Understanding the molecular landscape of precancers for preventing cancer

Last Updated
Project Description

All cancers originate from a single cell that undergoes a transformation from a normally functioning somatic cell into a malignant neoplasm. In most cases, this transformation follows a stepwise process with the somatic cell first expanding into a precancer and, subsequently, becoming an advanced invasive cancer. The progression from a pre-malignant tumor to a malignant neoplasm is due to somatic mutations that can be traced, characterized, and genomically studied. In this rotation, the student will evaluate the mutational burden, driver mutations, copy number changes, mutational signatures, and subclonal architecture of pre-malignant lesions and compare them to molecular events previously identified in advanced invasive cancers. The goal is to reveal the molecular events that are necessary for a precancer to convert into cancer. Independent previously generated drug-screen datasets (e.g., Cancer Cell Line Encyclopedia) will be used to propose potential intervention strategies that can used to target these molecular events in order to halt this conversion and lead to cancer prevention.

Michael Cuoco

First Name
Michael
Last Name
Cuoco
Student Status
Graduate Student
Email
mcuoco@ucsd.edu
Major
Bioinformatics and Systems Biology
Co-Advisor
Completed Degrees

B.S., Molecular and Cellular Biology, Trinity College-Connecticut, 2017

BISB Training Grant
No
Special Funding or Awards

2020-21 Trainee on NIH Training Grant in Bioinformatics

NSF Graduate Research Fellowship

Research Focus
Genomics approaches to understanding retrotransposon activity in the human brain

Severine Soltani

First Name
Severine
Last Name
Soltani
Student Status
Graduate Student
Email
ssoltani@ucsd.edu
Major
Bioinformatics and Systems Biology
Advisor
Completed Degrees

B.S., Cognitive Science w/ Specialization in Machine Learning and Neural Computation, University of California, San Diego, 2020
Minor, Mathematics, University of California, San Diego, 2020

BISB Training Grant
No
Special Funding or Awards

2021-23 Trainee on NIH Training Grant in Bioinformatics

Arya Massarat

First Name
Arya
Last Name
Massarat
Student Status
Graduate Student
Email
amassara@ucsd.edu
Major
Bioinformatics and Systems Biology
Completed Degrees

B.S., Mathematical and Computational Biology, Harvey Mudd College, 2020

BISB Training Grant
No
Special Funding or Awards

2020-21 Trainee on NIH Training Grant in Bioinformatics

NSF Graduate Research Fellowship

Research Focus
Fine-mapping, Reproducibility

Lauryn Bruce

First Name
Lauryn
Last Name
Bruce
Student Status
Alumni
Email
lbruce@ucsd.edu
Major
Bioinformatics and Systems Biology with a Specialization in Biomedical Informatics
Advisor
Co-Advisor
BISB Training Grant
No
Special Funding or Awards

2020-23 Trainee on National Library of Medicine (NLM) Training Grant Fellowship Program

Degree Conferred
Ph.D.
Year Graduated
Quarter Graduated
Fall
Thesis Title
Promoting Equitable Health Using Time Series Wearable Data to Explore Sex Differences and Characterize Pregnancy

Caitlin Guccione

First Name
Caitlin
Last Name
Guccione
Student Status
Graduate Student
Email
cguccion@ucsd.edu
Major
Bioinformatics and Systems Biology
Advisor
Co-Advisor
Completed Degrees

B.S., Applied Mathematics, University of Rhode Island
B.A., Computer Science, University of Rhode Island
M.S., Applied Mathematics, University of Rhode Island

BISB Training Grant
No
Special Funding or Awards

2020-21 Trainee on NIH Training Grant in Bioinformatics

Research Focus
Cancer microbiome & mathematical modeling