Dr Sujath Abbas

University of Cambridge

University departments
Cancer Research UK Cambridge Institute
University institutes
CRUK Cambridge Institute

Position: Research Associate
Personal home page:
Email:   Sujath.Abbas@cruk.cam.ac.uk

PubMed journal articles - click here

Research description

Based in the Balasubramanian’s group at CRUK Cambridge Institute, I am keen to understand how non canonical B-DNA structures (G-Quadruplexes) and Modified bases influence the process of tumorigenesis from pre-cancerous lesions, so as to identify avenues for early detection and prevention. I did my PhD in cancer genomics in Fitzgerald group at Early cancer institute, with a focus on oesophageal adenocarcinoma (OAC), where I investigated the dynamics of mutational events during the development and spread of OAC. Also, along with colleagues I developed a cost-effective DNA sequencing method (mutREAD) aimed for screening of mutational signatures using FFPE DNA, envisioning its implementation in large scale clinical trials/screening. I have a Masters and a Bachelor’s degree in Biochemistry from Kuvempu and Tumkur Universities in Karnataka state, India.

Research Programme
Early Cancer Institute
Methods and technologies
Bioinformatics
Cell culture
DNA sequencing
Gene expression profiling
Genomics
Immunohistochemistry
PCR
Protein purification
Recombinant protein expression
Tumour type interests
Oesophagus
Pancreas
Other

Key publications

The mutREAD method detects mutational signatures from low quantities of cancer DNA. Nat Commun 11, 3166 (2020).
Perner, J., Abbas, S., Nowicki-Osuch, K. et al. . https://doi.org/10.1038/s41467-020-16974-3

mutREAD: An affordable method to capture the archaeology of DNA damaging events in cancer genomes.
Behind the paper; Nature Research Cancer Community Blog July27,2020
Author:Sujath Abbas Contributing authors: Juliane Perner, Karol Nowicki-Osuch, Rebecca Fitzgerald
https://go.nature.com/32VKddz

Katz-Summercorn, A.C, Jammula.S, Frangou.A, Peneva.I, Donovan.M.O, Tripathi.M, Malhotra.S, di Pietro.M, Abbas.S, Devonshire.G, Januszewicz.W, Blasko.A, Nowicki-Osuch.K, MacRae.S, Northrop.A, Redmond.A.M,Wedge.D.C & Fitzgerald.R.C. Multi-omic cross-sectional cohort study of pre-malignant Barrett’s esophagus reveals early structural variation and retrotransposon activity. Nat Commun 13, 1407 (2022).
https://doi.org/10.1038/s41467-022-28237-4

Alvin Wei Tian Ng, Gianmarco Contino, Sarah Killcoyne, Ginny Devonshire, Ray Hsu, Sujath Abbas, Jing Su, Aisling M. Redmond, Jamie M. J. Weaver, Matthew D. Eldridge, Simon Tavaré, Oesophageal Cancer Clinical and Molecular Stratification (OCCAMS) Consortium,
Paul A. W. Edwards & Rebecca C. Fitzgerald. Rearrangement processes and structural variations show evidence of selection in oesophageal adenocarcinomas. Commun Biol 5, 335 (2022). https://doi.org/10.1038/s42003-022-03238-7

Genomic copy number predicts esophageal cancer years before transformation.
Killcoyne S, Gregson E, Wedge DC, Woodcock DJ, Eldridge MD, de la Rue R, Miremadi A, Abbas S, Blasko A, Kosmidou C, Januszewicz W, Jenkins AV, Gerstung M, Fitzgerald RC.
Nat Med. 2020 Sep 7. doi: 10.1038/s41591-020-1033-y. Online ahead of print.
https://rdcu.be/b6UTl

Identification of Subtypes of Barrett's Esophagus and Esophageal Adenocarcinoma Based on DNA Methylation Profiles and Integration of Transcriptome and Genome Data
SriGanesh Jammula, Annalise C Katz-Summercorn, Xiaodun Li, Constanza Linossi, Elizabeth Smyth, Sarah Killcoyne, Daniele Biasci, Vinod V Subash, Sujath Abbas, Adrienn Blasko, Ginny Devonshire, Amber Grantham, Filip Wronowski, Maria O'Donovan, Nicola Grehan, Mathew D Eldridge, Simon Tavaré, Oesophageal Cancer Clinical and Molecular Stratification (OCCAMS) consortium, Rebecca C Fitzgerald.Gastroenterology, 2020 Feb 4
DOI: 10.1053/j.gastro.2020.01.044
https://www.gastrojournal.org/action/showPdf?pii=S0016-5085%2820%2930156-6

The landscape of selection in 551 esophageal adenocarcinomas defines genomic biomarkers for the clinic. Frankell AM, Jammula S, Li X, Contino G, Killcoyne S, Abbas S, Perner J, Bower L, Devonshire G, Ococks E, Grehan N, Mok J, O'Donovan M, MacRae S, Eldridge MD, Tavaré S; Oesophageal Cancer Clinical and Molecular Stratification (OCCAMS) Consortium, Fitzgerald RC. Nat Genet 51, 506–516 (2019). https://doi.org/10.1038/s41588-018-0331-5