Bioinformatics (Epigenomics) Postdoctoral Position

University of Toronto (U of T)

Toronto, Ontario, Canada

Posted about 12 hours agoExpires on November 23, 2020

We are seeking a bioinformatics postdoctoral fellow to work under the direct supervision of Dr. Daniel De Carvalho at the Princess Margaret Cancer Centre – University of Toronto. Our lab is using and developing cutting edge experimental and computational methods based on Cancer epigenomics and liquid biopsy.

The selected candidate will work in projects focused on genome-wide DNA methylation data from circulating cell-free DNA in multiple cancer types and non-oncology application, such as fatty liver disease, and will work in close collaboration with wet-lab scientists and clinicians. The selected candidate will be co-supervised by Dr. Mamata Bhat, a clinician-scientist at Toronto General Hospital.

Qualifications:

•Ph.D in Bioinformatics, computational biology, systems biology, machine learning or related areas;

•Experience in analyzing high throughput genomics and epigenomics datasets;

•proficiency in at least one programming language and knowledge of statistics;

•Demonstrated excellent publication record of scientific achievement;

•Highly motivated and self-driven.

For consideration, please send a CV and contact information for three references to: epigenome.search@gmail.com

Selected publications:

Nassiri F, Chakravarthy A, Feng S, Shen SY, Nejad R, Zuccato JA, Voisin MR, Patil V, Horbinski C, Aldape K, Zadeh G, De Carvalho DD. Detection and discrimination of intracranial tumors using plasma cell-free DNA methylomes. Nature Medicine. 2020 Jul;26(7):1044-1047.

Nuzzo PV, Berchuck JE, Korthauer K, Spisak S, Nassar AH, Abou Alaiwi S, Chakravarthy A, Shen SY, Bakouny Z, Boccardo F, Steinharter J, Bouchard G, Curran CR, Pan W, Baca SC, Seo JH, Lee GM, Michaelson MD, Chang SL, Waikar SS, Sonpavde G, Irizarry RA, Pomerantz M, De Carvalho DD, Choueiri TK, Freedman ML. Detection of renal cell carcinoma using plasma and urine cell-free DNA methylomes. Nature Medicine. 2020 Jul;26(7):1041-1043.

Shen SY, Burgener JM, Bratman SV, De Carvalho DD. Preparation of cfMeDIP-seq libraries for methylome profiling of plasma cell-free DNA. Nature Protocols. 2019 Oct;14(10):2749-2780.

Shen SY, Singhania R, Fehringer G, Chakravarthy A, Roehrl MHA, Chadwick D, Zuzarte PC, Borgida A, Wang TT, Li T, Kis O, Zhao Z, Spreafico A, Medina TDS, Wang Y, Roulois D, Ettayebi I, Chen Z, Chow S, Murphy T, Arruda A, O’Kane GM, Liu J, Mansour M, McPherson JD, O’Brien C, Leighl N, Bedard PL, Fleshner N, Liu G, Minden MD, Gallinger S, Goldenberg A, Pugh TJ, Hoffman MM, Bratman SV, Hung RJ, De Carvalho DD. Sensitive tumour detection and classification using plasma cell-free DNA methylomes. Nature. 2018 Nov;563(7732):579-583.

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