Cell & Molecular Biology Graduate Group

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CAMB Courses

CAMB 422 (BIOL 422) Human Genetics and Genomics
Prerequisite: BIOL 221
Director: Dr. Sarah Tishkoff

In this course we will discuss the identification and characterization of genetic diversity in the human genome, the genetic basis of normal variable traits, and the genetic basis of human disease. The study of the human genome increasingly impacts almost every aspect of our society, from medicine to law enforcement to how we view ourselves. The focus of this course will be to apply concepts and methods of genetics and genomics analysis (gene mapping, genome sequencing, epigenetics, gene expression) to better understand the genetic basis of both normal variable traits as well as disease for Mendelian (those traits influenced by a single gene) and complex (those traits influenced by multiple genes and environment) traits. We will discuss how to distinguish the evolutionary and demographic forces (i.e. mutation, migration, selection, population size) that influence genotypic and phenotypic variation within and among human populations. We will discuss how genomics and population genetics methodologies are being applied to study modern human origins, analysis of ancient DNA, ancestry, and population history.

We will also discuss the implications of these studies for personalized medicine. An ability to understand human genetic and genomics analyses will serve you well since in your lifetime you are almost certain to be faced with a major decision involving your heredity; and society will be forced to make major reforms in medicine, business, and law because of increasing genomics data. By the end of this class you should have a better understanding of the science behind the study of the human genome. Offered spring semester (Odd years).

CAMB 431 (BIOL 431): Genome Sciences and Genomic Medicine
Prerequisite: BIOL 221; BIOL 421 strongly recommended.
Director: Dr. Brian Gregory

This course will be a focused study of genomes, genomic techniques, and how these approaches are and will be used in diagnosing and treating human disease. Topics will include genome sequencing, analisys of sequences and microarrays, and new techniques including high-throughput sequencing and
reverse genetic analysis with a focus on genome-wide mutant collections. Offered spring semester.

CAMB 480 (BIOL 480): Advanced Cell Biology
2019 Sylabus
Prerequisite: College level biochemistry and cell biology.
Director: Dr. Wei Guo

This course is designed for beginning graduate students and advanced undergraduate students with a particular enthusiasm for Cell Biology. CAMB/BIOL 480 does not attempt to cover all aspects of cell biology, and is therefore not appropriate for students seeking a lecture course that provides a comprehensive survey of the field. Rather, the primary objective of this course is to teach those students considering a career in the biomedical sciences how to read, discuss, and question research papers effectively. Intensive classroom discussions focus on the experimental methods used, results obtained, interpretation of these results in the context of cell structure and function, and implications for further studies. There is no assigned text; students learn to critically evaluate current literature by reading original papers on selected topics in modern cell biology. Accordingly, class participation/discussion is essential and the grade will be determined significantly by that. In addition, there will be two exams including answering short questions and an assay critiquing an original paper that is selected on a topic in Cell Biology. Offered spring semester. Back to top

CAMB 482 (BIOL 482) Cell Signaling
Prerequisite: BIOL 202 or permission of instructor
Director: Dr. Kimberly Gallagher

The evolution of multicellularity required that cells be able to both send and receive signals from their neighbors.  The development of organs and differentiation of cells and tissues requires reliable and continuous communication between cells.  Consequences of inappropriate or anomalous signaling include development abnormalities and cancer.  This class will examine mechanisms of cell-to-cell signaling between plant and animal cells with an emphasis on the cell biology of development.  For Spring 2014, particular attention will be given to signaling in stem cell niches. Back to top

CAMB 483 (BIOL 483): Epigenetics
Prerequisite: BIOL 221
Director: Dr. Doris Wagner

This course investigates epigenetic phenomena: heritable alternate states of gene activity that do not result from alteration in nucleotide composition (mutations). Epigenetic mechanisms regulate genome accessibility and cell differentiation. They play a key role in normal development and in oncogenesis. For example both mammalian X-chromosome inactivation and nuclear transfer (cloning) are subject to epigenetic regulation. Amongst the epigenetic mechanisms we will discuss in this course are chromatin organization, histone modification, DNA methylation and non-coding RNAs. The course is geared toward advanced undergraduate and beginning graduate students and is a combination of lectures, student presentations and research presentations by guest speakers. Students will work with the current scientific literature. Offered fall semester. Back to top

CAMB 485 (BIOL 485): The RNA World: A Functional and Computational Analysis
Prerequisite: BIOL 221 required. BIOL 421 strongly recommended.
Director: Dr. Brian Gregory

A focused study of genomic, biochemical, cellular, and molecular aspects of RNA. Topics of study will include RNA structure, RNA processing and turnover, splicing, ribozymes and riboswitches, RNA editing and modification, RNA interference, endogenous eukaryotic RNA silencing pathways, small RNA biology, computational methodologies for studying RNA biology, and RNA viruses. Lectures, student presentations, and discussions will be based on readings from the primary literature. Offered spring semester in even years. Back to top

CAMB 486 (BIOL 483): Chromosomes and the Cell Cycle
2018 Syllabus
Prerequisites: This section is limited to PhD students only.
Director: Dr. Michael Lampson

CAMB 493 (BIOL 493): Epigenetics of Human Health and Disease
Prerequisite: BIOL 221 required, BIOL 483 recommended
Director: Dr. Shelley Berger

Epigenetic alterations encompass heritable, non-genetic changes to chromatin (the polymer of DNA plus histone proteins) that influence cellular and organismal processes. This course will examine epigenetic mechanisms in directing development from the earliest stages of growth, and in maintaining
normal cellular homeostasis during life. We will also explore how diverse epigenetic processes are at the heart of numerous human disease states. We
will review topics ranging from an historical perspective of the discovery of epigenetic mechanisms to the use of modern technology and drug development to target epigenetic mechanisms to increase healthy lifespan and combat human disease. The course will involve a combination of didactic lectures, primary scientific literature and research lectures, and student-led presentations. Back to top

CAMB 510: Immunology for CAMB
2019 Syllabus
Prerequisites: BIOM 600 or instructor permit. Priority given to students in the MVP & GTV programs of CAMB. Second priority to CAMB students in other programs. If slots remain, then Ph.D. students from other graduate groups by permit only.
Director: Drs. G. Scott Worthen and D'Broski Herbert

The purpose of this course is to provide a thorough grounding in immunology to Cell and Molecular Biology graduate students, with an emphasis on the role of the immune system in combating infectious diseases. This is a required course for CAMB students in the Microbiology, Virology and Parasitology program and the Vaccine and Gene Therapy program, replacing IMMU 506 (Immune Mechanisms). It may also be used as an elective by CAMB students in other programs such as those from the Cancer Biology program and Cell Biology and Physiology program.

The course is divided into two parts. The first deals with the innate immuneresponse with a focus on pattern recognition and subsequent signaling in infection by bacteria, viruses, and parasites. The second half will focus onadaptive immune mechanisms, the structure, function, and molecular biology of antigen receptors and major histocompatibility complex molecules, and the development, activation, and differentiation of lymphocytes and other hematopoietic cells involved in immunity. The course is comprised of two 1.5-hour lectures per week, with Friday journal club on selected weeks

EXAMS: There will be two exams. The first will be taken after part I, and the second after part II of the course. Both will be open book, in-class exams. The exam will consist of essay or brief answer questions based on experimental design and/or data. Each exam is weighed equally in determining the final letter grades of students. The grades are based solely on the exams. Offered spring semester. Back to top

CAMB 511: Principles of Development
2019 Syllabus
Prerequisites: Undergrad background in cell biology and molecular biology required. Non-BGS students require permission from course directors to register.
Director: Drs. Mary Mullins and Patrick Seale

This graduate course, which will include lectures and readings from the literature, is designed to provide a foundation in the principles of developmental biology. Topics covered will include: the germ line and piRNA, signaling pathways in development, pattern formation and cell specification, gastrulation, tissue differentiation, morphogenesis, cell polarity, epigenetics in development, organogenesis, stem cell biology, regeneration, and developmental evolution. The use of molecular biology, biochemistry, genomics and genetics, cell biology, and embryological manipulations will be discussed in the context of the analysis of developmental mechanisms. Offered spring semester. Back to top

CAMB 512: Cancer Biology and Genetics
2019 Spring Syllabus
Prerequisite: BIOM 600 or course director permission. Non-CAMB Students must contact the course director prior to registration.
Directors: Drs.Karin Eisinger, Kate Hamilton, Kathrin Bernt, and Todd Ridky

The course objective is to introduce the students to important and current concepts in Cancer Biology and Cancer Genetics.  The lectures are organized into 4 broad thematic groups: A) Cell-Autonomous Mechanisms (e.g., tumor suppressor and oncogene function, DNA repair pathways, senescence, apoptosis); B) Non Cell-Autonomous Mechanisms (e.g., tumor microenvironment, hypoxia, angiogenesis); C) Organ Systems (e.g., pancreatic cancer, hematopoetic malignancies); and D) Therapeutic Approaches (e.g. protein kinase inhibitors, immunotherapy, radiation therapy).  The organizers, along with faculty from the Perelman School of Medicine, the Wistar Institute and CHOP, with expertise in the corresponding areas provide lectures for the course.  The students are expected to present, and participate in discussions of one or more key recent papers at Journal Clubs that are held at the end of each thematic group. There will be mid-term and final exams of short essays relevant to the lectures. This is a year-long course. Back to top

CAMB 518: Current Topics in Ion Channels
2017 Syllabus
Prerequisites: Basic knowledge of ion channels,Cell 600 or equivalent.
Director: Dr. Carol Deutsch

The course is a seminar format, specifically a journal club format, targeted to graduate students and MD/PhD students interested in ion channels. It meets for one hour, once a week for graduate students and once every other week for the entire group with formal presentation. On alternate weeks a faculty member meets with students to discuss and review the contents of each selected article for the subsequent week's presentation. This is an elective course meant to excite and intellectually enlighten students regarding the latest advances in ion channel research. It includes a wide range of ion channel topics from basic biophysics, structure, and physiology to cell biology and clinical applications. It is attended by faculty, students, and postdocs/ from the departments of Physiology, Pathology, Neuroscience, Pharmacology, Biochemistry & Biophysics, Psychiatry. We require a written critique of each paper presented by other participants during the semester, submitted prior to the formal presentation of the paper. This critique will be graded by a faculty member, as will the student's ,participation in both the preparatory sessions and formal presentation ,sessions. In addition, the student will make one formal presentation, also,graded by a faculty member. A final grade would be based on all three of these components. Offered spring and fall semesters. Back to top

CAMB 522 (BIOL 522): Human Evolutionary Genomics
Prerequisite: Permission of instructor requred
Director: Dr. Sarah Tishkoff

Advanced seminar on current topics in human genomics and human evolution. Topics include the methods used for mapping and sequencing genomes;
phylogenetic and population genetic analysis; and detecting variation in the human genome. This course is designed for graduate students but advanced
undergraduates with a strong background in genetics are also welcome. Offered spring semester (even years). Back to top

CAMB 530: The Cell Cycle, Genome Integrity and Cancer
2018 Syllabus
Prerequisites: Completion of BIOM 600, BIOM 555 and/or equivalent graduate level course work. Anyone without such course work must obtain instructor permission. Preferential registration of Cancer Biology and CAMB students up to the maximum of 12 students applies. Permission to register is required upon exceeding the 12 student limit.
Directors: Drs. Irfan Asangani and Roger Greenberg

This seminar course focuses on molecular and biochemical events that regulate cell cycle progression and genome maintenance, and explores how these processes influence cancer etiology and treatment. Specific topics will familiarize students with the key principles and recent developments within these areas. These topics include CDK-Cyclins and their inhibitors, regulation of G1-S and G2-M phase cell cycle transitions, DNA damage checkpoints and repair, the impact of chromatin regulation on DNA repair, and how these processes affects cancer etiology and treatment. In depth reading and evaluation of research literature will be primarily used to accomplish these aims, as well as provide instruction on rigorous experimental design and data interpretation. Offered fall semester. Back to top

CAMB 532: Human Physiology
2018 Syllabus
Prerequisites: Although not a formal prerequisite, a good foundation in cell biology at the level of BIOM/CAMB 600 (or an equivalent upper level undergraduate course) is strongly recommended. A general understanding of the chemistry and biochemistry of macromolecules, and of basic molecular biology will also be assumed. This course is primarily designed for 2nd year BGS students; 1st year students in BGS or other programs will require the permission of the instructor. This course is not open to undergraduates.
Directors: Dr. Tejvir Khurhana

This course will present a survey of the physiology of most of the major organ systems. It will integrate knowledge of cellular and molecular mechanisms into an understanding of function at the tissue, organ, and organism levels. It will begin with a brief review of membrane physiology, followed by electrophysiology and signaling in nerve. Then, after a brief outline of neural control systems and their role in homeostasis, it will present motility and muscle, the cardiovascular system, respiration, the renal and gastrointestinal systems, and selected topics from the endocrine system, the reproductive systems, environmental and exercise physiology. As well as providing a basis of integrative physiology for students in fields such as physiology, bioengineering and pharmacology, it should be of interest to students of cellular and molecular biology and genetic engineering who will need to appreciate the roles of specific systems and molecules at higher levels of organization. Offered fall semester. Back to top

CAMB 534: Seminar on current genetic research: Human Disease Modeling in Experimental Systems
2017 Syllabus
Prerequisites: CAMB 605 or CAMB 542 or permission of the instructor. Priority for enrollment will be given to CAMB graduate students. Class is not open to Master or undergraduate students.
Director: Dr. Thomas Jongens

An advanced seminar course emphasizing genetic research in model organisms and how it informs modern medicine.  Each week a student will present background on a specific human disease.  This is followed by an intense discussion by the entire class of ~2 recent papers in which model organisms have been used to address the disease mechanism and/or treatment.  As a final assignment, students will have the opportunity to write, edit, and publish a "News & ,Views" style article in the journal "Disease Models and Mechanisms".  Offered fall semester. Back to top

CAMB 542: Topics in Molecular Medicine (TIMM)
Course page  
Prerequisites: Section 401: First year MD/PhD students only. Section 402: Open to combined degree and BGS students. Capped at 12 students total; Non BGS students muyst receive permission from course instructors.
Directors: Section 401: Drs. Ben Stanger & Rahul Kohli
Section 402: Drs. Michael Atchison & Nicola Mason

TiMM is planned as a once-weekly seminar course whose goal is to introduce students to the ways in which biomedical research can provide new insights into clinical medicine and, conversely, how knowledge of clinical disease impacts scientific discovery. There are two sections for the course -- 401 and 402. Section 401 is for first year MD/PhD students only and section 402 is for VMD/PhD and PhD students. Offered fall semester. Back to top

CAMB 550: Genetic Principles
2019 Syllabus
Prerequisites: Open to all PhD students in BGS, or Biology, priority given to CAMB, GCB or Biology student. Students outside of BGS or Biology or in non-PhD programs, require permission from the course director to register.
Directors: Drs. Meera Sundaram & Struan Grant

This is a required course of the Genetics and Epigenetics Program and is designed to provide students with a comprehensive overview of genetic concepts and methodology. The course is organized into three parts: I Fundamental genetic concepts and tools; II Genetics of model organisms (with focus on worms, flies, zebrafish and mice); III Human genetics and disease. Each week there will be two lectures and one associated discussion/problem-solving session. Discussions emphasize practical aspects of generating and interpreting genetic data. Offered spring semester. Back to top

CAMB 578 (BIOL 488): Advanced Topics in Behavioral Genetics
Prerequisites: Permission of instructor required
Directors: Dr. Maja Bucan

This course focuses on the use of genetic techniques to study the molecular and cellular bases of behavior. Particular emphasis will be given to the role of genetic approaches in understanding the biological processes underlying memory storage, circadian rythms, and neurological and psychiatric disorders. Reverse genetic approaches utililzing gene knockout and transgenic technologies, as well as forward genetic approaches using mutagenesis and quantitative genetic techniques will be discussed. Offered spring semester. Back to top

CAMB 597: Neural Development, Regeneration and Repair
2018 Syllabus
Prerequisite: BIOM 600. Course reserved for NGG and CAMB graduate students. All others by permission only.
Directors: Dr. Gregory Bashaw and Dr. Wenqin Luo

The goals of this course are to examine the principles underlying nervous system development and to learn how understanding dvelopmental mechanisms can inform strategies to promote regeneration and repair. This is not a survey course. Rather, the course will focus on selected topics, for which we will discuss the genetic, molecular and cellular strategies employed to study these problems in different model organisms. Emphasis is on how to interpret and critically evaluate experimental data.

Textbooks: No specific textbooks are required. The following texts are useful resources. Developmental Biology by Scott Gilbert; Development of the Nervous System by Sanes, Reh, and Harris; and Molecular and Cellular Approaches to Neural Developmentedited by Cowan, Jessell, and Zipursky.

Format: Each class is 1.5 hours in length. During the first hour, an assigned paper will be discussed in detail. During the last 20-30 minutes, faculty will introduce methods, concepts, and background information pertinent to the paper that will be discussed at the following meeting.

Offered spring semester. Back to top

CAMB 601: Advanced Virology Seminar
2019 Syllabus
Prerequisite: CAMB 706 (MVP Core Course). Non-CAMB students must obtain instructor approval.
Director: Drs. Paul Bates

This seminar course covers current topics and important concepts in virology. Students will read selected papers on various topics in virology. Each subject will be illustrated by ground-breaking classic papers and innovative recent articles. Students will present a seminar under the guidance of a faculty member. Grades will be based on the guidance of a faculty member. Grades will be based on the quality of the seminar(s) and participation in discussion. Offered spring semester. Back to top

CAMB 605: Cell and Molecular Biology First Year Seminar
2018 Syllabus
Prerequisite: None
Director: Dr. John Seykora

Topics are selected by course instructors and student participants. Course instructors vary yearly. The goal of this course is to provide students with an opportunity to analyze, present, and discuss significant research papers in the field of cell and molecular biology in small group settings. The sections are taught by faculty from the different programs within the Graduate Group.This is a required course for CAMB PhD Students. Other BGS students are eligible, space permitting. Offered fall semester. Back to top

CAMB 608: Seminar in Regulation of Eukaryotic Gene Expression
2018 Syllabus
Prerequisites: Biom 555 or equivalent (exception=MD/PhD students) Students are expected to bring their laptops to class. Non-CAMB students need approval from course directors. This course is limited to 14 participants. All interested students need permits from course directors before registering. Directors: Drs. Stephen Liebhaber, Douglas Epstein & Eric Joyce

An advanced seminar course emphasizing current topics in gene regulatory mechanisms in eukaryotes. Based on the current literature, presentations and in depth discussions will familiarize the student with recent innovations and developing principles of genome regulation. Offered fall semester. Back to top

CAMB 609: (IMUN 609): Vaccines and Immune Therapeutics
2018 Syllabus
Prerequisites: Biology, biochemistry, or immunology courses at the advanced college level
Director: Drs. David Weiner, Jean Boyer, and Paul Offit

Vaccination is perhaps the most successful medical technological intervention. The goal of this course is to expand on students' general understanding of the immune system and to focus this understanding towards the application of vaccination and immune therapies for the 21 century.  Furthermore, the course will give the student a sense of how these principles are applied to vaccine and immune therapeutic development.  The course covers basic science as well as the clinical, regulatory, ethical, and political issues and implications of modern vaccines and world health.

Initial lectures review immune mechanisms believed to be responsible for vaccine induced protection from disease.   Subsequent lectures build on this background to explore the science of vaccines for diverse pathogens, including agents of bioterrorism as well as vaccines for cancer.  An appreciation for the application of laboratory science to the clinical development and studies of vaccines is provided in the next section of the course along with lectures, which focus on the regulatory, safety, and ethical implications of vaccines in different world situations.  The financial implications of specific vaccines on global health is one focus of the course.

The course is lecture style with many, many guest lecturers who are experts in their particular area of vaccine development.   There are required readings to provide the student context and background for the diverse lectures topic.  Students are graded on course participation, and a final project/exam.  The project is to design in a powerpoint report a vaccine strategy for a current disease or pathogen of importance that does not as yet have an effective vaccine or immune therapy.  Strategies used should build on the material presented in the class lectures.  The course is intended for graduate students or medical students in various MS, Ph.D., or MD/Ph.D. programs on the campus, as well as local scientists and professionals in the community.  As a prerequisite students should have taken biology, biochemistry, or immunology courses at the advanced college level. Offered fall semester. Back to top

CAMB 610: Molecular Basis of Gene Therapy
2018 Syllabus
Prerequisites: Background in biochemistry, cell biology, and molecular biology. Any student not enrolled in a BGS graduate program who wishes to take this course must get permission in advance from Dr. Musunuru. Students should send their undergraduate and graduate transcripts (including spring semester) along with their request to Dr. Musunuru via email: kmus@pennmedicine.upenn.edu. This class is not accepting Non-BGS masters students.
Director: Dr. Kiran Musunuru

This is a team-taught survey course that focuses on the basic science relevant to achieving efficient and effective gene transfer and genome editing in animal models and humans for the treatment of disease. The course includes units devoted to a variety of vectors useful for gene transfer, the fundamentals of genome editing, and current therapeutic approaches using specific diseases as models. Prior background in biochemistry, cell biology, and molecular biology is essential. Aspects of organ system anatomy and physiology, virology, and immunology that are relevant to the course material are included in the course. Because of rapid movement in this field, specific topics vary somewhat from year to year. Offered every fall. Back to top

CAMB 615: Topics in Conformational Disease
2017 Syllabus
Prerequisite: BIOM 600 or equivalent
Director: Drs. Yair Argon and Harry Ischiropoulos

Descriptions: Protein misfolding and aggregation has been associated with over 40 human diseases, including Alzheimer's disease, Parkinsons disease, amytrophic lateral sclerosis, prion diseases, alpha (1)-antitrypsin deficiency, inclusion body myopathy, and systemic amyloidoses. This course will include lectures, directed readings and student presentations to cover seminal and current papers on the cell biology of protein conformational diseases including topics such as protein folding and misfolding, protein degradation pathways, effects of protein aggregation on cell function, model systems to study protein aggregation and novel approaches to prevent protein aggregation. Target audience is primarily 1st and 2nd year BGS graduate students. MD/PhDs and Postdoctoral fellows are welcome. Offered fall semester. Back to top

CAMB 617: Emerging Infectious Diseases
2018 Syllabus
Prerequisites: BIOM 600 (CELL 600) and CAMB 706 (MVP Core course) are required. Course open to graduate students only. Other students may petition the course directors for permission to enroll.
Directors: Drs. Scott Hensley & Paul Bates

A physician from just 25 years ago would not recognize two of today's most pressing public health problems, AIDS and Hepatitis C, nor be familiar with many other infectious diseases or agents including MERS, Ebola virus, Hantaanvirus, HTLV-1, HHV-8 and Borrelia burgdorferi.  Such a physician might also be dismayed to learn that old enemies such as tuberculosis, malaria, diphtheria, West Nile virus, meningococcal meningitis, Yellow fever, and Dengue have become more (or rather less) prevalent due to antibiotic resistance and other factors.  In addition, bioterrorism, long a theoretical possibility, is now part of today's reality and could result in the deliberate introduction of anthrax or other biological agents into the civilian population or the food supply.  Thus, with the beginning of the new millennium, the medical profession, the veterinary profession, and the biomedical research establishment are faced with the triple-threat of emerging infectious diseases, reemerging infectious diseases, and bioterrorism.  These topics are covered in this course, with an emphasis on student's participation in the discussion.
Emerging Infectious Diseases will cover emerging viral, bacterial and parasitic organisms, with lectures being given by faculty from the Schools of Medicine, Veterinary Medicine, Dental Medicine, and Arts and Sciences, and outside lecturers. Epidemiology, immune responses to infection, vaccine and antimicrobial agents, and pathogenesis all will be discussed.  The course format will include short lectures by various faculty members to provide background information on each topic, followed by extensive discussion by students. Classes will run from 10am to 11:30am on Mondays and Wednesdays in Johnson 207.  Evaluation will be based on presentation of a research manuscript from the leterature and participation in discussion sessions. Offered fall semester. Back to top

CAMB 630 : Topics in Human Genetics and Disease
Prerequisites: CAMB graduate students having taken CAMB 550, or students in MD/PhD, veterinary,genetic counseling or nursing programs with equivalent courses. Must have directors permission to register.
Directors: Drs. Eileen Shore, Marcella Devoto, & Straun Grant

Building on the foundations of the Human Genome and HapMap projects, as well as parallel efforts in model organisms, research in human genetics and genomics is progressing rapidly. Our understanding of basic concepts in genetics, and Mendelian and non-Mendelian human genetic disease is proceeding at an unprecedented pace. This course will provide students with an overview to approaches to understanding current problems and techniques in human genetics. The format will be an advanced seminar course, with directed reading and students presentations. Prerequisites: This course is designed for students with previous background in graduate level genetics, i.e., CAMB graduate students having taken CAMB 550, or students in MD/PhD, veterinary, genetic counseling or nursing programs with equivalent courses. Offered fall semester even years. Back to top

CAMB 632: Cell Control by Signal Transduction Pathways
2018 Syllabus
Prerequisites: BIOM 600, Molecular and Cell Biology Courses. Priority given to PhD students. Class is limited to CAMB, PHARM, IMUN and other graduate students. Masters will go on waiting list.
Directors: Drs. Xianxin Hua, Donita Brady and Eric Witze

This course, "Cell control by signal transduction pathways", will examine how various signal transduction mechanisms influence cell functions including replication, growth, transcription, translation and intracellular trafficking. The primary signal transduction pathways to be examined include those mediate by Notch, TGF-ß, TNF-a, Ras, and Rho. We will also discuss intracellular signaling in response to DNA damage and explore in depth some of the key classes of enzymes involved in transmitting signals including kinases and phosphatases. Offered spring semester. Back to top

CAMB 691: Advanced Topics in Cell Biology and Physiology I
2018 Syllabus
Prerequisites: BIOM 600 or a similar survey course in cell biology. Permission needed for all non-CAMB students. Advanced undergrads must contact instructor to confirm qualifications.
Director: Dr. Ekaterina Grishchuk
Co-directors: Drs. Michael Marks & Carol Deutsch

This course, together with its companion CAMB 692, offers an advanced, in depth analysis of selected topics in cell biology and physiology. CAMB 691 and 692 are complementary courses that focus on different aspects of cell biology; these courses are offered on an alternating basis in the spring semester. The courses can be taken in either order, but require BIOM 600 or an equivalent background in basic cell biology. CAMB 691 will focus on key issues at the forefront of research in the areas of (1) Channels and transporters, (2) Vesicular and viral trafficking, (3) Tissue mechanics, (4) Heart and muscle physiology, (5) Cytoskeletal dynamics and cell division. The course format pairs faculty presentations with student-led discussion sessions highlighting important papers from the primary literature. Students will be evaluated on their presentations, their participation in class discussions, and weekly problem sets. Offered alternately in the spring semester with CAMB 692. Back to top

CAMB 692: Advanced Topics in Cell Biology and Physiology II
2019 Syllabus
Prerequisites: BIOM 600 or a similar survey course in cell biology, or the permission of the instructor.We encourage participation by non-CAMB students.
Directors: Drs. Joseph Baur & Robert Lee

Cells in complex organisms are required to adapt rapidly in a changing environment. Maintaining homeostasis while performing specialized functions requires that cells respond to extracellular signals as well as fluctuations in a host of intracellular metabolites. This course will cover selected topics and general principles related to signal transduction and the control of metabolic flux in living cells. The course format will include student-led discussion sessions both providing an overview of a topic as well as focusing on important papers from the primary literature. Students will be evaluated on their presentations and participation, as well as problem sets. Offered alternately in the spring semester with CAMB 691. Back to top

CAMB 695: Scientific Writing
2019 Syllabus
Prerequisites: BIOM 600, BIOM 555 and CAMB 605. Preference for enrollment in CAMB 695 is given to CAMB students with highest priority given to second-year students. Students from graduate groups other than CAMB may be enrolled if space permits.
Directors: Drs. Jonathan Katz, James Lok

This 7-week course is designed to introduce students to basic scientific writing skills and is based upon the premise that clear writing, giving feedback, and receiving feedback are all essential tools for professional development. While this is not strictly a prelin prelaratory course, applying the preinfiples of this course will help imrove your prelim writing and your scientific writing in general.

Structure: An initial introductory lecture for the entire class is followed by 6 weekly small group sessions. These sessions are conducted as workshops designed to enhance student and faculty engagement to improve scientific writing. During the course, participants review the principles of clear, persuasive writing, and apply these principles to writing for a scientific audience. Particular emphasis is placed on conveying the significance of your research, outlining your aims, and discussing your results. Classes are highly interactive, and the majority of class time will be spent discussing student scientific writing. In order to focus on the techniques of scientific writing, in-class discussion and critiques will not address scientific methodology or interpretations of results.

Evaluation: One of the goals of the course is to encourage active and open interaction among students, and grading will be predominantly based on class attendance, participation, and timely submission of assignments, not on the quality of the writing itself. Offered spring semester. Back to top

CAMB 697: Biology of Stem Cells
2018 Syllabus
Prerequisites: BGS Core Courses. Graduate students only. NO undergraduates. Students other than CAMB will need permits. CAMB students receive priority seating.
Directors: Drs. Paul Gadue & Pantelis Rompolas

The goal of this course is to introduce graduate students to the field of stem cell biology through lectures and reviews of important contributions from the literature.  Topics include embryonic stem cells, epigenetics and reprogramming, tissue specific stem cells such as hematopoetic, neuronal and epithelial stem cells, tissue regeneration, and tissue engineering. The future potential and challenges in stem cell and regeneration biology will be discussed. Important aspects of stem cell identification and characterization utilizing multiple model systems will also be a focus. Offered fall semester. Back to top

CAMB 698: Elective Tutorials in Cell and Molecular Biology
2019 Spring Syllabus

Prerequisite: Cell 600 or an alternative senior undergraduate, graduate, or professional school course in Cell Biology.
Directors: Dr. Robert Lee (Fall semester); Dr. Ben Stanger (Spring semester)

Interested students must contact Dr. Robert Lee (rjl@pennmedicine.upenn.edu) in the fall semester and Dr. Ben Stanger (bstanger@upenn.edu) in the spring semester. Prior to each semester in which the course is offered, students are encouraged to make arrangements with faculty on their own and contact mentors directly to set up an individualized plan. Student should submit proposed mentors/topics to the course director. The course director will approve the plan prior to beginning the independent study. This tutorial course is designed to provide students with an in-depth knowledge of a specific topic in Cell and Moleclular Biology. The tutorial can be used to enable students to become more deeply acquainted with the literature related to their field of interest or to expand on a topic that the student found interesting in one of their basic courses. Typically, students will meet weekly with their individual mentor and discuss 1-2 important papers. Grading is based on a final review-style paper and short presentation by each student to the entire class on their topic of study. Offered spring and fall semesters. Back to top

CAMB 700: Topics in Microbiology
2019 Syllabus
Prerequisites: Permission from instructor required. Student must have taken Immunology and 2 MVP pathogen classes.
Director: Dr. Michael Betts

This course is designed for second year students in the MVP program, and focuses on pathogen-host interactions.  Students make a presentation designed for 30 minutes on a topic of their choice.  The topic can be something that they are working on, or simply something that they are interested in.  They are requested to provide sufficient background, discuss what is known and what is not known about the topic, and then frame two to three Specific Aims.  The success of the course rests entirely upon the quality of the faculty and students involved.  In past years, the class have been very interactive, with each of the 11 classes lasting about 1.5 hours.  The discussions are deliberately wide-ranging, and review recent literature, techniques, and how to construct a grant. Generally, two faculty will be in attendance. Offered fall semester. Back to top

CAMB 701: Tumor Microenvironment
2018 Syllabus
Prerequisites: First year CAMB core courses must be completed. Course is for 2nd year graduate students and beyond. CB students get first priority followed by other CAMB students.
Directors: Drs. Sandra Ryeom and Ellen Puré

This course is designed for second year (and up) graduate students interested in learning about the tumor microenvironment. The course will cover the main players of the tumor microenvironment field (stroma, vasculature and immune cells) and emphasize the connections between the basic biology of the tumor microenvironment to potential therapeutic intervention. The goals of this course are to enrich scientific culture, train for clear and concise oral presentations, improve grant-writing skills, and develop critical thinking, professional composure, and discussion skills.

The course will be divided into 4 broad topic areas. The course will begin with 2 weeks of didactic lectures presented with overviews of Immunology, stroma cells and Angiogenesis/Endothelial cells. After that each session will consist of one hour of presentation of didactic background lecture regarding the salient points of that week's topic, followed in the second hour a discussion of a primary research paper to be read in advance of the session by all class participants. Discussions will include specific technical background needed for the paper, presentation of the data in the paper, leading discussion on the data and conclusions drawn from the paper and putting them in the context of state of the field. Each student will present twice throughout the course. Students will be guided in choosing the appropriate depth of background and topic area and in giving formal presentations and constructive criticism of scientific data. Additionally, each student will write a specific aim for a grant using one of his or her two presentations as "preliminary data" or their own research project provided it is related to the tumor microenvironment and is approved by one of the course directors.

Evaluation: Students will be evaluated on their participation in class (40%), their presentations (40%) and their written assignment (20%). Students will be given feedback immediately after their presentations. Offered fall semester. Back to top

CAMB 702: (BMB 650): Current Biochem. Topics
Prerequisite: Course is limited to BGS graduate students and undergrads from the Vagelos Scholars Program.
Directors: Drs. Ben Black & James Shorter

Participation in the "Dr. George W. Raiziss Biochemical Rounds", a weekly seminar program sponsored by the Department of Biochemistry and Biophysics. Program deals with a wide range of modern biochemical and biophysical topics presented by established investigators selected from our faculty, and by leading scientists from other institutions. Offered spring semester. Back to top

CAMB 703: The ECM, adhesion receptors, and translational biomechanics
2018 Syllabus
Prerequisite: BIOM 600
Directors: Drs. Robert Mauck & Rebecca Wells

This course is geared towards first and second year graduate students in BGS/CAMB and SEAS/BE with an interest in the interface of extracellular matrix (ECM) cell biology and biomechanics. Students will learn about the ECM and adhesion receptors and their impact on the cytoskeleton and signaling, as well as fundamental concepts in biomechanics and engineered materials. We will discuss how these topics can inform the study of cell biology, physiology and disease. An additional objective of the course is to give students experience in leading critical discussions and writing manuscript reviews. Invited outside speakers will complement the strengths of the Penn faculty. Offered spring semesters in even years. Back to top

CAMB 704: Stress Responses and Metabolism in Cancer
2018 Syllabus
Prerequisites: Must have taken first year CAMB courses. Permission to enroll is required from course directors, preference is given to second year CAMB students in the Cancer Biology and Cell Biology, Physiology and Metabolism Programs.
Directors: Celeste Simon, Zoltan Arany and Zachary Schug

The course meets once a week for student presentations and lectures. The first four weeks encompass lectures on state-of-the-art metabolic labeling, metabolomic, and other related methodologies. Subsequently, both “historical” and more recent papers in the field of cancer metabolism are reviewed with individual faculty experts in each chosen area. The overall goal of the course is to give students a better understanding of the abrogation of normal cellular metabolism and stress signaling during cancer, and how these interplay with each other to create\retain a malignant state. Offered fall semester. Back to top

CAMB 705: Advanced Topics in Bacterial-Host Interactions
2018 Syllabus
Prerequisites: Strong background in cell biology, immunology and/or bacteriology fulfilled by 1st yr CAMB (previous BGS courses). Course is limited to 2nd-3rd year graduate students or advanced undergraduates with course director’s permission.
Directors: Drs. Igor Brodsky & Sunny Shin

This course will delve into specific topics in general area of bacterial pathogenesis and bacteria-host interactions. We will exploring key historical and current papers on topics related to bacterial invasion of and replication within host cells, bacterial interference with host cell signaling pathways, bacterial interactions with host mucosal tissues, and the role of bacterial colonization in shaping and instructing host immune responses. Each week, a student will lead the class in the discussion of published papers on a specific topic. The format of each class will be a 10-15-minute introduction of the key background and underlying questions to be presented by the student, followed by an in-depth analysis by all members of the class of one to two articles. Students will be graded based on their introductory presentation and active participation in the paper discussions. Offered spring semester. Back to top

CAMB 706: MVP Core
2019 Fall Syllabus
Prerequisite: Required for all CAMB-MVP students. Non MVP students must obtain instructor permission to take this course.
Directors: Drs. Mike Betts and Matthew Weitzman

The MVP Core class, to be held in the Fall and Spring for first year CAMB-MVP students, will provide CAMB-MVP students with key fundamental knowledge of Microbiology, Virology, and Parasitology. The course will be organized into three sections after 2 overview lectures as described in the syllabus. Back to top

CAMB 708: HIV Virology/Pathogenesis/Cure Seminar/Journal Club
2019 Syllabus
Prerequisites: Strong background in cell biology, immunology or virology fulfilled by 1st year CAMB Courses. Course is limited to graduate students. Instructor permission required for non-CAMB graduate students.
Directors: Dr. Ronald Collman and Dr. Katharine Bar

This will be a year-long class, held every other week, that is paper-based utilizing the current literature in HIV virology, pathogenesis and cure research. The class will have a journal club format with attendance and participation open to the full Penn student & postdoc community (teach-your-peers). Enrolled students will responsible for approximately 4-5 presentations over the duration of the course, as well as for bi-weekly paper selection in conjunction with the instructors and coordinating the presentations by other participants. Back to top

CAMB 709: Quantitative Imaging and Analysis for Biologists (QIAB)
2018 Syllabus
Prerequisite: Open to BGS or Biology graduate students past their qualifying exam. Enrollment capped at < 20, with a priority given to those with a demonstrated need.
Director: Dr. Steve DiNardo, Co-director: Dr.Andrea Stout
Offered: Fall Semester, 6-week, 0.5 credit

In many areas of biomedical research, light microscopy plays a key role in advancing our understanding of biological processes. Images are often used only to provide general qualitative support for data obtained using other methods. However, the digital images acquired using modern scientific microscopes can yield so much more than pretty pictures. Accurate and quantitative analysis of image data can reveal important details invisible to other techniques; these details can, in turn, provide mechanistic insights into previously inscrutable phenomena. This course will provide an introduction to the fundamentals of modern light microscopy and image analysis. Topics include image acquisition methods, image data handling, object identification and tracking, simple modeling and macro programming, and single-molecule techniques.The goal is to provide students with the background and confidence required to pursue more advanced quantitative imaging methods as the need arises in their research. Grading: Students will be judged on active participation in class, completion of hands-on exercises during weekly recitation sessions, and a final presentation describing a “publication-quality” figure they have prepared from their own image data that applies at least one of the analysis methods covered in class. Back to top

CAMB 710 (BMB 605): Drug Discovery and Development
Director:Dr.Ben E.Black, UPenn and Dr.Craig A.Leach, GlaxoSmithKline

This course will expose graduate-level students to the process of drug
discovery and development. The course will be structured to cover topics from
the identification of a disease-relevant target through to Phase III Clinical
Trials. The course will be lecture based and there will also be student-led
journal club presentations as part of the course. There will also be a
writing project consisting of a 3 page proposal of how to advance one of the
areas of Drug Discovery & Development covered in the course.Back to top

CAMB 711: Integrative Plant and Animal Mechanobiology
2018 Syllabus
Director: Dr. Rebecca Wells

This course aims to provide students with an understanding of biomechanics that spans the plant and animal kingdoms, with the goal of emphasizing principles common to both. Major concepts include 1) Plant and Animal Cell Biology; 2) Solid, Fluid, and Transport Mechanics; and 3) Integrating Biology and Mechanics - Big Questions. In addition to lectures, there will be two journal article discussion sections. Most lectures will be given by Penn Faculty, although selected topics (particularly in plant biology and mechanics)will be covered by faculty at other sites through lectures brodcast remotely. The Penn drector will be present at all sessions of the class.Back to top

CAMB 713: Neuroepigenetics
Prerequisites: BIOM 555 or permission by course directors
Directors: Drs: Zhaolan Zhou, Elizabeth Heller, and Hao Wu

This is a course intended to bring students up to date concerning our understanding of Neural Epigenetics. It is based on assigned topics and readings covering a variety of experimental systems and concepts in the field of Neuroepigenetics, formal presentations by individual students, critical evaluation of primary data, and in-depth discussion of potential issues and future directions, with goals to: 1) Review basic concepts of epigenetics in the context of neuroscience, 2) Learn to critically evaluate a topic (not a single paper) and set the premise, 3) Improve experimental design and enhance rigor and reproducibility, 4) Catch up with the most recent development in neuroepigenetics, 5) Develop professional presentation skills - be a story teller. Each week will focus on a specific topic of Neuroepigenetics via a "seminar" style presentation by a class member. Back to top

CAMB 714: DIYtranscriptomics
Prerequisite: None
Director: Dr. Dan Beiting

As access to high-throughpput sequencing technology increases, the bottleneck in biomedical research has shifted from generating data, to analyzing and integrating diverse data types. Addressing these needs required that students and postdocs equip themselves with a toolkit for data mining and interrogation. This course focuses specifically on studying global gene expression (transcriptomics) through the use of the R programming environment and the Bioconductor suite of software packages - a versatile and robust collection of tools for bioinformatics, statistics, and plotting. During this semester-long course, students participate in a mix of lectures and guided code review, all while working with real datasets directly on their laptop. Students will learn to analyze RNAseq data using a lightweight and reusable set of modular scripts that leverage open-source software. In addition, students will learn best practices in data science for working in R/Bioconductor, including creating interactive data visualizations, making their analyses transparent and reproducible, and indentifying experimental bias in large datasets. Offered fall semester. Back to top

CAMB 752: (GCB 752): Genomics
Prerequisite: None
Director: Dr. Harold Riethman

Recent advances in molecular biology, computer science, and engineering have opened up new possibilities for studying the biology of organisms. Biologists now have access to the complete set of cellular instructions encodedin the DNA of specific organisms, including dozens of bacterial species, the yeast Saccharomyces cerevisiae, the nematode C. elegans, and the fruit fly Drosophila melanogaster.
The goals of the course are to 1) introduce the basic principles involved in mapping and sequencing genomes, 2) familiarize the students with new instrumentation, informatics tools, and laboratory automation technologies related to genomics; 3) teach the students how to access the information and biological materials that are being developed in genomics, and 4) examine how these new tools and resources are being applied to specific research. Offered spring semester.


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