Sebastian Zeki

Gastroenterology consultant

Guy's and St Thomas' NHS Trust

Biography

Dr Sebastian Zeki is a consultant gastroenterologist at St Thomas’ Hospital in London. His research interests include upper gastrointestinal physiology, upper gastrointestinal cancer, natural language programming and quality metrics in endoscopy. He co-leads the Gastroenterology data sciences Institute in London

Interests

Endoscopic therapy
Oesophageal and stomach cancers/Barrett’s oesophagus
Oesophageal physiology
Heartburn; chest pain; indigestion; bloating; spasm; dyspepsia; irritable bowel syndrome; swallowing disorders; hoarse voice; chronic cough and throat clearing
Eosinophilic oesophagitis
High quality endoscopy
Machine learning/R/Natural language programming
Genomics

Education

PhD - Genomics of Barrett's related malignancy, 2013
University of London
Member of the Royal College of Physician, 2006
MSc Health Informatics, 2003
City University
MBBS MBChir Medicine, 2001
University College London
MA in experimental psychology, 1998
Cambridge University

Experience

Honorary Senior Clinical Lecturer, King’s College London

King’s College

Oct 2019 – Present London

Co-head of the Gastroenterology Data Sciences Institute

Guy’s & St Thomas’ NHS Trust

Jan 2017 – Present London

Honorary Senior Clinical Lecturer, Bart’s Cancer Institute

Bart’s Cancer Institute

Jan 2017 – Present London

Consultant Gastroenterologist

Guy’s & St Thomas’ NHS Trust

Apr 2015 – Present London

Clinical Lecturer

Cambridge University: MRC Hutchison

Jun 2013 – Apr 2015 Cambridge

PhD student

Queen Mary University of London

Jan 2010 – Jun 2013 London

Gastroenterology registrar

North West Thame’s Training Rotation

Jun 2006 – Jan 2016 London

Postgraduate internal medicine training

Jun 2001 – Jun 2006 London

Skills

Acid reflux and reflux related conditions

Reflux can cause a number of worrying symptoms such as heartburn, regurgitation, coughs, sore throats and a hoarse voice

Bloating, swollen abdomen, vomiting and feeling gassy

Feeling bloated and being gassy can be embarrassing but is usually avoidable with careful investigation and personalised treatment

Detection, surveillance and resection of early GI cancers and pre-cancers

Daycase endoscopic removal using mucosal and submucosal dissection

Eosinophilic oesophagitis and food allergies

The increasingly common condition called eosinophilic oesophagitis and its relationship to food

Swallowing problems

The feeling of food getting stuck after swallowing, or choking can be due to a number of different problems from obstructions, to weak or even overactive oesophageal muscles

Projects

Gastrodatascience

A basic tutorial on data science methods as applied to gastroenterological data. This will explain the basic principles of natural language processing as applied to endoscopy and pathological text to allow information to be extracted in an automated way.

Improving Lesion Recognition using text

Health Foundation grant to use endoscopic and pathological free text merge with images to improve lesion recognition in trainees by automating individual metrics

EndoMineR

A package written in R to automate extraction of endoscopic metrics from free text reports. R is a functional programming language and one of the most commonly used. Here it is applied to endoscopic and pathological natural language text. The open source package can execute on any body of text. The package comes with a well developed tutorial and plenty of examples.

Code

MiFlo- a single page patient flow manager to help virtual consultations

A Shiny app that visually represents a patients timeline of investigations with summarised results as well as appointments. The excess of information that electronic data has brought with it means that there is now a desperate need to show only data that is needed to make a decision about a patient rather than to drown a clinician in a lot of unnecessary information. MiFlo provides this filter. It was initially developed for gastroenterology but is equally configurable to any clinical environment.

Code

MiFlo- a single page patient flow manager to help virtual consultations

Gastroenterology book

A visual training manual for Gastroenterologists with automated MCQ’s. Gastroenterology training covers a huge number of subjects. The gastroenterology training book was the first online attempt to provide a comprehensive training book where each subject is treated as a single, visually represented page. Each page can automatically generate MCQ’s from the page so that there are an unlimited number of MCQs on the site. If you log in (which is free) you can get your performance on the MCQ’s as well as your reading metrics so you can discover your knowledge gaps.

Code

Featured Publications

See all publications

Hannah Hunter, Kristina Pupinyte, Terry Wong, Sebastian Zeki, Jason M. Dunn, Evelyn Toner, Stephen J. Till, Miranda C. E. Lomer

December 2018 In Clin Exp Allergy. 2018 Dec;48(12):1752-1756. Epub 2018 Oct 12.

Multidisciplinary approach to the management of adult eosinophilic oesophagitis in the United Kingdom

Dietary intervention is effective for the management of eosinophilic oesophagitis (EoE) in both adults and children. The majority of research has been conducted in Spain or the United States, with no studies of dietary intervention published in the United Kingdom. Restrictive elimination diets can be challenging…….

DOI

Sebastian Zeki

July 2018 In Journal of Open Source Software, 3(24), 701.

EndoMineR for the extraction of endoscopic and associated pathology data from medical reports

Medical data is increasingly kept in an electronic format worldwide (Bretthauer M. 2016).This serves many purposes including more efficient storage, distribution and accessibility of patient-focussed data. As important is the ability to analyse healthcare data for to optimize resource deployment and usage……

DOI

Zeki S, Fitzgerald RC.

December 2014 In Clinical Medicine, 2014 Dec 1;14(78-83)

Targeting care in Barrett's oesophagus

Barretts oesophagus represents the most significant risk factor for the development of oesophageal adenocarcinoma (OAC), although the majority of patients will not develop cancer. However, early detection of OAC……

DOI

Sebastian S Zeki, Rehan Haidry, Trevor A Graham, Manuel Rodriguez-Justo, Marco Novelli, Jonathon Hoare, Jason Dunn, Nicholas A Wright, Laurence B Lovat, Stuart AC McDonald

July 2013 In The American Journal of Gastroenterology volume 108, pages 1584–1592 (2013)

Clonal Selection and Persistence in Dysplastic Barrett's Esophagus and Intramucosal Cancers After Failed Radiofrequency Ablation

Radiofrequency ablation (RFA) is used to successfully eliminate Barrett’s esophagus (BE)-related dysplasia or intramucosal carcinoma and aims to cause reversion to squamous epithelium. However, in 20% of cases RFA fails to return……

DOI

Sebastian Zeki

Gastroenterology consultant

Guy's and St Thomas' NHS Trust

Biography

Interests

Education

Experience

Honorary Senior Clinical Lecturer, King’s College London

Co-head of the Gastroenterology Data Sciences Institute

Honorary Senior Clinical Lecturer, Bart’s Cancer Institute

Consultant Gastroenterologist

Clinical Lecturer

PhD student

Gastroenterology registrar

North West Thame’s Training Rotation

Postgraduate internal medicine training

Skills

Projects

Featured Publications

Recent & Upcoming Talks

Contact

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