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Title: Lunter Group: Functional Genomics & Machine Learning — Radcliffe Department of Medicine
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Texto: Lunter Group: Functional Genomics & Machine Learning — Radcliffe Department of Medicine Cookies on this website We use cookies to ensure that we give you the best experience on our website. If you click 'Continue' we'll assume that you are happy to receive all cookies and you won't see this message again. Click 'Find out more' for information on how to change your cookie settings. Continue Find out more Site Map Accessibility Cookies Contact us Log in Home About us About us Our Divisions Our Clinical Facilities and MRC Units Working at RDM Athena SWAN News Seminars Locations and contact details Research People Study with us Work with us Current vacancies Novo Nordisk - Oxford Fellowships For Staff Contacts, travel and maps Personnel Finance, Grants and Funding Facilities, IT and Health and Safety Graduate Studies Career Development Athena SWAN Communications and public engagement Search Research Lunter Group: Functional Genomics & Machine Learning Lunter Group: Functional Genomics & Machine Learning MRC Weatherall Institute of Molecular Medicine Nuffield Division of Clinical Laboratory Sciences In the last decade biology has become a data-rich science. However, turning these data into an understanding of biology and disease remains challenging. Our group develops novel analytical methods to address a range of specific problems in genetics and sequence analysis, with the eventual goal to better understand the genetic basis of human biology in health and disease. © Kate Whitley CC BY 4.0 Research overview We are interested in understanding how genomes evolve through mutations and evolutionary pressures, and use this understanding to inform research ranging from disease to human ancestry. We try to understand non-coding functional DNA by analyzing functional genomic data through deep neural networks, to classify tumors using genome-wide signatures obtained from sequencing tumor samples, to describe past demographic events such as population splits, bottlenecks and migrations by analysing modern and ancient whole-genome sequences, and to understand the three-dimensional structure of DNA facilitating interactions between features far apart on the linear genome.  We also develop software tools, such as the variant caller Octopus that accurately calls and phases a range of variant types, and we develop methods for decoding Oxford Nanopore long-read sequencing data. We draw on a range of techniques, mostly from a field known as machine learning.   A few examples of tools we use include Bayesian inference to deal with uncertainty in the data, neural networks to learn from complex data in an unsupervised way, particle filters to do inference on complex models, latent Dirichlet analysis to model the hidden structure of data, and computational techniques such as the Burrows-Wheeler transform combining huge compression factors with fast lookups, enabling the analysis of large data sets. Some projects are described in more detail below. Short bio Gerton Lunter has a PhD in maths, and has worked in bioinformatics since 2002.  He has contributed to the 1000 Genomes Project and various primate sequencing projects.  In 2014 he co-founded Genomics plc , which analyses large-scale genomic data sets to speed up drug discovery.  He divides his time between the company and his research group. Our team Gerton Lunter Associate Professor Christopher Cole DPhil Student Daniel Cooke DPhil Student Ravza Gur DPhil Student Ron Schwessinger DPhil Student Liangti Dai DPhil Student In this section Neural network finds motif determining recombination hotspots Platypus Documentation Platypus: A Haplotype-Based Variant Caller For Next Generation Sequence Data Examples Of How To Run Platypus Platypus FAQ Stampy The OpEx pipeline CAVA: Clinical Annotation of Variants LGENU DECoN: Detection of Exon Copy Number All Platypus and Stampy versions DPHIL SUPERVISOR PROFILE Computational Functional Genomics Find out more © 2020 Radcliffe Department of Medicine Freedom of Information Privacy Policy Copyright Statement Accessibility Statement Site Map Accessibility Cookies Contact us Log in About us Our Divisions Investigative Medicine Division Nuffield Division of Clinical Laboratory Sciences Oxford Centre for Diabetes, Endocrinology and Metabolism Division of Cardiovascular Medicine MRC Weatherall Institute of Molecular Medicine MRC Weatherall Institute of Molecular Medicine Our Clinical Facilities and MRC Units Acute Vascular Imaging Centre Cardiovascular Clinical Research Facility Oxford Centre for Clinical Magnetic Resonance Research Working at RDM Equal career opportunities and flexible working Career development and training Athena SWAN News Seminars Locations and contact details Research Cardiovascular Science Haematology and Pathology Diabetes, Metabolism and Endocrinology Cancer Biology Immunology and Infection Stem Cells and Developmental Biology Geratology Experimental Therapeutics Ashrafian Group: Experimental Therapeutics and Clinical Pharmacology Mahmod group Tyler Group Lunter Group: Functional Genomics & Machine Learning Lunter Group Chapman Group: Genome stability and DNA repair mechanisms in cancer and genome diversification Patel Group People Moustafa Abdalla Ines Abdesselam Adib Abdullah Amanda Adler Satish Adwani Devika Agarwal Olorunsola Agbaje Doaa Ahmed Jila Ajeian Nadia Akawi Naveed Akbar Nasren Akhtar Ioannis Akoumianakis Merve Aksoz Marta Perez Alcantara Yara Alenazi Affaf Aliouat Jack Allen Maryam Alsharqi Sneha Anand Amanda Anderson Agata Antepowicz Charalambos Antoniades Alex Antonopoulos Mahesh Appari Andrew Apps Janhavi Apte Rina Ariga Andrew Armitage Alyssa Armsby Linda Arnold Ritu Arya James Ashford Neil Ashley Nicole Ashman Houman Ashrafian Kate Attfield Christian Babbs Mohsin Badat Ileana Badi Jade Bailey Subita Balaram Abhirup Banerjee Alison Banham Adrian Banning Liliana Barbieri Mike Barnkob Amy Barrett Matthew Baxter Asha Bayliss Robert Beagrie Daniel Beard Jordan Becker John Bell John Bell Elena Benedetto Amanda Bennett Felicity Bennett Timothy Betts Ryan Beveridge Shoumo Bhattacharya William Biggs Malenka Bissell Edward Blair Henry Blest Nicholas Blockley Henry Boardman Andrea Borghetto Alessandra Borlotti Jacqueline Boultwood Yavor Bozhilov Adam Braithwaite Robert Brand Matt Brechin Serena Briant Linford Briant Anne Bridgeman Paul Brodersen James Brown Jill Brown Lynn Brown Connor Broyles Marella de Bruijn Alastair Buchan Veronica Buckle Paul Buckley Daniel Bulte Martijn van de Bunt Mario Buono Holger Burchert Emma Burke-Smith Oliver Burns Matthew Burrage Shijie Cai David Cain Sarah Califano Ivan Candido-Ferreira Fang Cao Maria Carena Maria Carena Ricardo Carnicer Davide Carone Joana Carrelha Brigid Carter Barbara Casadei Carla Cascone Kuan Cha Hedia Chagraoui Jem Chalk Keith Channon Ross Chapman Lise Chauveau Jane Cheeseman Yi-Ling Chen Jili Chen Qian Cheng Amy Chiu Robin Choudhury Constantinos Christodoulides Zoe Christodoulou Sandy Chu Surawee Chuaiphichai Aldo Ciau-Uitz Thomas Clague Sally-Ann Clark Kevin Clark Lynn Clee Liz Cloke Christopher Cole


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