Now showing items 1-20 of 100

    • 5-hydroxymethylcytosine marks promoters in colon that resist DNA hypermethylation in cancer 

      Uribe-Lewis, Santiago; Stark, Rory; Carroll, Thomas; Dunning, Mark J.; Bachman, Martin; Ito, Yoko; Stojic, Lovorka; Halim, Silvia; Vowler, Sarah L.; Lynch, Andy G.; Delatte, Benjamin; de Bony, Eric J.; Colin, Laurence; Defrance, Matthieu; Krueger, Felix; Silva, Ana Luisa; ten Hoopen, Rogier; Ibrahim, Ashraf E.K.; Fuks, François; Murrell, Adele (2015-04-01) - Journal article
      Background : The discovery of cytosine hydroxymethylation (5hmC) as a mechanism that potentially controls DNA methylation changes typical of neoplasia prompted us to investigate its behaviour in colon cancer. 5hmC is ...
    • Accounting for preferential sampling in species distribution models 

      Pennino, Maria Grazia; Paradinas, Iosu; Illian, Janine B.; Muñoz, Facundo; Bellido, José María; López-Quílez, Antonio; Conesa, David (2019-01-01) - Journal article
      Species distribution models (SDMs) are now being widely used in ecology for management and conservation purposes across terrestrial, freshwater, and marine realms. The increasing interest in SDMs has drawn the attention ...
    • Adaptive multivariate global testing 

      Minas, Giorgos; Aston, John A D; Stallard, Nigel (2014-06) - Journal article
      We present a methodology for dealing with recent challenges in testing global hypotheses using multivariate observations. The proposed tests target situations, often arising in emerging applications of neuroimaging, where ...
    • An analysis of pilot whale vocalization activity using hidden Markov models 

      Popov, Valentin Mina; Langrock, Roland; De Ruiter, Stacy Lynn; Visser, Fleur (2017-01) - Journal article
      Vocalizations of cetaceans form a key component of their social interactions. Such vocalization activity is driven by the behavioral states of the whales, which are not directly observable, so that latent-state models are ...
    • Animal population estimation using mark-recapture and plant-capture 

      Gormley, Richard (University of St Andrews, 2012) - Thesis
      Mark-recapture is a method of population estimation that involves capturing a number of animals from a population of unknown size on several occasions, and marking those animals that are caught each time. By observing ...
    • Appraising the relevance of DNA copy number loss and gain in prostate cancer using whole genome DNA sequence data 

      Camacho, Niedzica; Van Loo, Peter; Edwards, Sandra; Kay, Jonathan D.; Matthews, Lucy; Haase, Kerstin; Clark, Jeremy; Dennis, Nening; Thomas, Sarah; Kremeyer, Barbara; Zamora, Jorge; Butler, Adam P.; Gundem, Gunes; Merson, Sue; Luxton, Hayley; Hawkins, Steve; Ghori, Mohammed; Marsden, Luke; Lambert, Adam; Karaszi, Katalin; Pelvender, Gill; Massie, Charlie E.; Kote-Jarai, ZSofia; Raine, Keiran; Jones, David; Howat, William J.; Hazell, Steven; Livni, Naomi; Fisher, Cyril; Ogden, Christopher; Kumar, Pardeep; Thompson, Alan; Nicol, David; Mayer, Erik; Dudderidge, Tim; Yu, Yongwei; Zhang, Hongwei; Shah, Nimish C.; Gnanapragasam, Vincent J.; Group, The CRUK-ICGC Prostate; Isaacs, William; Visakorpi, Tapio; Hamdy, Freddie; Berney, Dan; Verrill, Clare; Warren, Anne Y.; Wedge, David C.; Lynch, Andrew G.; Foster, Christopher S.; Lu, Yong Jie; Bova, G. Steven; Whitaker, Hayley C.; McDermott, Ultan; Neal, David E.; Eeles, Rosalind; Cooper, Colin S.; Brewer, Daniel S. (2017-09-25) - Journal article
      A variety of models have been proposed to explain regions of recurrent somatic copy number alteration (SCNA) in human cancer. Our study employs Whole Genome DNA Sequence (WGS) data from tumor samples (n = 103) to comprehensively ...
    • An assessment of the population of cotton-top tamarins (Saguinus oedipus) and their habitat in Colombia 

      Savage, Anne; Thomas, Len; Feilen, Katie L.; Kidney, Darren; Soto, Luis H.; Pearson, Mackenzie; Medina, Felix S.; Emeris, German; Guillen, Rosamira R. (2016-12-28) - Journal article
      Numerous animals have declining populations due to habitat loss, illegal wildlife trade, and climate change. The cotton-top tamarin (Saguinus oedipus) is a Critically Endangered primate species, endemic to northwest Colombia, ...
    • Assigning stranded bottlenose dolphins to source stocks using stable isotope ratios following the Deepwater Horizon oil spill 

      Hohn, A. A.; Thomas, L.; Carmichael, R. H.; Litz, J.; Clemons-Chevis, C.; Shippee, S. F.; Sinclair, C.; Smith, S.; Speakman, T. R.; Tumlin, M. C.; Zolman, E. S. (2017-01-31) - Journal article
      The potential for stranded dolphins to serve as a tool for monitoring free-ranging populations would be enhanced if their stocks of origin were known. We used stable isotopes of carbon, nitrogen, and sulfur from skin to ...
    • Authentication and characterisation of a new oesophageal adenocarcinoma cell line : MFD-1 

      Garcia, Edwin; Hayden, Annette; Birts, Charles; Britton, Edward; Cowie, Andrew; Pickard, Karen; Mellone, Massimiliano; Choh, Clarisa; Derouet, Mathieu; Duriez, Patrick; Noble, Fergus; White, Michael J.; Primrose, John N.; Strefford, Jonathan C.; Rose-Zerilli, Matthew; Thomas, Gareth J.; Ang, Yeng; Sharrocks, Andrew D.; Fitzgerald, Rebecca C.; Underwood, Timothy J.; Lynch, Andy G. (2016-09-07) - Journal article
      New biological tools are required to understand the functional significance of genetic events revealed by whole genome sequencing (WGS) studies in oesophageal adenocarcinoma (OAC). The MFD-1 cell line was isolated from a ...
    • A Bayesian approach to modelling field data on multi-species predator prey-interactions 

      Asseburg, Christian (University of St Andrews, 2006) - Thesis
      Multi-species functional response models are required to model the predation of generalist preda- tors, which consume more than one prey species. In chapter 2, a new model for the multi-species functional response is ...
    • Bayesian modelling of integrated data and its application to seabird populations 

      Reynolds, Toby J. (University of St Andrews, 2010-11-30) - Thesis
      Integrated data analyses are becoming increasingly popular in studies of wild animal populations where two or more separate sources of data contain information about common parameters. Here we develop an integrated population ...
    • Bayesian multi-species modelling of non-negative continuous ecological data with a discrete mass at zero 

      Swallow, Ben (University of St Andrews, 2015) - Thesis
      Severe declines in the number of some songbirds over the last 40 years have caused heated debate amongst interested parties. Many factors have been suggested as possible causes for these declines, including an increase ...
    • Bayesian point process modelling of ecological communities 

      Nightingale, Glenna Faith (University of St Andrews, 2013-06-28) - Thesis
      The modelling of biological communities is important to further the understanding of species coexistence and the mechanisms involved in maintaining biodiversity. This involves considering not only interactions between ...
    • Bayesian sequential tests of the initial size of a linear pure death process 

      Goudie, I.B.J. (2015-05) - Journal article
      We provide a recursive algorithm for determining the sampling plans of invariant Bayesian sequential tests of the initial size of a linear pure death process of unknown rate. These tests compare favourably with the ...
    • Behavioural changes of a long-ranging diver in response to oceanographic conditions 

      Photopoulos, Theoni (2007) - Thesis
      The development of an animal-borne instrument that can record oceanographic measurements (CTD-SRDL) has enabled the collection of oceanographic data at a scale relevant to the counterpart behavioural data, both in time and ...
    • The challenges of analyzing behavioral response study data : an overview of the MOCHA (Multi-study OCean acoustics Human effects Analysis) project 

      Harris, Catriona M; Thomas, Len; Sadykova, Dinara; De Ruiter, Stacy Lynn; Tyack, Peter Lloyd; Southall, Brandon L.; Read, Andrew J.; Miller, Patrick (Springer Science and Business Media, 2016) - Conference item
      This paper describes the MOCHA project which aims to develop novel approaches for the analysis of data collected during Behavioral Response Studies (BRSs). BRSs are experiments aimed at directly quantifying the effects of ...
    • Cholinekinase alpha as an androgen receptor chaperone and prostate cancer therapeutic target 

      Asim, Mohammad; Massie, Charles E.; Orafidiya, Folake; Pértega-Gomes, Nelma; Warren, Anne Y.; Esmaeili, Mohsen; Selth, Luke A.; Zecchini, Heather I.; Luko, Katarina; Qureshi, Arham; Baridi, Ajoeb; Menon, Suraj; Madhu, Basetti; Escriu, Carlos; Lyons, Scott; Vowler, Sarah L.; Zecchini, Vincent R.; Shaw, Greg; Hessenkemper, Wiebke; Russell, Roslin; Mohammed, Hisham; Stefanos, Niki; Lynch, Andy G.; Grigorenko, Elena; D’Santos, Clive; Taylor, Chris; Lamb, Alastair; Sriranjan, Rouchelle; Yang, Jiali; Stark, Rory; Dehm, Scott M.; Rennie, Paul S.; Carroll, Jason S.; Griffiths, John R.; Tavaré, Simon; Mills, Ian G.; McEwan, Iain J.; Baniahmad, Aria; Tilley, Wayne D.; Neal, David E. (2016-05-01) - Journal article
      Background:  The androgen receptor (AR) is a major drug target in prostate cancer (PCa). We profiled the AR-regulated kinome to identify clinically relevant and druggable effectors of AR signaling.  Methods: Using genome-wide ...
    • Circular designs balanced for neighbours at distances one and two 

      Aldred, R. E. L.; Bailey, R. A.; Mckay, Brendan D.; Wanless, Ian M. (2014-12) - Journal article
      We define three types of neighbour-balanced designs for experiments where the units are arranged in a circle or single line in space or time. The designs are balanced with respect to neighbours at distance one and at ...
    • Constructing flag-transitive, point-imprimitive designs 

      Cameron, Peter Jephson; Praeger, Cheryl E. (2016-05-04) - Journal article
      We give a construction of a family of designs with a specified point-partition and determine the subgroup of automorphisms leaving invariant the point-partition. We give necessary and sufficient conditions for a design in ...
    • A continuous-time formulation for spatial capture-recapture models 

      Distiller, Greg (University of St Andrews, 2017) - Thesis
      Spatial capture-recapture (SCR) models are relatively new but have become the standard approach used to estimate animal density from capture-recapture data. It has in the past been impractical to obtain sufficient data ...