• Germline-focussed analysis of tumour-only sequencing: recommendations from the ESMO Precision Medicine Working Group. 

  Mandelker, D; Donoghue, M; Talukdar, S; Bandlamudi, C; Srinivasan, P; Vivek, M; Jezdic, S; Hanson, H; Snape, K; Kulkarni, A; Hawkes, L; Douillard, J-Y; Wallace, SE; Rial-Sebbag, E; Meric-Bersntam, F; George, A; Chubb, D; Loveday, C; Ladanyi, M; Berger, MF; Taylor, BS; Turnbull, C (2019-08)

  It is increasingly common in oncology practice to perform tumour sequencing using large cancer panels. For pathogenic sequence variants in cancer susceptibility genes identified on tumour-only sequencing, it is often unclear ...
• Cancer Variant Interpretation Group UK (CanVIG-UK): an exemplar national subspecialty multidisciplinary network. 

  Garrett, A; Callaway, A; Durkie, M; Cubuk, C; Alikian, M; Burghel, GJ; Robinson, R; Izatt, L; Talukdar, S; Side, L; Cranston, T; Palmer-Smith, S; Baralle, D; Berry, IR; Drummond, J; Wallace, AJ; Norbury, G; Eccles, DM; Ellard, S; Lalloo, F; Evans, DG; Woodward, E; Tischkowitz, M; Hanson, H; Turnbull, C; CanVIG-UK (2020-03-13)

  Advances in technology have led to a massive expansion in the capacity for genomic analysis, with a commensurate fall in costs. The clinical indications for genomic testing have evolved markedly; the volume of clinical ...
• Laser-free pelvic alignment in an online adaptive radiotherapy environment. 

  Barnes, H; Mohajer, J; Dunlop, A; Adair Smith, G; Herbert, T; Lawes, R; Tree, A; McNair, H (2020-03)

  The MR-Linac (MRL) provides a novel treatment modality that enables online adaptive treatments, but also creates new challenges for patient positioning in a laser-free environment. The accuracy and duration of prostate ...
• Phosphorylation-mediated interactions with TOPBP1 couple 53BP1 and 9-1-1 to control the G1 DNA damage checkpoint. 

  Bigot, N; Day, M; Baldock, RA; Watts, FZ; Oliver, AW; Pearl, LH (2019-05-28)

  Coordination of the cellular response to DNA damage is organised by multi-domain 'scaffold' proteins, including 53BP1 and TOPBP1, which recognise post-translational modifications such as phosphorylation, methylation and ...
• Measuring tumour evolution at the genetic and epigenetic level in individual patients from cancer genomic data 

  Chkhaidze, K (2020-01-31)

  High-throughput genomic data from cancers uncovered high intra and inter-tumour heterogeneity and subclonal architecture of cancer cell populations. If we consider cells as asexually reproducing individuals, we can apply ...
• Reprogramming of Amino Acid Transporters to Support Aspartate and Glutamate Dependency Sustains Endocrine Resistance in Breast Cancer. 

  Bacci, M; Lorito, N; Ippolito, L; Ramazzotti, M; Luti, S; Romagnoli, S; Parri, M; Bianchini, F; Cappellesso, F; Virga, F; Gao, Q; Simões, BM; Marangoni, E; Martin, L-A; Comito, G; Ferracin, M; Giannoni, E; Mazzone, M; Chiarugi, P; Morandi, A (2019-07)

  Endocrine therapy (ET) is the standard of care for estrogen receptor-positive (ER+) breast cancers. Despite its efficacy, ∼40% of women relapse with ET-resistant (ETR) disease. A global transcription analysis in ETR cells ...
• Controversial issues in the neoadjuvant treatment of triple-negative breast cancer. 

  Fitzpatrick, A; Tutt, A (2019-01)

  Triple-negative breast cancer (TNBC), as a collective group of heterogenous tumours, displays the highest rate of distant recurrence and lowest survival from metastatic disease across breast cancer subtypes. However, a ...
• Discovery of high-confidence human protein-coding genes and exons by whole-genome PhyloCSF helps elucidate 118 GWAS loci. 

  Mudge, JM; Jungreis, I; Hunt, T; Gonzalez, JM; Wright, JC; Kay, M; Davidson, C; Fitzgerald, S; Seal, R; Tweedie, S; He, L; Waterhouse, RM; Li, Y; Bruford, E; Choudhary, JS; Frankish, A; Kellis, M (2019-12)

  The most widely appreciated role of DNA is to encode protein, yet the exact portion of the human genome that is translated remains to be ascertained. We previously developed PhyloCSF, a widely used tool to identify ...
• Simulation of a radiobiology facility for the Centre for the Clinical Application of Particles. 

  Kurup, A; Pasternak, J; Taylor, R; Murgatroyd, L; Ettlinger, O; Shields, W; Nevay, L; Gruber, S; Pozimski, J; Lau, HT; Long, K; Blackmore, V; Barber, G; Najmudin, Z; Yarnold, J (2019-09)

  The Centre for the Clinical Application of Particles' Laser-hybrid Accelerator for Radiobiological Applications (LhARA) facility is being studied and requires simulation of novel accelerator components (such as the Gabor ...
• The application of Hadoop in structural bioinformatics. 

  Alnasir, JJ; Shanahan, HP (2018-11-20)

  The paper reviews the use of the Hadoop platform in structural bioinformatics applications. For structural bioinformatics, Hadoop provides a new framework to analyse large fractions of the Protein Data Bank that is key for ...
• Cyclisation of Cell-Penetrating PDZ-Binding Peptides Directed to PSD95 

  Dabhi, S; Duberly, K; Alnasir, J; Wijesiriwardana, N; Austen, B (2019-05-01)
• Advances in targeted alpha therapy for prostate cancer. 

  De Vincentis, G; Gerritsen, W; Gschwend, JE; Hacker, M; Lewington, V; O'Sullivan, JM; Oya, M; Pacilio, M; Parker, C; Shore, N; Sartor, O; Targeted Alpha Therapy Prostate Working Group (2019-11)

  Amongst therapeutic radiopharmaceuticals, targeted alpha therapy (TαT) can deliver potent and local radiation selectively to cancer cells as well as the tumor microenvironment and thereby control cancer while minimizing ...
• Best practice in active surveillance for men with prostate cancer: a Prostate Cancer UK consensus statement. 

  Merriel, SWD; Hetherington, L; Seggie, A; Castle, JT; Cross, W; Roobol, MJ; Gnanapragasam, V; Moore, CM; Prostate Cancer UK Expert Reference Group on Active Surveillance (2019-07)

  OBJECTIVES:To develop a consensus statement on current best practice of active surveillance (AS) in the UK, informed by patients and clinical experts. SUBJECTS AND METHODS:A consensus statement was drafted on the basis of ...
• Identification of single nucleotide variants using position-specific error estimation in deep sequencing data 

  Kleftogiannis, D; Punta, M; Jayaram, A; Sandhu, S; Wong, S; Gasi Tandefelt, D; Conteduca, V; Wetterskog, D; Attard, G; Lise, S (2018-11-23)

  Abstract Background Targeted deep sequencing is a highly effective technology to identify known and novel single nucleotide variants (SNVs) with many applications in translational medicine, disease monitoring and cancer ...
• Identification of single nucleotide variants using position-specific error estimation in deep sequencing data. 

  Kleftogiannis, D; Punta, M; Jayaram, A; Sandhu, S; Wong, SQ; Gasi Tandefelt, D; Conteduca, V; Wetterskog, D; Attard, G; Lise, S (2019-08-02)

  BACKGROUND:Targeted deep sequencing is a highly effective technology to identify known and novel single nucleotide variants (SNVs) with many applications in translational medicine, disease monitoring and cancer profiling. ...
• A Four-Group Urine Risk Classifier for Predicting Outcome in Prostate Cancer Patients. 

  Connell, SP; Hanna, M; McCarthy, F; Hurst, R; Webb, M; Curley, H; Walker, H; Mills, R; Ball, RY; Sanda, MG; Pellegrini, KL; Patil, D; Perry, AS; Schalken, J; Pandha, H; Whitaker, H; Dennis, N; Stuttle, C; Mills, IG; Guldvik, I; Movember GAP1 Urine Biomarker Consortium; Parker, C; Brewer, DS; Cooper, CS; Clark, J (2019-05-20)

  OBJECTIVES:To develop a risk classifier using urine-derived extracellular vesicle RNA (UEV-RNA) capable of providing diagnostic information of disease status prior to biopsy, and prognostic information for men on active ...
• Comparison of Transrectal Ultrasound Biopsy to Transperineal Template Mapping Biopsies Stratified by Multiparametric Magnetic Resonance Imaging Score in the PROMIS Trial. 

  Lovegrove, CE; Miah, S; El-Shater Bosaily, A; Bott, S; Brown, L; Burns-Cox, N; Dudderidge, T; Freeman, A; Henderson, A; Hindley, R; Kaplan, R; Kirkham, A; Oldroyd, R; Parker, C; Persad, R; Punwani, S; Rosario, D; Shergill, I; Winkler, M; Emberton, M; Ahmed, HU (2020-01)

  PURPOSE:We evaluated the performance of transrectal ultrasound guided systematic and transperineal template mapping biopsies with a 5 mm sampling frame stratified by the multiparametric magnetic resonance imaging Likert ...
• Wanna Get Away? Maintenance Treatments and Chemotherapy Holidays in Gynecologic Cancers. 

  Madariaga, A; Rustin, GJS; Buckanovich, RJ; Trent, JC; Oza, AM (2019-01)

  Epithelial ovarian cancer has a very high rate of relapse after primary therapy; historically approximately 70% of patients with a complete clinical response to surgery and adjuvant chemotherapy will relapse and die of the ...
• Report from the ESMO 2018 presidential symposium-Radiotherapy to the primary tumour for men with newly diagnosed metastatic prostate cancer: survival results from STAMPEDE. 

  Parker, C (2018-01)
• Multiparametric MRI to improve detection of prostate cancer compared with transrectal ultrasound-guided prostate biopsy alone: the PROMIS study. 

  Brown, LC; Ahmed, HU; Faria, R; El-Shater Bosaily, A; Gabe, R; Kaplan, RS; Parmar, M; Collaco-Moraes, Y; Ward, K; Hindley, RG; Freeman, A; Kirkham, A; Oldroyd, R; Parker, C; Bott, S; Burns-Cox, N; Dudderidge, T; Ghei, M; Henderson, A; Persad, R; Rosario, DJ; Shergill, I; Winkler, M; Soares, M; Spackman, E; Sculpher, M; Emberton, M (2018-07)

  BACKGROUND:Men with suspected prostate cancer usually undergo transrectal ultrasound (TRUS)-guided prostate biopsy. TRUS-guided biopsy can cause side effects and has relatively poor diagnostic accuracy. Multiparametric ...

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