My lab measures the patterns of clonal evolution that define carcinogenesis and develops novel mathematical tools for analysis and prediction. By characterising tumour evolution, we aim to find better ways to determine prognosis and more effective ways to treat cancers.
Quantification of subclonal selection in cancer from bulk sequencing data. Nature Genetics (2018) 50(6) 895-903. PMID: 29808029
Identification of neutral tumor evolution across cancer types. Nature Genetics (2016) 44, 238-244. PMID: 26780609
The effects of mutational processes and selection on driver mutations across cancer types. Nature Communications (2018) 9(1) 1857. PMID: 29748584
Robust RNA-based in situ mutation detection delineates colorectal cancer subclonal evolution. Nature Communications (2017), 8(1) 1998. PMID: 29222441
The central themes of my lab are:
The major tools of the lab are genomics, bioinformatics, histopathology and mathematical modelling.
Measuring single cell divisions in human tissues from multi-region sequencing data Werner B, Case J, Williams MJ et al. Nature Communications (2020) 11(7)
Cancer associated fibroblast FAK regulates malignant cell metabolism. Demircioglu F, Wang J, Candido J et al. Nat Commun (2020) 11(2) 1290
A novel use of random priming-based single-strand library preparation for whole genome sequencing of formalin-fixed paraffin-embedded tissue samples. Saunderson EA, Baker A-M, Williams M et al. NAR Genom Bioinform (2020) 2(2) lqz017
Author Correction: Resolving genetic heterogeneity in cancer (Nature Reviews Genetics, (2019), 20, 7, (404-416), 10.1038/s41576-019-0114-6) Turajlic S, Sottoriva A, Graham T et al. Nature Reviews Genetics (2020) 21(7) 65
Resolving genetic heterogeneity in cancer. Turajlic S, Sottoriva A, Graham T et al. Nature Reviews Genetics (2019) 20(1) 404-416
Spatially constrained tumour growth affects the patterns of clonal selection and neutral drift in cancer genomic data Chkhaidze K, Heide T, Werner B et al. PLoS Computational Biology (2019) 15(7)
Correction: Genomic profiling reveals spatial intra-tumor heterogeneity in follicular lymphoma (Leukemia, (2018), 32, 5, (1261-1265), 10.1038/s41375-018-0043-y) Araf S, Wang J, Korfi K et al. Leukemia (2019) 33(7) 1540
Evolutionary history of human colitis-associated colorectal cancer Baker AM, Cross W, Curtius K et al. Gut (2019) 68(7) 985-995
NeoPredPipe: High-throughput neoantigen prediction and recognition potential pipeline Schenck RO, Lakatos E, Gatenbee C et al. BMC Bioinformatics (2019) 20(7)
Quantification of Crypt and Stem Cell Evolution in the Normal and Neoplastic Human Colon. Baker A-M, Cereser B, Melton S et al. Cell Rep (2019) 27(1) 2524-2524
I originally trained as a mathematician (MSci Mathematics, Imperial College, 2002) before spending time in a cancer genetics lab as part of my interdisciplinary PhD (PhD Mathematical Biology, UCL, 2009). As a postdoc, I worked in Nick Wright's lab at the Cancer Research UK London Research Institute studying clonal expansions in human tissues (2008-2011), and Carlo Maley’s lab at UCSF looking at the pattern of clonal evolution in human cancers (2011-2013).
I joined BCI in September 2013.
Please contact me to discuss opportunities. Further information about my lab can be found here.