Benjamin Good
Job Title
Assistant Professor
Employer
The Scripps Research Institute
Doctor of Philosophy in Bioinformatics (PhD)
Overview
The Doctor of Philosophy in Bioinformatics (PhD)is an interdisciplinary program that combines the application of computer technology to the management and analysis of biological data. The result is that computers are being used to organize data generated from experiments into databases, develop new algorithms and software, and use this software for the interpretation and analysis of the data into meaningful biological information. For the past ten years, our PhD program has been training students to organize, visualize, analyze and interpret biological data. Students have access to world renowned bioinformaticians at the University of British Columbia, Simon Fraser University and the BC Cancer Agency, and have exposure to the latest technologies to develop their skills.
Strategic Program Objectives:
- To build on British Columbia's reputation and excellence in bioinformatics.
- To integrate bioinformatics into basic biology to further current research excellence in other life science sectors of the province.
- To foster collaborations locally, nationally and internationally.
What makes the program unique?
The Bioinformatics PhD program integrates academic centres in computer science, statistics, molecular biology and biotechnology, with translational groups at hospitals and at the clinical interface. The innovative partnership among the University of British Columbia, Simon Fraser University and the BC Cancer Agency allows students' access to experts in the field of bioinformatics, and exposure to original research and opportunities to complete significant practical work on real bioinformatics problems. Internships allow student mobility between Canadian and international universities, institutions and industries to further enhance collaborations among Canadian high-technology research groups in both the private and public sectors.
Program Structure
The major requirement for the Ph.D. is completion of a research dissertation meeting the Faculty of Graduate and Postdoctoral Studies requirements. There are no specific course requirements for the Ph.D. degree program apart from the dissertation. However, the student's Ph.D. dissertation committee has the prerogative to impose course requirements where course deficiencies are perceived.
All doctoral students are required to successfully complete a comprehensive examination, which consists of an oral and written component within the first 36 months of study. All students are required to present a Bioinformatics graduate program seminar upon completion of their program, and before their dissertation defense.
A student's committee for the doctorate will consist of the dissertation supervisor and three others. The supervisor and at least one other member must be members of the Bioinformatics graduate program.
Quick Facts
Program Enquiries
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Contact the program
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Admission Information & Requirements
Program Instructions
Students must secure a supervisor before they can be admitted into the program. As well, they must meet the minimum admission requirements set out by Graduate and Post-doctoral Studies at UBC.
1) Check Eligibility
Minimum Academic Requirements
The Faculty of Graduate and Postdoctoral Studies establishes the minimum admission requirements common to all applicants, usually a minimum overall average in the B+ range (76% at UBC). The graduate program that you are applying to may have additional requirements. Please review the specific requirements for applicants with credentials from institutions in:
Each program may set higher academic minimum requirements. Please review the program website carefully to understand the program requirements. Meeting the minimum requirements does not guarantee admission as it is a competitive process.
English Language Test
Applicants from a university outside Canada in which English is not the primary language of instruction must provide results of an English language proficiency examination as part of their application. Tests must have been taken within the last 24 months at the time of submission of your application.
Minimum requirements for the two most common English language proficiency tests to apply to this program are listed below:
TOEFL: Test of English as a Foreign Language - internet-based
Overall score requirement: 100
Reading
22
Writing
21
Speaking
21
Listening
22
IELTS: International English Language Testing System
Overall score requirement: 7.0
Reading
6.0
Writing
6.0
Speaking
6.0
Listening
6.0
Other Test Scores
Some programs require additional test scores such as the Graduate Record Examination (GRE) or the Graduate Management Test (GMAT). The requirements for this program are:
The GRE is not required.
Prior degree, course and other requirements
Prior Degree Requirements
Students admitted to the Ph.D. degree program normally possess an M.Sc. degree in Bioinformatics or a related area, with clear evidence of research ability or potential.
Document Requirements
CV, Official transcripts, three letters of reference, Official English exam scores (if required)
2) Meet Deadlines
September 2023 Intake
Application Open Date
30 March 2022Canadian Applicants
Application Deadline: 14 January 2023
Transcript Deadline: 14 January 2023
Referee Deadline: 21 January 2023
International Applicants
Application Deadline: 14 January 2023
Transcript Deadline: 14 January 2023
Referee Deadline: 21 January 2023
January 2024 Intake
Application Open Date
28 February 2023Canadian Applicants
Application Deadline: 31 August 2023
Transcript Deadline: 31 August 2023
Referee Deadline: 04 September 2023
International Applicants
Application Deadline: 31 August 2023
Transcript Deadline: 31 August 2023
Referee Deadline: 04 September 2023
May 2024 Intake
Application Open Date
28 February 2023Canadian Applicants
Application Deadline: 01 December 2023
Transcript Deadline: 01 December 2023
Referee Deadline: 09 December 2023
International Applicants
Application Deadline: 01 December 2023
Transcript Deadline: 01 December 2023
Referee Deadline: 09 December 2023
September 2024 Intake
Application Open Date
31 March 2023Canadian Applicants
Application Deadline: 15 January 2024
Transcript Deadline: 15 January 2024
Referee Deadline: 22 January 2024
International Applicants
Application Deadline: 15 January 2024
Transcript Deadline: 15 January 2024
Referee Deadline: 22 January 2024
3) Prepare Application
Transcripts
All applicants have to submit transcripts from all past post-secondary study. Document submission requirements depend on whether your institution of study is within Canada or outside of Canada.
Letters of Reference
A minimum of three references are required for application to graduate programs at UBC. References should be requested from individuals who are prepared to provide a report on your academic ability and qualifications.
Statement of Interest
Many programs require a statement of interest, sometimes called a "statement of intent", "description of research interests" or something similar.
Thesis Supervision
Students in research-based programs usually require a faculty member to function as their supervisor. Please follow the instructions provided by each program whether applicants should contact faculty members.
Instructions regarding thesis supervisor contact for Doctor of Philosophy in Bioinformatics (PhD)
All applicants need firm commitment from a supervisor prior to applying.
Citizenship Verification
Permanent Residents of Canada must provide a clear photocopy of both sides of the Permanent Resident card.
4) Apply Online
All applicants must complete an online application form and pay the application fee to be considered for admission to UBC.
Research Information
Program Components
Students who secure an NSERC-CREATE scholarship will undertake a 3-4 month internship that may be local, within Canada or at an international University or Institution.
Research Facilities
Bioinformatics faculty are spread throughout the UBC campus, as well as off-campus at the BC Cancer Research Centre or hospital research labs and Institutions.
Tuition & Financial Support
Tuition
| Fees | Canadian Citizen / Permanent Resident / Refugee / Diplomat | International |
|---|---|---|
| Application Fee | $112.00 | $168.25 |
| Tuition * | ||
| Installments per year | 3 | 3 |
| Tuition per installment | $1,802.52 | $3,166.73 |
| Tuition per year (plus annual increase, usually 2%-5%) | $5,407.56 | $9,500.19 |
| Int. Tuition Award (ITA) per year (if eligible) | $3,200.00 (-) | |
| Other Fees and Costs | ||
| Student Fees (yearly) | $1,081.64 (approx.) | |
| Costs of living (yearly) | starting at $18,517.90 (check cost calculator) | |
* Regular, full-time tuition. For on-leave, extension, continuing or part time (if applicable) fees see UBC Calendar.
All fees for the year are subject to adjustment and UBC reserves the right to change any fees without notice at any time, including tuition and student fees. Tuition fees are reviewed annually by the UBC Board of Governors. In recent years, tuition increases have been 2% for continuing domestic students and between 2% and 5% for continuing international students. New students may see higher increases in tuition. Admitted students who defer their admission are subject to the potentially higher tuition fees for incoming students effective at the later program start date. In case of a discrepancy between this webpage and the UBC Calendar, the UBC Calendar entry will be held to be correct.
All fees for the year are subject to adjustment and UBC reserves the right to change any fees without notice at any time, including tuition and student fees. Tuition fees are reviewed annually by the UBC Board of Governors. In recent years, tuition increases have been 2% for continuing domestic students and between 2% and 5% for continuing international students. New students may see higher increases in tuition. Admitted students who defer their admission are subject to the potentially higher tuition fees for incoming students effective at the later program start date. In case of a discrepancy between this webpage and the UBC Calendar, the UBC Calendar entry will be held to be correct.
Financial Support
Applicants to UBC have access to a variety of funding options, including merit-based (i.e. based on your academic performance) and need-based (i.e. based on your financial situation) opportunities.
Program Funding Packages
All students accepted by a faculty member and enrolled in the program will be paid a minimum stipend of $24,300/year.
Average Funding
Based on the criteria outlined below, 30 students within this program were included in this study because they received funding through UBC in the form of teaching, research/academic assistantships or internal or external awards averaging $25,511.
- 3 students received Teaching Assistantships. Average TA funding based on 3 students was $13,120.
- 15 students received Research/Academic Assistantships. Average RA/AA funding based on 15 students was $21,666.
- 30 students received internal awards. Average internal award funding based on 30 students was $10,077.
- 5 students received external awards. Average external award funding based on 5 students was $24,067.
Study Period: Sep 2020 to Aug 2021 - average funding for full-time PhD students enrolled in three terms per academic year in this program across years 1-4, the period covered by UBC's Minimum Funding Guarantee. Averages might mask variability in sources and amounts of funding received by individual students. Beyond year 4, funding packages become even more individualized.
Review methodology
Review methodology
Scholarships & awards (merit-based funding)
All applicants are encouraged to review the awards listing to identify potential opportunities to fund their graduate education. The database lists merit-based scholarships and awards and allows for filtering by various criteria, such as domestic vs. international or degree level.
Teaching Assistantships (GTA)
Graduate programs may have Teaching Assistantships available for registered full-time graduate students. Full teaching assistantships involve 12 hours work per week in preparation, lecturing, or laboratory instruction although many graduate programs offer partial TA appointments at less than 12 hours per week. Teaching assistantship rates are set by collective bargaining between the University and the Teaching Assistants' Union.
Research Assistantships (GRA)
Many professors are able to provide Research Assistantships (GRA) from their research grants to support full-time graduate students studying under their direction. The duties usually constitute part of the student's graduate degree requirements. A Graduate Research Assistantship is a form of financial support for a period of graduate study and is, therefore, not covered by a collective agreement. Unlike other forms of fellowship support for graduate students, the amount of a GRA is neither fixed nor subject to a university-wide formula. The stipend amounts vary widely, and are dependent on the field of study and the type of research grant from which the assistantship is being funded. Some research projects also require targeted research assistance and thus hire graduate students on an hourly basis.
Financial aid (need-based funding)
Canadian and US applicants may qualify for governmental loans to finance their studies. Please review eligibility and types of loans.
All students may be able to access private sector or bank loans.
Foreign government scholarships
Many foreign governments provide support to their citizens in pursuing education abroad. International applicants should check the various governmental resources in their home country, such as the Department of Education, for available scholarships.
Working while studying
The possibility to pursue work to supplement income may depend on the demands the program has on students. It should be carefully weighed if work leads to prolonged program durations or whether work placements can be meaningfully embedded into a program.
International students enrolled as full-time students with a valid study permit can work on campus for unlimited hours and work off-campus for no more than 20 hours a week.
A good starting point to explore student jobs is the UBC Work Learn program or a Co-Op placement.
Tax credits and RRSP withdrawals
Students with taxable income in Canada may be able to claim federal or provincial tax credits.
Canadian residents with RRSP accounts may be able to use the Lifelong Learning Plan (LLP) which allows students to withdraw amounts from their registered retirement savings plan (RRSPs) to finance full-time training or education for themselves or their partner.
Please review Filing taxes in Canada on the student services website for more information.
Cost Calculator
Applicants have access to the cost calculator to develop a financial plan that takes into account various income sources and expenses.
Career Outcomes
12 students graduated between 2005 and 2013. Of these, career information was obtained for 12 alumni (based on research conducted between Feb-May 2016):
RI (Research-Intensive) Faculty: typically tenure-track faculty positions (equivalent of the North American Assistant Professor, Associate Professor, and Professor positions) in PhD-granting institutions
TI (Teaching-Intensive) Faculty: typically full-time faculty positions in colleges or in institutions not granting PhDs, and teaching faculty at PhD-granting institutions
Term Faculty: faculty in term appointments (e.g. sessional lecturers, visiting assistant professors, etc.)
Sample Employers in Higher Education
McGill UniversityStanford university
University of California - Santa Cruz
Harvard University
Simon Fraser University
University of California - Los Angeles
Sample Employers Outside Higher Education
Princess Margaret Cancer CentreVancouver Prostate Centre
Centre for Addiction and Mental Health
Dana Farber Cancer Institute
Omicia
Scripps Research Institute
Sample Job Titles Outside Higher Education
Postdoctoral Fellow (3)Independent Scientist
Senior Director of Bioinformatics
Assistant Professor
PhD Career Outcome Survey
You may view the full report on career outcomes of UBC PhD graduates on outcomes.grad.ubc.ca.Disclaimer
These data represent historical employment information and do not guarantee future employment prospects for graduates of this program. They are for informational purposes only. Data were collected through either alumni surveys or internet research.Alumni on Success
Enrolment, Duration & Other Stats
These statistics show data for the Doctor of Philosophy in Bioinformatics (PhD). Data are separated for each degree program combination. You may view data for other degree options in the respective program profile.
Enrolment Data
| 2021 | 2020 | 2019 | 2018 | 2017 | |
|---|---|---|---|---|---|
| Applications | 32 | 32 | 23 | 22 | 24 |
| Offers | 10 | 9 | 4 | 9 | 9 |
| New registrations | 7 | 8 | 4 | 5 | 9 |
| Total enrolment | 52 | 48 | 43 | 41 | 37 |
Completion Rates & Times
This program has a graduation rate of 75% based on 12 students admitted between 2008 - 2011. Based on 8 graduations between 2017 - 2020 the minimum time to completion is 4.83 years and the maximum time is 8.66 years with an average of 6.14 years of study. All calculations exclude leave times.
Disclaimer
Admissions data refer to all UBC Vancouver applications, offers, new registrants for each year, May to April [data updated: 7 April 2022]. Enrolment data are based on March 1 snapshots. Program completion data are only provided for datasets comprised of more than 4 individuals. Rates and times of completion depend on a number of variables (e.g. curriculum requirements, student funding), some of which may have changed in recent years for some programs [data updated: 19 October 2021].
Research Supervisors
Thesis Supervision
Students in research-based programs usually require a faculty member to function as their supervisor. Please follow the instructions provided by each program whether applicants should contact faculty members.
Instructions regarding thesis supervisor contact for Doctor of Philosophy in Bioinformatics (PhD)
All applicants need firm commitment from a supervisor prior to applying.
Advice and insights from UBC Faculty on reaching out to supervisors
These videos contain some general advice from faculty across UBC on finding and reaching out to a supervisor. They are not program specific.
This list shows faculty members with full supervisory privileges who are affiliated with this program. It is not a comprehensive list of all potential supervisors as faculty from other programs or faculty members without full supervisory privileges can request approvals to supervise graduate students in this program.
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Accili, Eric (molecular mechanisms responsible for cellular pacemaking behavior )
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Adams, Keith (Molecular evolution, genome evolution, and gene expression)
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Aparicio, Samuel (Breast cancer, genome sequencing )
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Bashashati Saghezchi, Ali (Bioinformatics; Medical and biomedical engineering; Artificial Intelligence; Computational Pathology; Cancer Genomics; Computational Biology; Digital Pathology; Image Processing; Machine Learning; Ovarian Cancer; Signal Processing; Multi-modal Learning)
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Birol, Inanc (bioinformatics, computational biology, genomics, transcriptome analysis, next generation sequencing, cancer, Bioinformatics, sequence assembly, transcriptomics, gene regulation networks, high throughput informatics for big data)
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Bohlmann, Joerg (plant biochemistry, forestry genomics, forest health, conifers, poplar, bark beetle, mountain pine beetle, natural products, secondary metabolites, terpenes, floral scent, grapevine, Conifer genomics Forest health genomics Mountain pine beetle, fungus, pine interactions and genomics Chemical ecology of conifer, insect interactions)
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Bouchard-Cote, Alexandre (machine/statistical learning; mathematical side of the subject as well as in applications in linguistics and biology)
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Brooks-Wilson, Angela (Bioinformatics; Clinical oncology; Genetic medicine; Genomics; cancer families; cancer genetics; genetic susceptibility; human genetics; longevity; Super seniors)
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Brown, Carolyn Janet (Bioinformatics; Clinical oncology; Genetic medicine; Genomics; Health counselling; Applied Genetics; Chromosomes: Structure / Organization; DNA methylation; Epigenetic control of gene expression; Gene Regulation and Expression; Genes escaping X-chromosome inactivation; Long non-coding RNAs; X-chromosome inactivation; XIST RNA)
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Carlsten, Christopher (Environment and Respiratory Diseases)
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Cembrowski, Mark Steven (Molecular neuroscience; Mathematical modelling and simulation; Mechanisms of memory in the brain; Anxiety; Big Data; Bioinformatics; Cell types; Computation; CRISPR-Cas9; Fear; Genetics; modeling; Neural circuits; neuroscience; Neuroscience of memory; PTSD; RNAseq)
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Cherkasov, Artem (Drug design; Bioinformatics, Molecular modeling; Proteomics; Artificial intelligence; Antibiotics )
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Cohen Freue, Gabriela (statistical genomics (focus in proteomics), robust estimation and inference, linear models with endogeneity )
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Collins, Colin (translational genomics where mathematics, genomics, computer science, and clinical science converge in diagnostics and therapeutics)
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Condon, Anne (Algorithms; Molecular Programming)
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Coombs, Daniel (Mathematical biology; Cellular immunology; Complex physical systems; Epidemiology (except nutritional and veterinary epidemiology); Cell Signaling and Infectious and Immune Diseases; Cell biophysics; Disease models; Epidemiology; Immune cell signalling; Mathematics)
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Daley, Denise (Bioinformatics; Asthma; Complex Trait Genetics; Epigenetics; gene-gene and gene-environment interactions; Genetic Diseases; genetic epidemiology; Genetics of Aging; statistical genetics; Susceptibility Genes)
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Dao Duc, Khanh (Genomics; Mathematics and statistics; combine mathematical,computational and statistical tools to study fundamental biological processes; regulation and determinants of gene expression and translation)
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de Boer, Carl (Gene regulation)
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Dennis, Jessica (Bioinformatics; Genetic medicine; Administrative health data; Complex Trait Genetics; Electronic health records; Epidemiology; genetic epidemiology; Genetics of Neurological and Psychiatric Diseases; Machine Learning; Mental Health and Psychopathology in Children and Youth; Precision Health; statistical genetics)
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Ding, Jiarui (Bioinformatics; Basic medicine and life sciences; Computational Biology; Machine Learning; Probabilistic Deep Learning; single-cell genomics; visualization; Cancer biology; Computational Immunology; Food Allergy; neuroscience)
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Eaves, Constance Jean (Normal and leukemic stem cells, normal and malignant breast stem cells)
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Edelstein-Keshet, Leah (Bioinformatics; Mathematics and statistics; Medical and biomedical engineering; Cell signaling; Cell Signaling and Cancer; cell polarity, cell migration, developmental and cellular biology; Differential Equation; Mathematics; Modelization and Simulation; Rho GTPases; swarming and aggregation)
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Finlay, B Brett (Infectious agents, bacteria, microbial infections and how humans react to it)
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Frangou, Sophia (the study of the human brain in health and disease)
Pages
Doctoral Citations
A doctoral citation summarizes the nature of the independent research, provides a high-level overview of the study, states the significance of the work and says who will benefit from the findings in clear, non-specialized language, so that members of a lay audience will understand it.
| Year | Citation |
|---|---|
| 2023 | Dr. Nip developed computational solutions for sequence assembly and visualization for RNA-sequencing data. His research presents fast and memory-efficient methods to study RNA in cells. These contributions lay the groundwork to advance our understanding of biology and diseases. |
| 2023 | Dr. Morova's research presents a novel computational framework to study the impact of non-coding mutations on the development of prostate cancer. By using advanced functional genomics techniques, he worked to identify key mutations that affect the growth of the disease, which provided useful insight into the study of prostate cancer genetics. |
| 2022 | Dr. Ton explored the inhibition of challenging drug targets in prostate cancer and COVID-19. He deployed innovative computer-aided drug design methodologies to access a wider range of therapeutic opportunities against the two diseases. His research provides the framework for the development of novel anti-cancer and antiviral drugs. |
| 2022 | Dr. Novakovskiy advanced our understanding of genome regulation by improving stem cell differentiation protocols and designing inherently interpretable deep learning methods. His bioinformatics advances will help achieve cell therapies for diabetes patients. |
| 2022 | Dr. Islam studied epigenetic alterations associated with a subset of human lymphoid leukemias, which are the cancer of white blood cells. He identified key mechanisms for enhancer activation driving the oncogenic transcriptional program in those leukemias that might help to develop potential targeted anti-leukemic therapeutics. |
| 2022 | Dr. Morgan-Lang charted the global distribution of microorganisms that cycle methane with software he developed for classifying proteins and inferring metabolic diversity of microbial communities. By linking metabolic function to organisms, these computational tools will help us monitor ecosystems as they respond to a changing planet. |
| 2022 | Dr. Gagalova studies the genomes of conifers, conifer insect pest and cannabis to find unique markers of evolution. This research looks for genes and features in the genomes to make possible the feature applied research. |
| 2022 | Dr. Baghela used statistical learning methods to identify distinct gene expression patterns in early sepsis patients that predict impending disease severity. He indicates these patterns can be rapidly measured in patient blood at hospital admission, providing clinicians with an accurate and early means to predict specific patient outcomes. |
| 2022 | Dr. Yang developed novel bioinformatic methods to characterize, model, and simulate nucleotide sequences via descriptive and predictive data analytics. The software and pipelines she developed improved the current understanding of long-read sequencing data, leveraged short-read sequencing information, and facilitated relevant algorithm development. |
| 2021 | There are many who believe that genes commonly code for more than one functional product, through a process called alternative splicing. Dr. Bhuiyan studied the evidence for this claim, and showed that - despite what we learn in our textbooks - alternative splicing is not as common as we thought. |
Pages
Sample Thesis Submissions
Further Information
Specialization
Bioinformatics combines computational and biological disciplines.
Program Website
Faculty Overview
Academic Unit
Program Identifier
VGDPHD-CS
Classification
September 2023 Intake
Application Open Date
30 March 2022 Canadian Applicant Deadline
14 January 2023 International Applicant Deadline
14 January 2023 January 2024 Intake
Application Open Date
28 February 2023 Canadian Applicant Deadline
31 August 2023 International Applicant Deadline
31 August 2023 May 2024 Intake
Application Open Date
28 February 2023 Canadian Applicant Deadline
01 December 2023 International Applicant Deadline
01 December 2023 September 2024 Intake
Application Open Date
31 March 2023 Canadian Applicant Deadline
15 January 2024 International Applicant Deadline
15 January 2024 Program Enquiries
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Contact the program
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