Mechanisms of Gene Expression and Regulation Studies Designated Emphasis

Subject abbreviation: GERS School of Medicine

David Lo (Biomedical Sciences), Co-Director Thomas Girke (Institue for Integrative Genome Biology), Co-Director david.lo@ucr.edu thomas.girke@ucr.edu

Advisory Committee & Participating Faculty Devin Binder (Biomedical Sciences) Monica Carson (Biomedical Sciences) Djurdjica Coss (Biomedical Sciences) Iryna Ethell (Biomedical Sciences) Emma Wilson (Biomedical Sciences) Meera Nair (Biomedical Sciences) Declan McCole (Biomedical Sciences) David Lo (Biomedical Sciences) Christian Lytle (Biomedical Sciences) Nicholas DiPatrizio (Biomedical Sciences) Seema Tiwari-Woodruff (Biomedical Sciences) Sika Zheng (Biomedical Sciences) Karine LeRoch (Molecular, Cell and Systems Biology) Frances Sladek (Molecular, Cell and Systems Biology) Ted Karginov (Molecular, Cell and Systems Biology) Yinsheng Wang (Chemistry) Thomas Girke (Institute for Integrative Genome Biology) Xinping Cui (Statistics) Katherine Borkovich (Microbiology) James Borneman (Microbiology) Jason Stajich (Microbiology) Shou-Wei Ding (Microbiology)

The Designate Emphasis is an interdisciplin- ary graduate program of study to enhance student training in the field through a focused coursework across at least two departments. The program is optional and the courses used for the DE may not be counted toward MS or PhD requirements.

• 1. Three (3) courses (12 units) with a focus

in basic principles of genetics gene regu- lation (epigenetics, non coding RNA) and bioinformatics will be selected from:

MCBL 221 - Microbial Genetics

CMDB 201 - Molecular Biology

CMBD 203 - Advanced Genetics

GEN 203 - Advanced Genetic Analysis of Model Organisms

GEN 241 - Advances in Genomics

GEN 242 - Data Analysis in Genome Biology

GEN 206 - Gene Silencing

GEN 220 - Computational Analysis of High Throughput Biological Data

BPSC/BIOL 148 - Quantitative Genetics

EEOB 214 - Evolutionary Genetics

EEOB 216 - Theory of Evolution

ENTX 204 - Genome Maintenance and Stability

STAT 100A Introduction to Statistics

BPSC 234 – Statistical Genomics

STAT 110 - Biostatistical Methods in Life Sciences

CS 234: Computational Methods for Biomolecular Data

CS 238: Algorithmic Techniques in Computational Biology

Students must select courses with relevant content in consultation with the Designated Emphasis Advisory Committee comprising of three participating faculty including student’s major professor. Stu- dents must select courses from at least two different departments. Undergradu- ate course taken to fulfill the requirement must be accompanied by a 292 course taken in the same quarter with extra work agreed upon by professor and student.

• 2. BMSC 222 (2 units): Special Topics in Bio-

medical Sciences with emphasis in Gene expression and regulation. The course will address the research pertaining to the student’s interest and prepare trainees in applying the knowledge of basic principles in regulation of gene expression and bioinformatics data analysis of next generation sequencing approaches. Graded Satisfactory (S) or No Credit (NC)

• 3. Research Project: students will write a re-

view article on a selected genetics/ bioin- formatics/ regulation of gene expression topic. The review will be evaluated by the Designated Emphasis Advisory Committee. It is the committee’s expectation that student will fulfill this component by sub- mitting the review article for the journal publication in a pubmed indexed journal. Successful completion of this review is required for the Designated Emphasis completion.

All requirements for the Designated Emphasis must be satisfied no later than one calendar year from the quarter in which candidate advances to candidacy in their PhD field; a minimum GPA of 3.0 is required for the Designated Emphasis completion.