Ph.D. Course Requirements and Example Program Schedule
The minimum curriculum for Ph.D. students consists of five Graduate Core Courses (BI 611 Advanced Genetics, BI 612 Graduate Biochemistry, BI 614 Graduate Molecular Biology, BI 615 Advanced Cell Biology, and BI 616 Graduate Bioinformatics), three additional Biology-approved Graduate Elective Courses (e.g., BI 500+, BI 800+), BI618 Scientific Proposal Writing & BI880 Responsible Conduct of Research (both beginning with students who entered into the program in 2012F)
Example of a Program for Ph.D. Students
Attendance at Departmental Colloquia is expected of all full-time students throughout their program participation.
Grad Core Biology (Genetics), BI 611 - two credits
Grad Core Biology (Biochemistry), BI 612 - two credits
Biology-approved Graduate Elective or Seminar - two or three credits
Lab Rotation 1
Lab Rotation 2
Grad Core Biology (Molecular Biology), BI 614 - two credits
Grad Core Biology (Cell Biology), BI 615 - two credits
Biology-approved Graduate Elective or Seminar - two or three credits
Lab Rotation 3
Grad Core Biology (Bioinformatics), BI 616 - two credits
Thesis Research Biology-approved Graduate Seminar - two credits
Grad Core Biology (RCR), BI880- two credits
Biology-approved Graduate Seminar - two credits
Grad Core Biology (Scientific Proposal Writing) BI618 - two credits
Ph.D. Candidacy Exam
Semester Six and afterward
Remaining Biology-approved Graduate Seminars
Optional additional courses
Completion of Ph.D. Dissertation
Public Presentation of Ph.D. Thesis
Defense of Ph.D. Thesis
Completion of Biology Core
It is generally expected that Ph.D. students will have completed their core courses by the end of the second year. However, a student's Ph.D. advisor may request a waiver under rare circumstances. For example, if another course is seen as critical for a student's preparation for the Comprehensive Exam, and taking it precludes a student from taking a core course, the Graduate Program Committee may approve the deferral of the core course to the third year. It is expected that the student will take the deferred core course at the earliest opportunity.
Academic Guidance Committee
Students entering in 2012F or after are assigned an Academic Guidance Committee to help guide in their course selections throughout their time in the program.
Overview of Multiple Ph.D. Committees
There are several committees that shepherd a Ph.D. student through the Biology Graduate Program. While the committees have different names to reflect their different functions, there is usually a substantial continuum of faculty membership. The committees are described below, in detail. For clarity, they are briefly summarized here in their order of appearance in each student’s training.
Ph.D. Candidacy Examination Committee
Three faculty, approved by the Graduate Program Director, who administers the candidacy examination.
Three or more faculty members (the student's PI and at least two other faculty members) who advise each student in the conduct of her/his thesis research. Students must have their first meeting before the end of the academic third year, as well as annual meetings until their defense. After each meeting a student must submit to the Department a completed and signed Thesis Guidance Committee Meeting form. If a student is not in compliance with the committee meeting requirements, the Department reserves the right to freeze summer funding until the student meets the above requirements. Missed payments will not be retroactively paid. Please note: An unsatisfactory progress report from the committee necessitates a follow up meeting within six months rather than the standard twelve month period. Two consecutive meetings with unsatisfactory progress can lead to the dismissal of a student from the Ph.D. program after a formal review of the situation by the GPD, the Department Chair, and the student's guidance committee. In this case, a student may write up and defend his/her research as a Masters thesis should a sufficient body of work exist.
If a student has not had their guidance meeting by the end of the summer, they will be removed from the program. The student has the ability to speak to the Graduate Program Director, Associate Chair or the Department Chair should there be a problem with the actions of the PI or other committee members, but it is up to the student to arrange these meetings in a timely fashion. Missing the deadlines due to getting a late start in scheduling is not an excuse.
Ph.D. Defense Committee
The committee is composed of five faculty (out of the five the chair as well as two other members must be from Boston College) before whom the Ph.D. candidate must defend her/his thesis in public and private sessions. The student's Thesis Advisor will serve as the Chair of the Committee.
*For continuity, the members of the Thesis Advisory Committee typically continue as members of each student's Ph.D. Defense Committee; however, substitutions are allowed.
To advance to candidacy for the doctoral degree, the student must pass a Ph.D. Candidacy Examination otherwise known as the Comprehensive Examination. A student who has passed the Ph.D. Candidacy Examination, but still must complete one or more seminar courses becomes a doctoral candidate only after completing the seminar course(s). Only students who have been admitted to candidacy are allowed to register for BI 999, Doctoral Continuation.
The examination for admission to candidacy for the Ph.D. will take place during May of the second year. Passing the exam on that occasion, or on the basis of a "re-take" examination held no later than end of December of the third year, will be required for continuation in the Ph.D. program.
This examination will be based on a written research proposal (approximately 15 pages in length. See example of format prepared by the candidate on an appropriate topic, which may be identical to the intended thesis research project of the candidate. Should the actual thesis topic not be chosen for the defense, the candidate should select three topics to present to an examination committee for approval prior to writing the proposal. The candidate will defend the proposal in an oral examination, administered by the faculty committee. Successful defense of the proposal will be required for the student to be admitted to candidacy for the Ph.D.
Potential topics for the written proposal will be submitted by each second-year Ph.D. student to a faculty committee, during the first week of March. The committee will inform each student of the topic of her/his proposal, based on the list submitted by the student, by March 14. Written proposals will be provided to the candidacy examination committee by April 14th or no later than one week before the date of the oral examination, and oral examinations will be completed no later than May 20.
On the basis of the written proposal presentation, the candidate's understanding of the proposed project and relevant background information, the Examination Committee will vote on whether the student is qualified to advance to Ph.D. candidacy. If a student passes the examination and has completed all other requirements for the Ph.D. degree, with the exception of the thesis and its defense, the student will be considered to have formally advanced to candidacy for the degree. If the student does not pass, he or she must re-defend the initial proposal or prepare, submit, and defend a new proposal, as the Examination Committee deems appropriate.
If a student does not pass the Ph.D. Candidacy Examination within the limits outlined above, she/he will be terminated in the Ph.D. program. The Examination Committee may, in such circumstances, recommend that the student be offered a transfer into the M.S. Program, with sufficient and stated time limits to allow the student to reasonably complete the requirements for that degree.
Schedule and Time Limitations
Students are required to join a permanent lab after their lab rotations are complete, usually at the end of their first year. Labs are joined with permission of the lab's P.I..
Students are expected to pass the Ph.D. Candidacy Examination within five consecutive semesters of entering the program.
For the purposes of this time limitation: Students whose native language is not English, and who need remedial study in English, may be granted a one or two semester extension for completion of the Ph.D. Candidacy Examination. Such extensions may be approved by the Department Chairperson, acting in consultation with the Graduate Program Director and the student’s research mentor.
Evaluation of Teaching/Research Performance
The Graduate Program Director will monitor and evaluate a student's teaching/research performance. The Graduate Program Director will forward any cases of sub-standard performance for review by the faculty. Sub-standard performance may result in the loss of a student's stipend.
All required work in any course must be completed by the date set for the course examination. A student who has not completed the research or written work for a course taken in the fall or spring semester or is absent from the course examination in either semester, may, with adequate reason and at the discretion of the instructor, receive a temporary grade of Incomplete (I). All such I grades will automatically be changed to F on March 1 for the fall, August 1 for the spring, and October 1 for the summer.
A J grade is recorded when the grade is deferred. A faculty member may only assign a grade of J for courses that continue beyond the normal semester period. Such courses may include Internship, Dissertation Direction, and Student Teaching.
In addition to the original members of Thesis Advisory Committee, who serve as formal thesis readers, at least two other faculty are added as additional examiners to form the Ph.D. Defense Committee. A maximum of two persons from outside the Biology Department may serve on this committee. All members must hold a faculty appointment and a Ph.D. or equivalent degree.
The dissertation shall be defended by the candidate in the public oral examination. A copy of the dissertation shall be distributed to each of the examiners at least 14 days prior to the defense.
To receive the Ph.D. degree, official approval of the written dissertation by the members of the Ph.D. Defense Committee is required, in addition to a vote of pass on the public presentation and defense. Committee members certify their acceptance of the written thesis by signing the title page of the dissertation and their vote on the defense by completing the appropriate forms. The student must file two signed copies of the approved dissertation in the Registrar’s Office, following the guidelines established by the Graduate School of Arts and Sciences.
Voting options, when voting is required, are pass or fail. Committees should strive in each case to reach an unanimous decision. However, if this is not possible, the rule shall be that if more than one member of any of the above committees votes fail, then the student will be considered to have failed to complete the requirement being addressed by the committee.
Requirement for Good Standing
In order to continue in the Biology Ph.D. program as well as receive financial funding from the Department and University, graduate students are required to remain in good standing. To be in good standing, a student must maintain a cumulative grade point average of a B or higher as the satisfactory standard of scholarship. Upon completion of a student’s first year, the student will be evaluated by the full faculty on their coursework, lab rotation work, and other aspects of participation within the department. If the faculty determine that a student is not meeting expectations, they have the option of either placing the student on a one-semester probation period or asking the student to withdraw from the program. If placed on a one-semester probation, the faculty will re-evaluate the student’s performance at the end of the Fall semester of their second year to determine whether the student should come off of probation or be asked to leave the program.
At the end of a student’s second year, the student must take and pass a qualifying exam as described in other departmental policies. If a student fails the qualifying exam, the student may retake the exam within six months of the last test date. If the student does not pass the exam on the second try, the student must either withdraw from the Ph.D. program and take a Masters (if there is sufficient work done to write a thesis) or withdraw from the program completely.
Subsequent to passing the Qualifying Exam, students must assemble a Thesis Guidance committee that meets at least annually to review the progress toward completion of a thesis project. The committee should report after each meeting whether or not the student is making satisfactory progress. If the committee determines that the student is not making satisfactory progress, a follow-up meeting will be held within six months. If progress is still not satisfactory at the follow-up meeting, an appropriate course of action will be taken by the committee, which could include termination in the Ph.D. program with the option of writing and defending a Masters thesis if a sufficient body of work exists to make this possible.
*(added 12/2008) Bioinformatics students may substitute required graduate seminar courses with non-seminar courses, with permission from the department. The purpose of this is to provide students with more opportunities to take quantitative courses in the CS or Math departments.
Note: Opportunities for cross-enrollment also exist within the Boston-Area Consortium (Boston University, Brandeis, and Tufts). Graduate students in Arts & Sciences are eligible to cross-register for one course per semester during the academic year (not including summer sessions). Cross Registration forms can be picked up at the Associate Dean's office in McGuinn 221.
(Previous amendments from Feb 2008)
1. Currently, biology Ph.D. students are required to take four core graduate courses (not including graduate bioinformatics): genetics, molecular biology, cell biology, and biochemistry. Because occasionally bioinformatics students enter with a predominantly computational/mathematical background, bioinformatics students with weaker biology training will have the option to take two of these courses at the undergraduate level instead, with department permission. Students with sufficient biology background are recommended to take the standard graduate core courses. Bioinformatics students must complete the four core courses, with the two potential substitutions, by the end of the second year.
2. In certain cases, a first year bioinformatics student may not have undergraduate experience suited to TAing a non-bioinformatics biology course. Such students will be given preference to TA one of: the intro bioinformatics courses (BI 420 and BI 616), Biostatistics (BI 330), Computational Foundations of Bioinformatics (BI 424), or Molecular Evolution (BI 561). Bioinformatics students beyond the first year will be expected to be competent to TA other biology courses.
3. Some entering bioinformatics graduate students have already taken courses equivalent to the graduate bioinformatics core course. In such cases, decided on a case-by-case basis, the student will be allowed to substitute an upper level Bioinformatics, CS, Math, or Statistics course.
4. Bioinformatics graduate students are allowed to substitute up to three of the five graduate biology elective (non-core) courses with upper level CS, Math, or Statistics courses.