Department of Computer Science:
The department is internationally recognized as a unique group of faculty, visiting researchers, students and educational programs. The faculty conduct research in numerous aspects of computer science including: Bioinformatics, Artificial Intelligence, Systems Software, Algorithms, Computer Graphics, Embedded and Ubiquitous Computing, and Network and Distributed Systems. Research is performed in an open and interdisciplinary cult.
"We would like to outline our proposal for an articulation agreement with the Mathematical, Computational and Systems Biology (MCSB) Gateway Program for the CS PhD program.
For the CS PhD program, it is a requirement for admission that students have some form of financial support. Therfore, we will require MCSB students to demonstrate that they have financial support before they are granted admission into the program. This support could be a GSR from a sponsoring faculty member in the Computer Science Department. In addition, MCSB students are invited to submit applications - during the regular admission cycle - along with other PhD applicants for department sponsored support packages which range from two to four years of support and are typically comprised of a combination of TA-ships and GSRs.
For the course requirements in the Computer Science PhD, CS284C (Computational Systems Biology) and two other courses taken in the MCSB program may count as elective courses. MCSB students pursuing a PhD in Computer Science would be expected to complete the remaining degree requirements. Some of these requirements must be completed by a certain time in the program. We will begin counting the time in the program when the student first transfers to the Computer Science degree program.
-- S. Irani & A. Regan
Department of Biomedical Engineering
The Department offers a stimulating array of research and training opportunities with world-renowned researchers. The focus areas include three technology areas of biomedical photonics/optoelectronics, biomedical nano- and microscale systems/fabrication, and biomedical computation/modeling. Included in these opportunities are major campus resources at the Beckman Laser Institute (biophotonics), the Integrated Nanosystems Research Facility (INRF, nano-fabrication and mircrofabrication), and the Laboratory for Fluorescence Dynamics.
“Given that the content of the MCB courses has not been finalized, I cannot ascertain whether some of the required MCB courses would be considered equivalent to any of the BME core courses. I have included a comparison of proposed and existing courses for the two program below, and there seems to be some potential in the core mathematics area, and perhaps in physiology. However, I can state that these entering students would be eligible to receive elective course credit for MCB courses that do not overlap substantially with the BME core courses.” --Steve George
Department of Developmental and Cell Biology
The department focuses on molecular biology and genetics to investigate embryonic development, regeneration and fundamental cell biology. The research employs a variety of model organisms, including yeast, plants, hydra, flies, fish, frogs, salamanders and mice.
“Our faculty agree strongly that the first-year curriculum of the MCB program will provide more than adequate preparation for thesis research in the Department, equivalent to
that provided by the other gateway programs (MBGB and Interdepartmental Neuroscience Program [INP]) from which we already draw students. Additional coursework required of students entering via MCB will be no different from that required of those entering via MBGB or INP, which currently consists of requirements to participate in Seminar and Journal Club courses, as well as some University Teaching." --Arthur Lander
Department of Ecology and Evolutionary Biology
The department has several informal, interdisciplinary research groups. There is a great deal of interaction and collaboration within these groups, though projects often cross these boundaries as well. These groups include Evolutionary Genetics, Plant Ecology and Evolution, Global Biological Change, and Evolutionary and Comparative Physiology.
Students entering the department through that program will be expected to pass 2/3 of the first-year exam. Each student may choose to exclude one of the three subject areas and be tested on the other two areas. Course work will be required according to the background of the student and the need to prepare for the exam. Most students will probably take some combination of graduate and undergraduate courses to be properly prepared for the two subject areas of the exam." --Al Bennett
Department of Molecular Biology and Biochemistry
The research interests of faculty in the Department include structure and synthesis of nucleic acids and proteins, regulation, virology, biochemical genetics, gene organization, nucleic acids and proteins, cell and developmental biology, molecular genetics, biomedical genetics and immunology.
“After review of the planned MCB curriculum, the planned first year courses appear to satisfy all basic pedagogic goals of the MBGB first year curriculum and will be suitable substitutes for MCB graduate students who wish to join faculty members from MB&B. The implementation of a comprehensive exam at the end of the first year of courses that evaluates the student’s abilities to integrate classroom and research activities, similar to the exam for MBGB, would be a suggested addition to the existing plan. Additionally, the program should consider whether M204 may be a suitable substitute for the first quarter Biochemistry course.” --Hudel Luecke
Department of Microbiology and Molecular Genetics
The department is a community of 14 faculty and approx. 60 senior researchers, postdoctoral fellows, and Ph.D. graduate students actively engaged in innovative research, discovery, and training in modern microbiology and molecular genetics. Research covers a wide range of topics with special emphasis on: bacterial gene expression and pathogenesis, viral gene expression and host interactions, trypanosome molecular biology, vector-borne malaria and dengue fever transmission, nuclear-cytoplasmic transport and intracellular signaling regulation of eukaryotic gene expression, mRNA splicing and processing, cancer genetics and tumor suppressors, ion channel expression, and function genomics and bioinformatics.
"The Department of Microbiology and Molecular Genetics has agreed to accept the first year curriculum that has been proposed for the MCB gateway program in lieu of the first year courses offered by the MBGB graduate program. MCB students that will be mentored by one of the Microbiology and Molecular Genetics faculty will continue to take additional courses during their
following years according to departmental rules. As such, students accepted from the MCB or the MBGB programs will be considered
to have completed equivalent coursework during their first year of study."
Department of Biological Chemistry
The Department of Biological Chemistry is comprised of almost 200 individuals made up of faculty, staff and students who are all committed to higher education. Within the group are 28 faculty members, 12 are solely appointed to the department, 4 have shared appointments and 12 maintain joint appointments. Active areas of research include molecular biology of hydra development, molecular genetics studies of breast cancer, research concerning tumor-suppressor genes, biology of human melanocytes and melanomas, regulation of chromosome structural changes, control of mammalian growth and human genetic disorders.
Statement of Participation
"On June 25, 2009, the faculty of the Department of Biological Chemistry voted unanimously is favor of affiliating with the Graduate Program in Mathematical, Computational and Systems Biology."
- Robert E. Steele, Interim Chair
Department of Chemistry
The department has an established reputation for excellence in education and research, in all areas of chemistry. It the second largest producer of chemistry majors in the U.S. and are currently ranked 18th by US News & World Report. In the graduate school, beyond the traditional fields of Analytical , Inorganic, Organic and Physical Chemistry, the department participates in several interdisciplinary graduate training, programs including ones in Chemical & Materials Physics, Atmospheric & Environmental Chemistry, and Chemical Biology.
“I am writing to comment on the first year course requirements for graduate students who enter the Department of Chemistry through the Mathematical and Computational Biology Gateway Program (MCB).
The first year courses constituting the MCB program consist of three quarters of mathematics and scientific computing, plus biophysical chemistry, cell and developmental biology, and physiology. Although there are some issues regarding the timing of some of these courses to be resolved, in particular, whether all can be taken during the first year, they are compatible with the overall course requirements for a graduate student in the Chemical and Materials Physics (ChaMP) program offered by our Department. Two of the three mathematics/computation courses can replace first year offerings in the ChaMP program directly. The remaining courses can serve as electives. In their second year, the students will have to take the core courses in ChaMP (such as quantum mechanics and statistical mechanics) which are typically taken in the first year.
The Chemistry Department is strongly welcomes interdisciplinary options at the graduate level, such as the one offered by the MCB Gateway, and will work closely with you to make it possible for chemistry graduate students to successfully enter and complete our program through that path.”--V. Ara Apkarian
Department of Mathematics
The department of Mathematics is committed to excellence in teaching and research in a wide variety of mathematical disciplines. Active fields of research include real analysis, complex analysis, algebra, functional analysis, geometry, topology, probability and statistics, ordinary and partial differential equations, mathematical logic, and computational and applied mathematics.In addition to formal courses and research, seminars are held frequently.
“On behalf of the Mathematics Department, I am writing to certify our department’s concurrence with the enclosed description** of the requirements for an MCB student enrolled in the Ph.D. degree program in Mathematics. Professor Michael Cranston, the Graduate Vice Chair of Mathematics, and I independently noted that, including some options specified, the requirements are exactly the same as those specified in the current department entry to the UCI catalogue for our Ph.D. program students which has been approved by the department. The Graduate Vice Chair will notify the MCB Gateway Program of any future revision of the departmental requirements in order to ensure articulation between the two programs and transparency for MCB students and applicants.” --John Lowengrub
** Upon request to email@example.com, MCB Program Administration will provide a copy of the detailed articulation statement from the Department of Mathematics.
Department of Physics and Astronomy
The department has assembled a faculty of outstanding teachers and first-rate researchers, with strong programs not only in the core areas of particles, plasmas, condensed matter, and astronomy, but in such interdisciplinary fields as biological, chemical and medical physics. Founded in 1965, the Department is old enough to be well-established (as the late Professor Frederick Reines' 1995 Nobel Prize attests), but young enough to be forward-looking: it was among the first major physics departments in the country to incorporate modern computational methods into the regular curriculum.
"Generally speaking, students entering the Physics Ph.D. program through the MCB gateway would take an inverted Physics and Astronomy schedule of courses during their first two years of graduate school. The courses taken in the MCB gateway program would replace the courses normally taken in the 2nd year of the Physics Ph.D. program.
Upon entering the Physics Department, students would then fulfill the course and other requirements that are normally fulfilled during the 1st year of the Physics Ph.D. program. Specifically, Physics Ph.D. students are required to pass a minimum of 12 quarter courses with grade B or better, including two physics elective courses chosen from courses numbered between 200 and 259, and two general elective courses.
The first quarter of the MCB biology core course is identical to the Physics course 230A and will therefore satisfy the requirement of one of the two Physics electives. THe second and third quarter of the MCB biology core sequence satisfies
the requirement for the general elective courses. The three quarter MCB mathematics core course sequence has significant overlap with the pedagogical goals of the required course 212A: Mathematical Physics and 223: Numerical Methods. We will therefore allow MCB students to take the MCB Mathematics core course sequence in lieu of the courses 212A and 223. This leaves only one elective Physics course numbered between 200 and 259. Ordinarily, MCB students entering the Physics Ph.D. program would take 230B as the additional physics course.
In addition to the MCB courses taken prior to entering the Physics program, students would be expected to take the courses 211, 213A-B, 214A, and 215A-B during their second year of study (their first year in the Physics Ph.D. program).
MCB students entering the Physics Ph.D. program will be expected to complete all remaining degree requirements. Some requirements and opportunities (e.g., attempts of the qualification exam) are linked to the time the student spent in the Physics program. For all of these purposes, we will be counting the time in the program from the point when the student first transfers to the Physics program, instead of the point when the student first enters MCB.
As designated by the MCB bylaws, transfer to the Physics program requires that the student finds a faculty member of the Physics Department who accepts the student for Ph.D. training and dissertation research." - William H. Parker