Overview
The Genetics and Developmental Biology area of concentration (GDB AoC) provides students with fundamental interdisciplinary training in modern molecular genetics and developmental biology, emphasizing cellular and molecular aspects as well as tissue interactions. Areas of research of varied including the identification of genes and regulatory regions responsible for disease, many aspects of RNA processing, molecular mechanisms of aging, signal transduction pathways, microbial pathogenesis, developmental neurobiology, cell differentiation, musculoskeletal development, morphogenesis and pattern formation, reproductive biology and endocrinology.
Faculty members are from several basic science and clinical departments across UCONN Health and JAX GM. They utilize a wide range of model systems including yeast, parasites, worms, fruit flies, zebrafish, mice, and humans. Students are encouraged to obtain in-depth training in molecular genetics and developmental biology as well as develop computational skills for the analysis of large biological datasets. Students have access to the latest sequencing, microfluidic, and imaging equipment enabling cutting edge multimodal research. The GDB AoC prepares students to compete for job opportunities in traditional academic laboratories, biotech/pharma industry, consulting, and scientific writing.
Note: Any questions not answered by this web page should be directed to the GDB AoC Director or pursued via the UConn Health Graduate School Registrar’s Office or the Associate Dean of the Graduate School.
Selection of the GDB AoC: Major Advisor and the Advisory (Thesis) Committee
Upon entering the Biomedical Sciences (BMS) Ph.D. program, a student will be assigned an advisory committee to assist in the selection of suitable courses and rotation laboratories. At the end of the first year of study, students will formally select a major advisor who will be responsible for both the course work and research components of the student’s doctoral career (student will complete Change of Advisor (COA) Part 1 (send to degreeaudit@uconn.edu AND phdbiomed@uchc.edu) and COA Part 2 (send to phdbiomed). If the major advisor is or becomes an active member of the Genetics and Developmental Biology area of concentration (GDB AoC), the student may choose to enter GDB AoC. The major advisor will work with the student to formulate an advisory committee. This committee will comprise the major advisor plus at least two other faculty members of the GDB AoC, including at least one faculty member on the GDB AoC executive committee. Together with the major advisor, the committee will monitor the student’s progress, help organize a Plan of Study (i.e., select courses to be taken) and serve in a general advisory capacity. This committee will be expanded to five members to administer the preliminary (general) examination. After completion of the preliminary examination, the advisory committee will serve as a Ph.D. thesis advisory committee, meeting with the student twice each year: once as part of the GDB Research-in-Progress series, and once approximately half a year later. All five faculty present at the prelim committee are often included in student’s committee that oversee student’s progress. Additional advisors may be members of another UConn Health area of concentration, or even of another program within the UConn graduate faculty. In some cases, an external associate advisor – from the faculty of another university, for example – may be added to the committee if s/he is considered to be an expert in the area of the student’s dissertation research. In such a case, the student’s major advisor must write a letter to the Associate Dean of the Graduate School requesting such status for the external advisor, including the individual’s curriculum vitae and detailing the benefit of adding the external advisor.
Plan of Study
With the guidance of the major advisor and the advisory committee, the student will develop an individualized schedule of courses toward the degree. This must be submitted as a formal Plan of Study after students have taken 18 credits in the program. It must be approved by the Graduate School prior to taking the General Examination before the end of the second year of graduate study. The plan consists of a list and sequence of courses that the student needs to complete as part of his/her Ph.D. program. The full transcript of Ph.D. course work will consist of 45 credit hours beyond the B.S. degree, or 24 credit hours beyond the MS degree. Students have to have at least 30 credits of content coursework (didactic coursework, lab rotations, independent study, journal clubs, a course in Public Health or Clinical Translational Research) beyond B.S. on the PhD plan of study. Doctoral Research (Grad 6950) does not count toward the 30 credits. The student needs to have at least 15 Doctoral Research credits. The student’s plan of study should include courses offered at UConn Health or other UConn campuses, preferably from the graduate catalog, but not excluding undergraduate courses in topics that are crucial to the overall Plan of Study or research aims of the student. Detailed information regarding the Ph.D. Plan of Study is outlined in the UConn Graduate Catalog. In general, the student will take formal course work during only the first two years. However, each student is required to register for the Genetics and Developmental Biology Journal Club every semester beyond the first year.
An example plan for the first year is outlined below:
Year 1: Fall Semester
MEDS 6448. Foundations of Biomedical Science I, 4 credits
MEDS 6503. First Year Graduate Experience in Biomedical Science, 2 credits
Year 1: Spring Semester
MEDS 6449. Foundations of Biomedical Science II, 4 credits
MEDS 5369. Advanced Genetics and Mol. Bio., 3 credits*
MEDS 5322. Developmental Biology, 2 credits*
MEDS 5310. Responsible Conduct in Research, 1 credit
MEDS 5420. Molecular Genomics Practicum, 3 credits
MEDS 6503. First Year Graduate Experience in Biomedical Science, 2 credits
To remain eligible for continued assistantship support, second year students must complete at least 6 credits of regularly-graded courses per year. An example plan of study for the second year is presented below.
Year 2: Fall Semester
MEDS 5309. Molecular Basis of Disease, 2 credits
MEDS 6504. Genetics of Model Organisms, 3 credits
MEDS 5495. Independent study, 2 credits
MEDS 5323. GDB Journal Club, 1 credit
Year 2: Spring Semester
MEDS 5323. GDB Journal Club, 1 credit
Electives
* pending enrollment
Courses Required of all Biomedical Science Students
These courses are required for graduation and must be listed on the Plan of Study:
MEDS 6448. Foundations of Biomedical Science I, 4 credits
MEDS 5310. Responsible Conduct in Research – spring of the first year, 1 credit
MEDS 6501. Communications for Biomedical Scientists – fall of the second year, 1 credit (Required starting with the incoming class of Fall 2020)
MEDS 6502. Experimental Design, Rigor and Biostatistics -fall of the second year, 1 credit (Required starting with the incoming class of Fall 2020)
Electives
Electives may be taken from any of the UConn course offerings. The following is a list of some of the available elective courses:
MEDS 6504. Genetics of Model Organisms, 3 credits
MEDS 5322. Developmental Biology, 2 credits
MEDS 5369. Advanced Genetics and Mol. Bio., 3 credits
MEDS 5309. Molecular Basis of Disease, 2 credits
MEDS 5418. Stem Cells and Regenerative Biology, 3 credits
MEDS 5351. Biochemistry II, 3 credits
The major focus of the third and later years of graduate study will be on the completion of the thesis.
* pending enrollment
Laboratory Rotations/Independent Studies
Rotations are designed to allow the student to get a detailed exposure to the research interests of different laboratories before selecting a major advisor under whom the student will do his/her dissertation research. Students should have frank discussions with their potential advisor about funding availability, long term projects, and general expectations of the laboratory before joining as this is a long-term commitment for both parties.
GDB Journal Club
The GDB AoC prides itself on a student-centered format for the weekly Journal Club, with active participation by all members of the group. The GDB JC meets Mondays at 12 noon during the academic year. Each student who is a member of the AoC will be scheduled for one journal club presentation. The following guidelines have been in effect for the past several years.
Guidelines on good journal club meetings, and grading:
Attendance will be graded on an individual basis and will count for 1/3 of each student’s grade. Attendance will also include attendance to Tuesdays’ and Thursdays’ seminars, which will be monitored by sign up sheets. Excuses related to scientific meetings, exams, or illness will be allowed. Excuses related to daily personal life or experimental schedules will not. If you have a special case let the course faculty know ahead of time.
Participation and Presentation will be graded on a class-wide/team basis. The presenter is not assigned an individual grade for his/her performance. Again, the goal is to encourage universal participation and interest in a discussion of the chosen paper and topic. We need to make good use of the full hour. The same cumulative letter grade for these aspects of the meeting is awarded to all students attending, and the score comprises 2/3 of each person’s individual grade (the other third depending on punctuality and attendance).
Selecting a paper outside your expertise will enhance both your learning experience and the amount and depth of discussion at the meeting. Please select from outside your area of current research. The presenter may actually clarify his/her own understanding by querying or learning from the audience, and all in the group will benefit from good Q/A stimulated by a joint exploration of a novel topic. Keep in mind, also, that flawed papers are good fodder for critique and constructive discussion by our students. Finding a perfectly crafted paper will not necessarily generate a good discussion. Finding a paper that addresses an important topic and then contrasting its strengths, weaknesses – while proposing possible solutions to the problems in the work – is often the best recipe for an A+ grade on the meeting. The faculty will have ideas for suggested papers if you have trouble finding one in your own reading, but we strongly encourage you to explore independently in making your selection.
A crucial job for the presenter is to ensure high-quality visuals during the discussion. If a paper’s PDF file contains reduced or compressed images that do not project well, be certain to acquire the high-resolution figures from the website of the journal. Please also invest at least 5-10 minutes of your presentation to background material that frames the significance of the questions being addressed in the chosen paper. Do not forget that the opening of your presentation is a great time to elicit questions or comments from the audience, sounding out the amount of background knowledge that your peers have of the chosen topic. Budget your time – perhaps focusing on only a subset of the data in a long paper – and manage the conversation (if necessary) so that discussion of the results and conclusions of the paper will be completed by 1 p.m. There is no extra credit for overly long meetings.
Remember, the attending faculty member will be looking for everyone to participate from the audience. If all members of the group have not offered at least some question or comment during discussion by the middle of the semester, the participation grade (no matter how good the discussion among other participants) for the entire class will start to drop. It is not hard to keep the team participation grade high, as long as each member of the group is conscious of his/her need to contribute regularly to the discussion.
GDB Research-in-Progress Meetings
Students in the GDB AoC are required to attend and present in the weekly Research-in Progress meetings, held each Tuesday at 12 noon during the academic year. Each student who is a member of the AoC will be scheduled for one RIP seminar presentation per academic year. The student’s major advisor and advisory (thesis) committee will be scheduled to attend the talk, and a private meeting of the student and her/his committee should follow the presentation. At least one committee meeting must be held each calendar year. Other meetings can be scheduled at the discretion of the student, advisor, or committee andnot be associated with the RIP seminar series.
GDB Seminar Series and Department Retreat
The GDB Department conducts an invited seminar series, meeting every second Thursday at 12 noon during the academic year (https://health.uconn.edu/genetics/upcoming-seminars/ ). Each student who is a member of the GDB AoC is required to attend the seminars. Following each Thursday talk, a group of students will host the speaker for lunch, with time for informal discussions. Any student who recommends the invitation of a speaker in the series will also be welcomed at dinner with the speaker and other hosting faculty.
Each winter, the GDB Department holds an off-site retreat, with an agenda including a department overview presentation by the department chair, one seminar by a faculty member of the department, one seminar by a departmental student, and one seminar by an affiliated/joint faculty. Each year, a poster session has included presentations by students in GDB and other departments whose advisors are members of the GDB AoC. All active members of the GDB AoC faculty are invited to attend the event. Attendance and presentation of a poster or talk is mandatory for every student in the AoC (second year and later students).
Summary of the Plan of Study
As outlined above, there are three ways to earn the 44 credits required for a Ph.D.: Traditional courses, journal clubs and lab rotations/independent studies/graduate research. Traditional courses (i.e., not including journal club, lab rotation/research) should make up 15 credit hours of the 44 total. GDB journal club will typically comprise at least 8 credit hours. Fifteen credit hours must be of GRAD 6950, Dissertation Research. Additional credit hours can be taken as lab rotations/independent study.
Preliminary (General) Exam
The preliminary examination is a qualifying examination given to all students in the Genetics and Developmental Biology Area of Concentration of the UConn Health Biomedical Sciences Ph.D. Program. Passing this exam formally admits the student to doctoral candidacy. Each GDB AoC student must complete the preliminary examination by the end of the second academic year in order to retain continued support of tuition and stipend. Students should plan according to this requirement in scheduling the prelim exam. Two GDB-specific prerequisite courses, or GDB-director-approved equivalents, must be completed before taking the prelim exam. MEDS 6448 (Foundations of Biomedical Science I) is required along with any one of the following: MEDS 6504 (Genetics of Model Organisms), MEDS 5322 (Developmental Biology), MEDS 5369 (Advanced Genetics and Mol. Bio.), or MEDS 5418 (Stem Cells and Regenerative Biology). The intent of the prelim exam is to test the student’s ability to formulate an original research proposal and to construct and defend a sound hypothesis-driven experimental approach to accomplish the proposal’s specific aims.
The Proposal
The topic of the prelim exam proposal can be based on the student’s thesis research project or other closely related topic. The proposal should follow NIH guidelines for fellowship applications for page limits and formatting. Please do not include sections related to applicant background, training plan, or mentor statements at this stage.
- Specific Aims (1 page):
- State the specific purposes of the research proposal and the hypothesis to be tested. State concisely the goals of the proposed research and summarize the expected outcome(s), including the impact that the results of the proposed research will exert on the research field(s) involved. List succinctly the specific objectives of the research proposed, e.g., to test a stated hypothesis, create a novel design, solve a specific problem, challenge an existing paradigm or clinical practice, address a critical barrier to progress in the field, or develop new technology.
- Research Strategy (up to 6 pages): Organize the Research Strategy in the specified order and using the instructions provided below. Start each section with the appropriate section heading: Significance, Innovation, Approach.
- (a) Significance: Explain the importance of the problem or critical barrier to progress in the field that the proposed project addresses. Explain how the proposed project will improve scientific knowledge, technical capability, and/or clinical practice in one or more broad fields. Describe how the concepts, methods, technologies, treatments, services, or preventative interventions that drive this field will be changed if the proposed aims are achieved.
- (b) Innovation: Explain how the application challenges and seeks to shift current research or clinical practice paradigms. Describe any novel theoretical concepts, approaches or methodologies, instrumentation or interventions to be developed or used, and any advantage over existing methodologies, instrumentation, or interventions. Explain any refinements, improvements, or new applications of theoretical concepts, approaches or methodologies, instrumentation, or interventions.
- (c) Approach: Describe the overall strategy, methodology, and analyses to be used to accomplish the specific aims of the project. Include how the data will be collected, analyzed, and interpreted as well as any resource sharing plans as appropriate. Discuss potential problems, alternative strategies, and benchmarks for success anticipated to achieve the aims. If the project is in the early stages of development, describe any strategy to establish feasibility, and address the management of any high risk aspects of the proposed work. Point out any procedures, situations, or materials that may be hazardous to personnel and precautions to be exercised.
- References: Please follow NIH guidelines for referencing including PMID and PMCIDs. Reference pages are not included in page limitation.
Timetable for submission of the Prelim exam Proposal:
- Step 1: Assemble advisory committee consisting of five members:
- Major Advisor
- At least 2 additional Genetics and Developmental Biology faculty
- To assure uniformity of the prelim exam, at least one member of the student’s prelim exam committee must be the director, associate, or assistant director of the graduate program or a designee.
- 2 additional faculty from UConn Health, JAXGM, or external as appropriate
- Assemble your committee in the fall of your second year for PhD students or the first graduate year for dual degree students (MD/PhD and DMD/PhD programs)
- Please allow plenty of time to complete all the below steps by August 15th of the term you are scheduled to take your Prelim exam.
- Step 2: Meet with committee to discuss specific aims of the proposal and answer any questions about procedures associated with the exam. This meeting should occur immediately following the student’s Research In Progress talk or shortly thereafter early during the spring semester of the second year.
- Step 3: Based on feedback provided in meeting at step 2, the student will submit a revised copy of the specific aims of the proposal to the program director and each committee member. Once specific aims have been agreed upon by the student and the committee, the student will have 4 weeks to complete and submit the written proposal. The oral exam for the next step should be scheduled at this time at least one week after the proposal submission date. During this time you will write the written proposal. You can ask questions of your committee members, your advisor, or other students related to very specific details (buffer concentrations, model parameters, data set size, etc) but should not discuss more general scientific questions you work will address. Once you have submitted your written proposal to your committee you are welcome to share this document with other students and lab members to prepare for the oral exam.
- Step 4: Oral examination. Students should plan on the examination lasting approximately 2 hours.
Oral Exam Procedure
Prior to the day of the exam: As indicated in the timetable for preparation of the preliminary exam proposal, each student will provide each member of his/her committee with a copy of the proposal at least one week prior to the meeting.
The student should prepare a slide presentation of approximately 30 minutes in length that covers all the pertinent details of the written proposal and any specifics that would help the committee understand the rationale, experiments performed, and the expected outcomes. The committee will interrupt the presentation with questions throughout. You will likely not make it through the whole presentation, don’t panic this is normal!
On the day of the exam: The program director, assistant or associate director, or designate, will serve as the chair of each examining committee. Examinations will be scheduled to allow a maximum of 2 hours for each exam. When the committee has gathered and the members have been introduced to the student, the chair should ask the student to leave the room briefly. The topics to be discussed in the student’s absence are:
- The student’s overall record. Any deficiencies that might need special attention in the oral questioning should be identified.
- The quality of the written proposal. If the quality is so poor as to be unacceptable, the student can be given a “fail” at this point.
- If the proposal is generally acceptable; any specific deficiencies revealed in the written proposal should be identified and pursued in the oral questioning.
After this discussion the student will be invited to return to the room. The chair should explain the ground rules to the student, explain the role of the program director/assistant director, committee chair (or designate), and ask the student to begin the presentation. If questioning is slow in getting started, the committee chair should lead off, preferably with a question that the student should be able to answer comfortably. The chair should then turn over the questioning to one of the other examiners. One role of the program director or assistant director is to ensure that the exam is administered fairly and that all exams are administered in a uniform fashion.
Exam questions should be designed to probe the student’s depth of knowledge on the chosen subject of the proposal, both theoretical and technical. In addition, exam questions should determine the student’s general knowledge of Genetics and Developmental Biology especially as it relates to lecture and seminar courses taken, and rotations completed. When the chair feels that the student has been examined sufficiently, he/she will ask the student to leave the room while the committee discusses the performance. Each student’s performance should be evaluated in four areas: 1) quality of the written proposal, 2) quality of the oral presentation, 3) defense of the proposal, and 4) general knowledge. The student will then be asked to re-enter the room and told the outcome of the exam. The result of the exam is then reported to the Graduate School on the Report on the General Examination for the Doctoral Degree form that must be signed by all members of the examining committee.
Possible outcomes
Pass: This is the outcome expected for most students. It can represent a range from absolutely stellar performance to a good, generally solid one.
Conditional Pass: This is used when a particular aspect of the exam showed clear deficiencies or when the overall performance was marginal. The committee must suggest to the Program Director what the student should be required to do to clear the deficiency (such as rewrite the proposal, take a particular course, etc.) If the student is expected to consult with the committee members individually, this should be stated, and a time frame for completing the examination should be established. It is important for the committee chair to put this in writing during the meeting so that there is no ambiguity about what is being asked of the student. When the committee communicates the outcome of the exam to the student, advisors should discuss the conditions of a conditional pass with the student. A passing grade on the preliminary exam will not be communicated to the Graduate School until the conditions set forth have been satisfactorily fulfilled. A failure to do so will delay advancement to Ph.D. candidacy.
Failure: This is the outcome when the written proposal and/or performance on multiple aspects of the oral exam are unacceptable. A student who fails will automatically get a chance to rewrite the proposal and/or defend it at another oral examination. The amount of time available for completion of the repeat exam must be specified at this time. A student who fails the exam twice must leave the program.
Please Note: The Preliminary Exam process including any necessary remediation associated with a Conditional Pass must be completed by August 15th of the 2nd year for Biomedical Science PhD students or the 1st year for Dual Degree Students (MD/PhD and DMD/PhD Programs).
Doctoral Dissertation Proposal to the Graduate School
Doctoral Dissertation Proposal of the student’s proposed research project should be completed within 12 months of passing the preliminary exam and at least six months before expected graduate date. It is filed on specific form obtained at The Graduate School website (under Forms for Enrolled Doctoral Students).
Oral Defense/Final Exam and the Dissertation
Formats for the dissertation and the public defense of the thesis are governed by rules of the Graduate School. Many GDB AoC students choose to schedule a final private defense meeting of the advisory committee and additional readers, where the content and significance of the thesis are reviewed in detail before the official public thesis defense. Tentative approval of the written dissertation may be granted at this time by the committee. This tentative approval must be granted by the committee prior to scheduling the public defense. The public defense must be announced through the Graduate School (go to the Events Calendar and click on “Submit Event” in the lower right corner) at least 2 weeks ahead of time. This final examination entails a formal seminar presented by the student to an audience that must include at least 5 faculty and must include all members of the advisory committee. The student will field and answer questions, and a final (private) vote by all the faculty in attendance will be conducted to accept or reject the dissertation. The Report on the Final Examination is then signed by faculty and submitted to the Graduate School.
Summary of Major Events in attaining the Ph.D.
First Year
- Course work, approximately 15 hours
- Laboratory rotations
- GDB Journal Club
Second Year
- Selection of major/thesis advisor
- Additional course work per Plan of Study
- Plan of Study submitted
- Research in Progress seminar
- Preliminary (General) Exam
- GDB Journal Club
Third and later Year(s)
- Continuation of thesis research
- Preparation of dissertation prospectus (third year)
- GDB Journal Club
- Research in Progress seminar
Final Year
- Completion of thesis research; approval of written dissertation
- GDB Journal Club
- Public Defense/Final Exam
Expectations for Faculty Membership in the GDB Area of Concentration
Faculty who are formally affiliated with the GDB area of concentration will have their membership in the AoC reviewed every 5 years by the AoC executive committee. In order to be retained as an affiliated faculty member in the GDB AoC, one must contribute substantially to the strength of the scientific and educational environment of the AoC in some of the following ways:
GDB Departmental Seminar Series
- Present a formal seminar to the GDB Dept. and AoC once every 5 years
- Attend seminars in the Thursday-Noon academic year invited speaker series (https://health.uconn.edu/genetics/upcoming-seminars/)
- Attend seminars in the Tuesday-Noon academic year student research-in-progress series
- Attend public thesis defenses presented by GDB AoC students
Academic Involvement
- Serve as major advisor to a GDB-AoC-affiliated Ph.D. student
- Serve as Progress Committee member or Prelim or Defense Exam Committee member for a GDB AoC Ph.D. student.
- Teach lecture or seminar courses required of GDB AoC Ph.D. students
- Serve as a facilitator of the GDB AoC Student Journal Club
Administrative Involvement
- Chair an academic department or research center at UConn Health
- Serve on the Executive Committee of the GDB AoC
- Participate on the Biomedical Science admissions committee during new Ph.D. student recruitment