitate lateral root emergence.

Péret B, Li G, Zhao J, Band LR, Voß U, Postaire O, Luu DT, Da Ines O, Casimiro I, Lucas M, Wells DM, Lazzerini L, Nacry P, King JR, Jensen OE, Schäffner AR, Maurel C, Bennett MJ.

Nat Cell Biol. 2012 Oct;14(10):991-8. doi: 10.1038/ncb2573. Epub 2012 Sep 16.


Oxidation state of uranium in A6Cu12U2S15 (A = K, Rb, Cs) compounds.

Malliakas CD, Yao J, Wells DM, Jin GB, Skanthakumar S, Choi ES, Balasubramanian M, Soderholm L, Ellis DE, Kanatzidis MG, Ibers JA.

Inorg Chem. 2012 Jun 4;51(11):6153-63. doi: 10.1021/ic300172k. Epub 2012 May 14.


Recovering the dynamics of root growth and development using novel image acquisition and analysis methods.

Wells DM, French AP, Naeem A, Ishaq O, Traini R, Hijazi HI, Bennett MJ, Pridmore TP.

Philos Trans R Soc Lond B Biol Sci. 2012 Jun 5;367(1595):1517-24. doi: 10.1098/rstb.2011.0291. Erratum in: Philos Trans R Soc Lond B Biol Sci. 2012 Aug 5;367(1599):2245. Hijazi, Hussein [corrected to Hijazi, Hussein I].


CellSeT: novel software to extract and analyze structured networks of plant cells from confocal images.

Pound MP, French AP, Wells DM, Bennett MJ, Pridmore TP.

Plant Cell. 2012 Apr;24(4):1353-61. doi: 10.1105/tpc.112.096289. Epub 2012 Apr 3.


Mechanical properties of epidermal cells of whole living roots of Arabidopsis thaliana: an atomic force microscopy study.

Fernandes AN, Chen X, Scotchford CA, Walker J, Wells DM, Roberts CJ, Everitt NM.

Phys Rev E Stat Nonlin Soft Matter Phys. 2012 Feb;85(2 Pt 1):021916. Epub 2012 Feb 21.


Root gravitropism is regulated by a transient lateral auxin gradient controlled by a tipping-point mechanism.

Band LR, Wells DM, Larrieu A, Sun J, Middleton AM, French AP, Brunoud G, Sato EM, Wilson MH, Péret B, Oliva M, Swarup R, Sairanen I, Parry G, Ljung K, Beeckman T, Garibaldi JM, Estelle M, Owen MR, Vissenberg K, Hodgman TC, Pridmore TP, King JR, Vernoux T, Bennett MJ.

Proc Natl Acad Sci U S A. 2012 Mar 20;109(12):4668-73. doi: 10.1073/pnas.1201498109. Epub 2012 Mar 5.


Identifying biological landmarks using a novel cell measuring image analysis tool: Cell-o-Tape.

French AP, Wilson MH, Kenobi K, Dietrich D, Voß U, Ubeda-Tomás S, Pridmore TP, Wells DM.

Plant Methods. 2012 Mar 2;8:7. doi: 10.1186/1746-4811-8-7.


A novel sensor to map auxin response and distribution at high spatio-temporal resolution.

Brunoud G, Wells DM, Oliva M, Larrieu A, Mirabet V, Burrow AH, Beeckman T, Kepinski S, Traas J, Bennett MJ, Vernoux T.

Nature. 2012 Jan 15;482(7383):103-6. doi: 10.1038/nature10791.


High-throughput feature counting and measurement of roots.

Naeem A, French AP, Wells DM, Pridmore TP.

Bioinformatics. 2011 May 1;27(9):1337-8. doi: 10.1093/bioinformatics/btr126. Epub 2011 Mar 12.


Structure, properties, and theoretical electronic structure of UCuOP and NpCuOP.

Wells DM, Ringe E, Kaczorowski D, Gnida D, André G, Haire RG, Ellis DE, Ibers JA.

Inorg Chem. 2011 Jan 17;50(2):576-89. doi: 10.1021/ic101665g. Epub 2010 Dec 15.


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