Now showing items 1-16 of 16

    • CancerGD: A Resource for Identifying and Interpreting Genetic Dependencies in Cancer. 

      Bridgett, S; Campbell, J; Lord, CJ; Ryan, CJ (2017-07-26)
      Genes whose function is selectively essential in the presence of cancer-associated genetic aberrations represent promising targets for the development of precision therapeutics. Here, we present CancerGD, a resource that ...
    • CardioClassifier: disease- and gene-specific computational decision support for clinical genome interpretation. 

      Whiffin, N; Walsh, R; Govind, R; Edwards, M; Ahmad, M; Zhang, X; Tayal, U; Buchan, R; Midwinter, W; Wilk, AE; Najgebauer, H; Francis, C; Wilkinson, S; Monk, T; Brett, L; O'Regan, DP; Prasad, SK; Morris-Rosendahl, DJ; Barton, PJR; Edwards, E; Ware, JS; Cook, SA (2018-10)
      PURPOSE: Internationally adopted variant interpretation guidelines from the American College of Medical Genetics and Genomics (ACMG) are generic and require disease-specific refinement. Here we developed CardioClassifier ...
    • Combining Mutational Signatures, Clonal Fitness, and Drug Affinity to Define Drug-Specific Resistance Mutations in Cancer. 

      Kaserer, T; Blagg, J (2018-11-15)
      The emergence of mutations that confer resistance to molecularly targeted therapeutics is dependent upon the effect of each mutation on drug affinity for the target protein, the clonal fitness of cells harboring the mutation, ...
    • Comparison of ghosting effects for three commercial a-Si EPIDs. 

      McDermott, LN; Nijsten, SM; Sonke, JJ; Partridge, M; van Herk, M; Mijnheer, BJ (2006-07)
      Many studies have reported dosimetric characteristics of amorphous silicon electronic portal imaging devices (EPIDs). Some studies ascribed a non-linear signal to gain ghosting and image lag. Other reports, however, state ...
    • Development of patient-specific molecular imaging phantoms using a 3D printer. 

      Gear, JI; Long, C; Rushforth, D; Chittenden, SJ; Cummings, C; Flux, GD (2014-08)
      PURPOSE: The aim of the study was to investigate rapid prototyping technology for the production of patient-specific, cost-effective liquid fillable phantoms directly from patient CT data. METHODS: Liver, spleen, and kidney ...
    • ELM: the status of the 2010 eukaryotic linear motif resource. 

      Gould, CM; Diella, F; Via, A; Puntervoll, P; Gemünd, C; Chabanis-Davidson, S; Michael, S; Sayadi, A; Bryne, JC; Chica, C; Seiler, M; Davey, NE; Haslam, N; Weatheritt, RJ; Budd, A; Hughes, T; Pas, J; Rychlewski, L; Travé, G; Aasland, R; Helmer-Citterich, M; Linding, R; Gibson, TJ (2010-01)
      Linear motifs are short segments of multidomain proteins that provide regulatory functions independently of protein tertiary structure. Much of intracellular signalling passes through protein modifications at linear motifs. ...
    • Feasibility of using ultrasound for real-time tracking during radiotherapy. 

      Hsu, A; Miller, NR; Evans, PM; Bamber, JC; Webb, S (2005-06)
      This study was designed to examine the feasibility of utilizing transabdominal ultrasound for real-time monitoring of target motion during a radiotherapy fraction. A clinical Acuson 128/XP ultrasound scanner was used to ...
    • Flexible Data Analysis Pipeline for High-Confidence Proteogenomics. 

      Weisser, H; Wright, JC; Mudge, JM; Gutenbrunner, P; Choudhary, JS (2016-12-02)
      Proteogenomics leverages information derived from proteomic data to improve genome annotations. Of particular interest are "novel" peptides that provide direct evidence of protein expression for genomic regions not previously ...
    • Identifying Genetic Dependencies in Cancer by Analyzing siRNA Screens in Tumor Cell Line Panels. 

      Campbell, J; Ryan, CJ; Lord, CJ (2018)
      Loss-of-function screening using RNA interference or CRISPR approaches can be used to identify genes that specific tumor cell lines depend upon for survival. By integrating the results from screens in multiple cell lines ...
    • Implementing diffusion-weighted MRI for body imaging in prospective multicentre trials: current considerations and future perspectives. 

      deSouza, NM; Winfield, JM; Waterton, JC; Weller, A; Papoutsaki, M-V; Doran, SJ; Collins, DJ; Fournier, L; Sullivan, D; Chenevert, T; Jackson, A; Boss, M; Trattnig, S; Liu, Y (2018-03)
      For body imaging, diffusion-weighted MRI may be used for tumour detection, staging, prognostic information, assessing response and follow-up. Disease detection and staging involve qualitative, subjective assessment of ...
    • Improving the efficiency of breast radiotherapy treatment planning using a semi-automated approach. 

      Mitchell, RA; Wai, P; Colgan, R; Kirby, AM; Donovan, EM (2017-01)
      OBJECTIVES: To reduce treatment planning times while maintaining plan quality through the introduction of semi-automated planning techniques for breast radiotherapy. METHODS: Automatic critical structure delineation was ...
    • NucliTrack: an integrated nuclei tracking application. 

      Cooper, S; Barr, AR; Glen, R; Bakal, C (2017-10-15)
      Summary: Live imaging studies give unparalleled insight into dynamic single cell behaviours and fate decisions. However, the challenge of reliably tracking single cells over long periods of time limits both the throughput ...
    • seXY: a tool for sex inference from genotype arrays. 

      Qian, DC; Busam, JA; Xiao, X; O'Mara, TA; Eeles, RA; Schumacher, FR; Phelan, CM; Amos, CI (2017-02-15)
      Motivation: Checking concordance between reported sex and genotype-inferred sex is a crucial quality control measure in genome-wide association studies (GWAS). However, limited insights exist regarding the true accuracy ...
    • SNP interaction pattern identifier (SIPI): an intensive search for SNP-SNP interaction patterns. 

      Lin, H-Y; Chen, D-T; Huang, P-Y; Liu, Y-H; Ochoa, A; Zabaleta, J; Mercante, DE; Fang, Z; Sellers, TA; Pow-Sang, JM; Cheng, C-H; Eeles, R; Easton, D; Kote-Jarai, Z; Amin Al Olama, A; Benlloch, S; Muir, K; Giles, GG; Wiklund, F; Gronberg, H; Haiman, CA; Schleutker, J; Nordestgaard, BG; Travis, RC; Hamdy, F; Pashayan, N; Khaw, K-T; Stanford, JL; Blot, WJ; Thibodeau, SN; Maier, C; Kibel, AS; Cybulski, C; Cannon-Albright, L; Brenner, H; Kaneva, R; Batra, J; Teixeira, MR; Pandha, H; Lu, Y-J; PRACTICAL Consortium; Park, JY (2017-03-15)
      Motivation: Testing SNP-SNP interactions is considered as a key for overcoming bottlenecks of genetic association studies. However, related statistical methods for testing SNP-SNP interactions are underdeveloped. Results: ...
    • Three-dimensional cardiovascular imaging-genetics: a mass univariate framework. 

      Biffi, C; de Marvao, A; Attard, MI; Dawes, TJW; Whiffin, N; Bai, W; Shi, W; Francis, C; Meyer, H; Buchan, R; Cook, SA; Rueckert, D; O'Regan, DP (2018-01-01)
      Motivation: Left ventricular (LV) hypertrophy is a strong predictor of cardiovascular outcomes, but its genetic regulation remains largely unexplained. Conventional phenotyping relies on manual calculation of LV mass and ...
    • Towards real-time photon Monte Carlo dose calculation in the cloud. 

      Ziegenhein, P; Kozin, IN; Kamerling, CP; Oelfke, U (2017-06-07)
      Near real-time application of Monte Carlo (MC) dose calculation in clinic and research is hindered by the long computational runtimes of established software. Currently, fast MC software solutions are available utilising ...