The Aparicio lab studies the genomic and phenotypic behaviour of breast and other cancers. Integrating leading edge technologies with patient-derived xenograft models of cancer, this research is working to better understand how cancer clones evolve and to identify novel strategies for cancer treatment and predictors of response.   

Dr. Aparicio’s research program encompasses the fields of cancer genomics, cancer evolution, single cell biology, mouse genetic models, high throughput screens, small molecule chemical probe development and translational breast cancer research. His work on the molecular taxonomy of breast cancer led to identification of new genes that could change the way breast cancer is diagnosed, and form the basis of next-generation treatments. This discovery was preceded by another breakthrough in decoding the genetic makeup of the most-deadly form of breast cancer, known as triple negative subtype (TNBC). Dr. Aparicio is also working to develop quantitative measures of clonal fitness in patients, including methods for single cell genome sequencing and PDX models of human cancer. He collaborates widely with other groups, with current projects including the genomic and biochemical analysis of lymphoma, ovarian cancer, and several rare pediatric cancers. He was a co-founder of Paradigm Therapeutics (now, Takeda Cambridge) and currently Contextual Genomics Ltd.

Website

Members

Faculty/Leaders

Staff

Vinci Au

Research Assistant/Technician

Cherie Bates

Leader, Breast Cancer Provincial Clinical Research Program

Sean Beatty

Bioinformatics Scientist

Viviana Cerda Llanos

Research Assistant

Woongcheol (William) Choi

Research Assistant/Technician

Cynthia Ferguson

Research Projects and Operations Leader

Cristina Flores

Research Assistant/Technician

Shahid Haider

Programmer

Daniel Lai

Senior Bioinformatics Scientist

Noah Malchy

Software Engineer

Daniel Min

Software Engineer

Ciara O'Flanagan, PhD

Research Associate

Benoit Prevost-Potvin

Software Developer

Shakhil Singh

Research Assistant / TECHNICIAN

Michael Van Vliet

Research Assistant / Technician

Jecy (Beixi) Wang

Research Assistant

Alyssa Yeo

Research Assistant / TECHNICAN

Elena Zaikova

Bioinformatics Scientist

Ismat Zerin

Research Assistant

Post-Docs

Vincent Briane

Post-doctoral Fellow

Gurdeep Singh

Postdoctoral Fellow

Hoa Tran

Post-doctoral Fellow

Hak Woo Lee

Postdoctoral Fellow

Students/Trainees

Jenice Dumlao

Co-op Student

Luna Liu

Co-op Student

Yi Fei (Eric) Liu

Directed studies student

Open Positions

Research Associate - Scientific Program Lead

Position Description

The post holder will support and work closely with Dr Aparicio, leader of Molecular Oncology, UBC Nan and Lorraine Robertson Chair of Breast Cancer, in developing scientific proposals, assisting in manuscript development and review, coordinating international multi-PI research studies and interacting with funders and advocates in reporting the activities of the program. A PhD with demonstrated experience in authoring manuscripts, preparing funding applications and reports, is a requirement for the role. Preference will be given to candidates with experience in biosciences and cancer research. Ability to articulate science clearly in a written form and a high degree of independence and self organization are core skills for this post.

Major responsibilities include

  • Provide input into writing research proposals and writes significant portions of grant applications.
  • Develops and recommends project budgets, monitors expenditure of funds relative to budget, ensures appropriate, transparent justifications for expenditures. Participates in the development and implementation of new projects, by developing new material, researching and sourcing equipment and recommending staffing and resource requirements.
  • Manages and develops necessary agreements for the Aparicio program in conjunction with the BC Cancer Technology Development Office and UBC Office of Research Services/University-Industry Liaison Office.
  • Responds to ongoing requests for regular reports by maintaining and updating information to ensure compliance with granting agencies and other external organizations.
  • Serves as a primary point of liaison between researchers, administrators, and funding agencies REBs, national and international health organizations, educational institutions, government and private agencies.
  • Identifies opportunities for developing new initiatives, grants and projects that enhance funding of research in the Aparicio program. This may include, but is not limited to funding from external organizations such as MSFHR, CIHR, Genome Canada, CFI, NSERC, NCIC, LRF, NIH, the provincial government and industry.
  • Assists with Research Ethics Board applications and amendments as required, and ensures compliance with Research Ethics Board guidelines.
  • Develops and maintains a clear engagement and communication plan for both internal and external audiences.  This includes promotion and representation of Aparicio program research through websites and social media platforms, and the development and facilitation of workshops, conferences, guest lecturers, etc.
  • Identifies new translational pathways, such as commercial partnerships, licencing etc. for new technologies and encourage entrepreneurial activities as appropriate.
  • Conducts regular literature reviews relating to research areas.  Contributes intellectual and scientific input to manuscripts for publications, provides scientific proofreading. 

Eligibility requirement

Interested individuals with a PhD or MD/PhD, a strong publication record and excellent academic credentials are encouraged to apply. Experience in grant preparation and scientific manuscript preparation is required.

  • Strong interpersonal skills and the ability to work effectively with internal and external stakeholders who possess a wide range of education and expertise. 
  • Ability to use independent judgment and to manage and impart information to a diverse range of internal and external stakeholders.
  • Ability to exercise appropriate tact, discretion, confidentiality, and good judgment in all matters.
  • Knowledge of and/or experience in project management principles, accounting and fiscal management is preferable.

This is a one year appointment and depending on funding and successful progress of the research it may be renewed for additional years.

UBC hires on the basis of merit and is committed to employment equity. All qualified persons are encouraged to apply. UBC is strongly committed to diversity within its community and especially welcomes applications from visible minority group members, women, Aboriginal persons, persons with disabilities, persons of any sexual orientation or gender identity, and others who may contribute to the further diversification of ideas. However, Canadians and permanent residents of Canada will be given priority.

We thank all interested applicants for their interest, however, only those applicants short-listed will be contacted for an interview.

Post-doctoral Fellow (PDF) Single Cell Genomics, Molecular Biology

We are seeking a highly-motivated post-doctoral fellow (PDF) with strong leadership ability and expertise in single cell genomics and transcriptomics, and a strong background in molecular biology. The successful applicant will work full-time under the supervision of Dr. Samuel Aparicio. The position start date is flexible.

JOB SUMMARY:

The Aparicio lab is developing new single cell genome and transcriptome methods for tracking clonal trajectories at single cell level in patient tissues and patient-derived xenografts (PDX). A PDF position is available in the Aparicio lab based at the BC Cancer Research Center in Vancouver, Canada, collaborating on an exciting project mapping clonal dynamics in human cancers with new single cell methods. The post holder will have the opportunity to interact as part of the international CRUK Grand Challenge IMAXT project, bringing new measurement methods and computational techniques to the 3D reconstruction of tumours, and mapping drug sensitivity and drug combinations using sgRNA/CRISPR methods in vivo. The program works closely with the Shah computational biology program, based at Memorial Sloan Kettering Cancer Centre, on the development of new models for single cell data and cancer evolution. Some experience with bioinformatics approaches to biological data and familiarity with handling of genomics data will be an advantage.

ORGANIZATIONAL STATUS:

Aparicio Lab is located in the department of Molecular Oncology at BC Cancer Research Center in Vancouver, British Columbia, Canada. The candidate will report directly to Dr. Samuel Aparicio, and will play a senior leadership role in the laboratory.

WORK PERFORMED:

  • Provide leadership, strategic direction, and translational research pertaining to single cell genomics and transcriptomics, and CRISPR methods.
  • Design and implement research plan to investigate the clonal dynamics in human cancer through single cell methods.
  • Design and conduct animal experiments.
  • Conduct in vivo testing or characterization of drugs, small molecules, knockouts or antibodies in relevant PDX animal models.
  • Foster research collaborations and work jointly with academic, clinical, industry, and other partners.
  • Scientifically document lab experiments, data analysis, interpretations.
  • Write manuscripts, present results at internal and external meetings.
  • Identify funding opportunities and if required write or assist with grant proposals
  • Lead and mentor junior trainees/students in the laboratory

CONSEQUENCE OF ERROR:

This is a senior research position that plays a critical role in the development of this novel field. PDF is accountable for the quality and integrity of the research and data, including analyses and interpretation, as well as the effective and efficient management of research projects and deliverables. This position requires innovation, strategic planning, and adaptability. Incorrect decisions or actions may damage the reputation of the laboratory, lead to loss of credibility in this field, and be financially costly.

SUPERVISION RECEIVED:

The PDF will work with a high degree of independence and set priorities under broad directives from Dr. Aparicio. The PDF will be expected to provide direction and mentoring in the laboratory under the supervision of Dr. Aparicio. This position will also provide the candidate with a high level of exposure to single cell genomics and translational research, as well as, providing opportunities to work collaboratively with industry partners and other researchers globally.

SUPERVISION GIVEN:

The PDF will be expected to provide mentorship and guidance to undergraduate, graduate students and other research members as required.

QUALIFICATION:

  • Ph.D. in biology, cell biology, molecular biology, biochemistry, genetics, genomics, or similar discipline.
  • The candidate should have a solid scientific and technical background with excellent written/oral communication, interpersonal and organizational skills.
  • Preference will be given to candidates with a proven track record with a minimum of 2-3 first author publications in reputable journals.
  • Proficiency in cell biology, molecular biology, histology, genetics, genomics, next-generation sequencing and biochemistry techniques.
  • Demonstrate the ability to work in a highly interdisciplinary environment.
  • Experience with cancer research.
  • Expertise and hands-on experience in animal studies, including all aspects of design, handling, breeding, tissue collection, histology, and analyses are essential.
  • Familiarity with testing/characterization of small molecule or drug in vivo is preferred.
  • Previous biochemical/cell biology and molecular biology experience with single cell genomics / transcriptomics, next generation sequencing, drugs screen and PDX modeling is an asset.
  • Experience with statistical analyses and scientific writing. Previous experience with grant writing is an asset.
  • Experience with bioinformatics approaches to biological data and familiarity with handling of genomics data is an asset.
  • Applicants with experience and a strong track record with large drug target screening, single cell methods, and PDX mouse models are especially encouraged to apply.

To apply: Please send your Cover Letter, CV, Transcript and Work Sample to careersmolonc@bccrc.ca

Please put your full name and job title “Post-doctoral Fellow (PDF) Single Cell Genomics, Molecular Biology" in the subject line.

Research Administration Coordinator

Job Summary

In accordance with the Mission, Vision and Values, and strategic directions of Provincial Health Services Authority patient safety is a priority and a responsibility shared by everyone at PHSA, and as such, the requirement to continuously improve quality and safety is inherent in all aspects of this position.

Reporting to the Department Head or designate, the Research Administrative Coordinator, BC Cancer Research Centre is responsible for providing support in areas of human resources, payroll, grant and research administration. This role, on behalf of Principal Investigators (PI’s) and leaders, monitors payroll and financial cost centres through to resolution of payroll issues. The Research Administrative Coordinator also provides administrative support including managing the grant application process and providing work direction to junior administrative staff in the team.

Duties/Accountablilties

  • In collaboration with the Principal Investigator(s) (PIs) coordinates the preparation and submission of grant proposals by identifying submission guidelines, collating information required and ensuring submission deadlines are met. Follows up with the granting agency on the submission of proposals, monitors post award financial accounts to ensure accuracy. Provides progress reports, highlights discrepancies and provides recommendations to resolve discrepancies and budget concerns to the PI(s) as appropriate.
  • Interacts with a variety of individuals and agencies such as universities and granting agencies both national and international.  Ensures flow of information with internal and external stakeholders regarding grant related matters and makes arrangements for visiting speakers and guests.
  • Human resources responsibilities include recruitment of staff by posting/advertising internally and externally (UBC), coordinating interviews and screening applications for review by hiring supervisors. Manages new hires orientation process in the department and ensures all safety and personnel documentations are in place according to policies, guidelines and legislations.
  • Ensures all hiring, appointment and payroll processes such as new hire letters and timekeeping are complete for employees. Liaises with various PHSA units such as Payroll and Human Resources and in some cases, UBC to ensure a seamless process and minimize errors. Brings issues and recommendations of remedies to department head or designate for approval. 
  • Acts as the main contact for ordering supplies for the department and approves lab and office supplies by performing duties such as submitting purchase requisitions and obtaining authorizing signature as necessary. Manages and processes various requisitions such as travel, expense reimbursements, cheque requests, and honorariums for the Department Head and PIs. Acts as liaison with various departments of BCCA/PHSA including purchasing, stores, and finance to obtain information and follow-up on the status of outstanding issues and requests.
  • Coordinates registration and travel arrangements for staff attendance at seminars and meetings. This includes completing registration (on-line or phone), abstract submission, making travel and lodging reservations, culminating expense reimbursements to the attendee and/or cost recovery from the conference organizers as appropriate.
  • Provides work direction to junior and contract administrative staff including orientating new staff and assigning and reviewing work, coordinating work assignments to ensure completion, answering questions and providing support, ensuring policies and procedures are followed and providing input to performance evaluations as required.

Qualifications

A level of education, training, and experience equivalent to a Diploma in a relevant area such as business administration or finance from a recognized college plus three (3) years’ recent related experience a research environment and in project management.
Strong interpersonal and communication skills and the ability to demonstrate good judgment, tact and discretion. Detail oriented and able to complete accurate work in a timely matter. Demonstrated time management skills and ability to assist others in meeting deadlines.  Knowledge of and experience with grant applications.  Knowledge and experience in budget preparation, tracking expenditures and identifying sources of variance. Proficient in scientific and medical terminology.  Ability to work both independently and as team leader to organize work and manage multiple priorities in a fast paced environment. Demonstrated ability to make sound decisions and resolve administrative issues/problems. Fully proficient in the use of a variety of software packages including word processing, spreadsheets and databases and related equipment. Demonstrated ability to evaluate personal work and existing systems and identify areas for improvement. Physical ability to perform the duties of the position.

To apply: please send your Resume and cover letter to careersmolonc@bccrc.ca

Please put “Research Administrative Coordinator” and your full name in the subject line.

Postdoctoral fellow, Bioinformatics

Job Summary

The candidate would work within a dynamic and vibrant lab with a proven track record of outstanding achievements and contributions in breast oncology research. This position allows the candidate to contribute bold and innovative research that can be translated to new understanding in the evolutionary processes that drive cancers.

This position's primary focus in the lab will be to lead and to participate in projects involving the investigation of functional genomics using sequencing and expression data for breast oncology and cancer evolution. Using the wide network of connections and collaborations of the principal investigator, and extensive biomedical resources at the institution, candidates will be able to build on the existing research of the lab to quickly start up their own research projects.

The position will provide a unique opportunity for mentoring trainees, supervising analysts and interacting with industry. This is an excellent platform to receive outstanding training to gain the important skills for a successful medical research career in academia or industry.

This funded position with the University of British Columbia, at the BC Cancer Research Centre allows the candidate to flourish under the guidance of an experienced mentor

Organizational Status

The Postdoctoral Fellow will play a leadership role in the Aparicio lab, and will be reporting directly to Dr. Samuel Aparicio who is the primary investigator of the laboratory.

Work Performed

  • Management and supervision of trainees;
  • May be involved in recruitment and training of trainees;
  • Performing regular reviews of the relevant literature;
  • Planning and designing of experiments;
  • Analyzing, interpreting and compiling data in study reports, presenting results, and participating in the preparation of scientific manuscripts and grant application packages;
  • Updating Dr. Aparicio and the group on the status of projects during lab meetings, in email correspondence and phone conferences;
  • Managing projects with key academic and industry partners.

Minimum Qualifications

  • PhD degree in the computer science, bioinformatics or equivalent
  • At least 4 years experience in bioinformatics research
  • Experience in genomics and next-generation sequencing
  • Extensive knowledge of cellular and molecular biology, biochemistry and genetics
  • Experience with cancer research a plus
  • Proven ability to multi-task in a deadline oriented environment with minimal supervision
  • Effective oral and written communication, analytical, and interpersonal skills
  • Excellent organizational skill and ability to learn new skills quickly
  • Ability to work independently and within a team environment.
  • Accuracy and attention to detail required
  • Candidates should demonstrate the ability to work in a highly interdisciplinary environment.

Supervision Received 

  • Works independently under direction of PI, Dr. Samuel Aparicio
  • Opportunities to work collaboratively with Industry partners and other researchers at UBC and globally

Supervision Given

  • Assists and oversees research assistants and students as required
  • Assists and provides guidelines to other research members, as required

How to Apply

Exceptional candidates should submit a cover letter outlining your research interests and fit with the laboratory's research, curriculum vitae, and the names of three referees willing to provide letters of reference.

Due to the number of resumes we receive, we are unable to confirm receipt of submissions over the phone, or provide the status of the competition. Only shortlisted candidates will be contacted.

Equity and diversity are essential to academic excellence.  An open and diverse community fosters the inclusion of voices that have been underrepresented or discouraged.  We encourage applications from members of groups that have been marginalized on any grounds enumerated under the B.C. Human Rights Code, including sex, sexual orientation, gender identity or expression, racialization, disability, political belief, religion, marital or family status, age, and/or status as a First Nation, Metis, Inuit, or Indigenous person.

All qualified candidates are encouraged to apply; however Canadians and permanent residents will be given priority.

Email to apply: careersmolonc@bccrc.ca

Please put Bioinformatics PDF in the subject line.

Post-doctoral Fellow

Posting is available immediately for a postdoctoral fellow with experience in cancer bioinformatics to work on an exciting new program developing non-invasive patient genomic monitoring. The successful candidate will have a degree and postgraduate training in bioinformatics, computer science, statistics, or allied subjects, with experience applying modern computational genome analysis methods. The post holder will work jointly with the groups of Dr Samuel Aparicio (UBC and BC Cancer) &  Dr Andrew Roth (UBC Computer Science and BC Cancer) on developing and implementing methods for analysis of genomic sequencing information from plasma and other fluids to monitor tumour burden and provide information for screening of high risk patients. This will be in conjunction with existing work on single cell genome analysis pioneered by the Aparicio and Shah labs in the last 5 years.

How to Apply:
Please send the following documents to careersmolonc@bccrc.ca and put "Post-doctoral Fellow – Aparicio Lab, family name) in the subject line

  • Cover Letter
  • Resume
  • Transcript
  • Work Sample

Selected Publications

Clonal Decomposition and DNA Replication States Defined by Scaled Single-Cell Genome Sequencing.

Cell, 2019
Laks, Emma, McPherson, Andrew, Zahn, Hans, Lai, Daniel, Steif, Adi, Brimhall, Jazmine, Biele, Justina, Wang, Beixi, Masud, Tehmina, Ting, Jerome, Grewal, Diljot, Nielsen, Cydney, Leung, Samantha, Bojilova, Viktoria, Smith, Maia, Golovko, Oleg, Poon, Steven, Eirew, Peter, Kabeer, Farhia, Ruiz de Algara, Teresa, Lee, So Ra, Taghiyar, M Jafar, Huebner, Curtis, Ngo, Jessica, Chan, Tim, Vatrt-Watts, Spencer, Walters, Pascale, Abrar, Nafis, Chan, Sophia, Wiens, Matt, Martin, Lauren, Scott, R Wilder, Underhill, T Michael, Chavez, Elizabeth, Steidl, Christian, Da Costa, Daniel, Ma, Yussanne, Coope, Robin J N, Corbett, Richard, Pleasance, Stephen, Moore, Richard, Mungall, Andrew J, Mar, Colin, Cafferty, Fergus, Gelmon, Karen, Chia, Stephen, , , Marra, Marco A, Hansen, Carl, Shah, Sohrab P, Aparicio, Samuel

Dissociation of solid tumor tissues with cold active protease for single-cell RNA-seq minimizes conserved collagenase-associated stress responses.

Genome biology, 2019
O'Flanagan, Ciara H, Campbell, Kieran R, Zhang, Allen W, Kabeer, Farhia, Lim, Jamie L P, Biele, Justina, Eirew, Peter, Lai, Daniel, McPherson, Andrew, Kong, Esther, Bates, Cherie, Borkowski, Kelly, Wiens, Matt, Hewitson, Brittany, Hopkins, James, Pham, Jenifer, Ceglia, Nicholas, Moore, Richard, Mungall, Andrew J, McAlpine, Jessica N, , , Shah, Sohrab P, Aparicio, Samuel

CX-5461 is a DNA G-quadruplex stabilizer with selective lethality in BRCA1/2 deficient tumours.

Nature communications, 2017
Xu, Hong, Di Antonio, Marco, McKinney, Steven, Mathew, Veena, Ho, Brandon, O'Neil, Nigel J, Santos, Nancy Dos, Silvester, Jennifer, Wei, Vivien, Garcia, Jessica, Kabeer, Farhia, Lai, Daniel, Soriano, Priscilla, Banáth, Judit, Chiu, Derek S, Yap, Damian, Le, Daniel D, Ye, Frank B, Zhang, Anni, Thu, Kelsie, Soong, John, Lin, Shu-Chuan, Tsai, Angela Hsin Chin, Osako, Tomo, Algara, Teresa, Saunders, Darren N, Wong, Jason, Xian, Jian, Bally, Marcel B, Brenton, James D, Brown, Grant W, Shah, Sohrab P, Cescon, David, Mak, Tak W, Caldas, Carlos, Stirling, Peter C, Hieter, Phil, Balasubramanian, Shankar, Aparicio, Samuel

CLK-dependent exon recognition and conjoined gene formation revealed with a novel small molecule inhibitor.

Nature communications, 2017
Funnell, Tyler, Tasaki, Shinya, Oloumi, Arusha, Araki, Shinsuke, Kong, Esther, Yap, Damian, Nakayama, Yusuke, Hughes, Christopher S, Cheng, S-W Grace, Tozaki, Hirokazu, Iwatani, Misa, Sasaki, Satoshi, Ohashi, Tomohiro, Miyazaki, Tohru, Morishita, Nao, Morishita, Daisuke, Ogasawara-Shimizu, Mari, Ohori, Momoko, Nakao, Shoichi, Karashima, Masatoshi, Sano, Masaya, Murai, Aiko, Nomura, Toshiyuki, Uchiyama, Noriko, Kawamoto, Tomohiro, Hara, Ryujiro, Nakanishi, Osamu, Shumansky, Karey, Rosner, Jamie, Wan, Adrian, McKinney, Steven, Morin, Gregg B, Nakanishi, Atsushi, Shah, Sohrab, Toyoshiba, Hiroyoshi, Aparicio, Samuel

Divergent modes of clonal spread and intraperitoneal mixing in high-grade serous ovarian cancer.

Nature genetics, 2016
McPherson, Andrew, Roth, Andrew, Laks, Emma, Masud, Tehmina, Bashashati, Ali, Zhang, Allen W, Ha, Gavin, Biele, Justina, Yap, Damian, Wan, Adrian, Prentice, Leah M, Khattra, Jaswinder, Smith, Maia A, Nielsen, Cydney B, Mullaly, Sarah C, Kalloger, Steve, Karnezis, Anthony, Shumansky, Karey, Siu, Celia, Rosner, Jamie, Chan, Hector Li, Ho, Julie, Melnyk, Nataliya, Senz, Janine, Yang, Winnie, Moore, Richard, Mungall, Andrew J, Marra, Marco A, Bouchard-Côté, Alexandre, Gilks, C Blake, Huntsman, David G, McAlpine, Jessica N, Aparicio, Samuel, Shah, Sohrab P

The somatic mutation profiles of 2,433 breast cancers refines their genomic and transcriptomic landscapes.

Nature communications, 2016
Pereira, Bernard, Chin, Suet-Feung, Rueda, Oscar M, Vollan, Hans-Kristian Moen, Provenzano, Elena, Bardwell, Helen A, Pugh, Michelle, Jones, Linda, Russell, Roslin, Sammut, Stephen-John, Tsui, Dana W Y, Liu, Bin, Dawson, Sarah-Jane, Abraham, Jean, Northen, Helen, Peden, John F, Mukherjee, Abhik, Turashvili, Gulisa, Green, Andrew R, McKinney, Steve, Oloumi, Arusha, Shah, Sohrab, Rosenfeld, Nitzan, Murphy, Leigh, Bentley, David R, Ellis, Ian O, Purushotham, Arnie, Pinder, Sarah E, Børresen-Dale, Anne-Lise, Earl, Helena M, Pharoah, Paul D, Ross, Mark T, Aparicio, Samuel, Caldas, Carlos

The clonal and mutational evolution spectrum of primary triple-negative breast cancers.

Nature, 2012
Shah, Sohrab P, Roth, Andrew, Goya, Rodrigo, Oloumi, Arusha, Ha, Gavin, Zhao, Yongjun, Turashvili, Gulisa, Ding, Jiarui, Tse, Kane, Haffari, Gholamreza, Bashashati, Ali, Prentice, Leah M, Khattra, Jaswinder, Burleigh, Angela, Yap, Damian, Bernard, Virginie, McPherson, Andrew, Shumansky, Karey, Crisan, Anamaria, Giuliany, Ryan, Heravi-Moussavi, Alireza, Rosner, Jamie, Lai, Daniel, Birol, Inanc, Varhol, Richard, Tam, Angela, Dhalla, Noreen, Zeng, Thomas, Ma, Kevin, Chan, Simon K, Griffith, Malachi, Moradian, Annie, Cheng, S-W Grace, Morin, Gregg B, Watson, Peter, Gelmon, Karen, Chia, Stephen, Chin, Suet-Feung, Curtis, Christina, Rueda, Oscar M, Pharoah, Paul D, Damaraju, Sambasivarao, Mackey, John, Hoon, Kelly, Harkins, Timothy, Tadigotla, Vasisht, Sigaroudinia, Mahvash, Gascard, Philippe, Tlsty, Thea, Costello, Joseph F, Meyer, Irmtraud M, Eaves, Connie J, Wasserman, Wyeth W, Jones, Steven, Huntsman, David, Hirst, Martin, Caldas, Carlos, Marra, Marco A, Aparicio, Samuel

The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups.

Nature, 2012
Curtis, Christina, Shah, Sohrab P, Chin, Suet-Feung, Turashvili, Gulisa, Rueda, Oscar M, Dunning, Mark J, Speed, Doug, Lynch, Andy G, Samarajiwa, Shamith, Yuan, Yinyin, Gräf, Stefan, Ha, Gavin, Haffari, Gholamreza, Bashashati, Ali, Russell, Roslin, McKinney, Steven, , , Langerød, Anita, Green, Andrew, Provenzano, Elena, Wishart, Gordon, Pinder, Sarah, Watson, Peter, Markowetz, Florian, Murphy, Leigh, Ellis, Ian, Purushotham, Arnie, Børresen-Dale, Anne-Lise, Brenton, James D, Tavaré, Simon, Caldas, Carlos, Aparicio, Samuel

Projects

Tumour heterogeneity and clonal dynamics of breast cancer

Cancer is a dynamic disease, and as a result a single tumour mass may comprise a diverse collection cancer clones with distinct phenotypes, mutations or sensitivity to treatment. Integrating deep and single cell genomic and transcriptomic sequencing with statistical modeling of clonal fitness, our lab is developing methods to study and predict the clonal dynamics of cancer in PDX and cell models, under natural and selective pressures such as drug intervention or CRISPR knockout.

Methods for studying cancers at single cell resolution

Single cell sequencing technologies allow the study of phenomena such as tumour heterogeneity, clonal dynamics, tissue microenvironments as well as the identification of novel and intermediary cell types, which may not be easily resolved with bulk sequencing strategies. Our lab has developed methods for the surveying of single cell genomics, and integrates them with methods to study the epigenome and transcriptome at single cell resolution, as well as with imaging techniques for spatial context

Sponsors

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