BIO 1:
Human Evolution and Environment
Human genetic and cultural evolution and how people interact with their environments, from the ancestors of Australopithecus to current events. Issues include race, gender, and intelligence; pesticide and antibiotic resistance; abortion and contraception; ecosystem services; environmental economics and ethics; the evolution of religion; climate change; population growth and overconsumption; origins and spread of ideas and technologies; and the distribution of political and economic power.
Terms: Spr
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 2:
Current Research Topics in Biology
Primarily for sophomores interested in majoring in Biology. Weekly seminars by faculty: molecular biology and genetics; theory and mathematics in biology; ecology, physiology, and the environment; molecular and cellular aspects of neurobiology, immunology, and developmental biology; biological chemistry; behavioral biology; and evolution. May be repeated for credit.
Terms: Aut, Win
| Units: 1
| Repeatable
for credit
BIO 10SC:
Natural History, Marine Biology, and Research
The biology of Monterey Bay and the coastal mountains and redwood forests of Big Sur. Literary, artistic, and political history. Topics: conservation, sanctuary, and stewardship of the oceans and coastal lands. Meetings with conservationists, authors, environmentalists, politicians, land-use planners, lawyers, scientists, and educators.
Terms: Aut
| Units: 2
BIO 11N:
Biotechnology in Everyday Life
Preference to freshmen. The science that makes transgenic plants and animals possible. Current and future applications of biotechnology and the ethical issues raised.
| Units: 3
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 13N:
Environmental Problems and Solutions
Preference to freshmen. Students do independent investigations of current environmental problems, analyzing differing views of them and discussing possible solutions. Each student gives two seminar presentations and leads two seminar discussions. Short, documented position papers are written for policy makers.
Terms: Spr
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 14N:
Plants and Civilization
Preference to freshmen. The role of plants in the development of civilization. Topics: the use of forests, woodlands, and grazing lands; centers of origins and spread of crops; viticulture, and wine and beer making; the spice route and the age of exploration; the use of plants as medicine; the global spread of weeds; engineering plants for the future; the importance of tea, coffee, chocolate, sugar, potatoes, natural dyes, and rubber in societal affairs and change.
Terms: Win
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 15N:
Environmental Literacy
Preference to freshmen. Lack of public understanding of the details of most environmental problems is cited as a cause of environmental deterioration. Good citizenship requires literacy about the elements of the scientific and decision making processes that accompany most environmental issues: what can happen, what are the odds, how can the credibility of sources of expertise be assessed, which components of environmental debates deal with factual and theoretical issues, and which are political value judgments?
Terms: Win
| Units: 3
| UG Reqs: GER: DB-NatSci, WAY-SMA, Writing 2
BIO 16N:
Island Ecology
Preference to freshmen. How ecologists think about the world. Focus is on the Hawaiian Islands: origin, geology, climate, evolution and ecology of flora and fauna, and ecosystems. The reasons for the concentration of threatened and endangered species in Hawaii, the scientific basis for their protection and recovery. How knowledge of island ecosystems can contribute to ecology and conservation biology on continents.
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 20:
Introduction to Brain and Behavior (HUMBIO 21)
Evolutionary principles to understand how the brain regulates behavior, described in physiological terms, and is influenced by behavioral interactions. Topics include neuron structure and function, transmission of neural information, anatomy and physiology of sensory and motor systems, regulation of body states, the biological basis of learning and memory, and behavioral abnormalities.
Terms: Aut
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 23N:
Microbes, Mysteries, and Metagenomics
Preference to freshmen. Microbes, the unseen majority in the world, but only in the last decades have methods been developed to investigate their diversity. How are these new technologies shaping appreciation of microbial diversity? Discoveries in genomics and metagenomics, and the interfaces among bioinformatics, evolutionary biology, and synthetic biology. Emphasis is on microbes in the environment and current ability to dissect the interactions of ubiquitous and complex microbial communities.
Terms: Aut
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 25N:
Biogeography of Disease
Preference to freshmen. Geographic distribution of disease. Biotic interactions among vectors, hosts, and environment. Influence of climatic and environmental change on spread and virulence of disease. Human and animal diseases. Primary literature.
Terms: Aut
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 25Q:
The Molecular Basis of Genetic Disease
Preference to sophomores. Focus is on two genetic diseases resulting from the production of protein molecules that are unable to fold into their native conformations, called conformational diseases: cystic fibrosis and amyotrophic lateral sclerosis or Lou Gehrig's disease. Hypotheses and controversies surrounding the molecular basis of these disorders, and implications for novel therapeutics. Readings from research literature.
Terms: Spr
| Units: 3
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 26N:
Maintenance of the Genome
Preference to freshmen. Focus is on DNA repair systems which scan the genome to ensure genomic stability in the face of natural endogenous threats to DNA and those due to radiation and chemicals in the external environment. Redundancy of the genetic message ensured by complementary DNA strands facilitates recovery of information when one of the strands is altered. Predisposition to cancer often implicates a defective DNA repair gene. Relevance for oncology, aging, developmental biology, environmental health, and neurobiology.
Terms: Spr
| Units: 3
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 30:
Frontiers in Marine Science
The diversity of marine environments and their inhabitants; physical ocenaography; near shore and pelagic ecology; adaptations to aquatic life and extreme conditions; and global change, conservation, and the effects of human activity. Field trip to Stanford's Hopkins Marine Station; taught by Hopkins faculty.
Terms: Aut
| Units: 2
BIO 31Q:
Ants: Behavior, Ecology, and Evolution
Preference to sophomores. Behavior: the organization of colonies, how they operate without central control, how they resemble other complex systems like brains. Ecology: how populations of colonies change, comparing the ecology of a species in SW American desert and invasive Argentine ants. Evolution: why are there so many species of ants; how are they alike, how do they differ, and why? Ants as the theme for exploring how to do research in animal behavior, ecology, and evolution. Research project will be on the invasive Argentine ant: its distribution on campus, foraging trails, and nest structure.
Terms: Spr
| Units: 3
BIO 33N:
Conservation Science and Practice
Preference to freshmen. Interdisciplinary. The science and art of conservation today. The forces that are driving change in Earth's atmosphere, lands, waters, and variety of life forms. Which broad dimensions of the biosphere, and which elements of ecosystems, most merit protection? The prospects for, and challenges in, making conservation economically attractive and commonplace. Field trip; project.
| Units: 3
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 41:
Genetics, Biochemistry, and Molecular Biology
First of a three part sequence, preferably taken in the sophomore year. Emphasis is on macromolecules (proteins, lipids, carbohydrates, and nucleic acids) and how their structure relates to function and higher order assembly; molecular biology, genome structure and dynamics, gene expression from transcription to translation. Biology majors must take course for a letter grade. Prerequisites: CHEM 31X (or 31A and B), 33, 35; MATH 19, 20, 21, or 41, 42.
Terms: Aut
| Units: 5
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 42:
Cell Biology and Animal Physiology
Second of a three part sequence, preferably taken in the sophomore year. Cell structure and function; principles of animal physiology (immunology, renal, cardiovascular, sensory, motor physiology, and endocrinology); neurobiology from cellular basis to neural regulation of physiology. Biology majors must take course for a letter grade. Prerequisites: CHEM 31X (or 31A and B), 33, 35; MATH 19, 20, 21, or 41, 42.
Terms: Win
| Units: 5
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 43:
Plant Biology, Evolution, and Ecology
Third of a three part sequence, preferably taken in the sophomore year. Principles of evolution: macro- and microevolution and population genetics. Ecology: the principles underlying the exchanges of mass and energy between organisms and their environments; population, community, and ecosystem ecology; populations, evolution, and global change. Equivalent to BIOHOPK 43. Biology majors must take course for a letter grade. Prerequisites: CHEM 31X (or 31A and B), 33, 35; MATH 19, 20, 21, or 41, 42.
Terms: Spr
| Units: 5
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 44X:
Core Experimental Laboratory
Two quarters of lab projects provide a working familiarity with the concepts, organisms, and techniques of modern biological research. Emphasis is on experimental design, analysis of data, and written and oral presentation of the experiments. Lab fee. Prerequisites: CHEM 31X, or 31A,B, and 33. Recommended: statistics, and concurrent enrollment in Biology or Human Biology core; 44X,Y should be taken sequentially in same year. 44Y equivalent to BIOHOPK 44Y.
Terms: Win
| Units: 4
| UG Reqs: WAY-SMA
BIO 44Y:
Core Experimental Laboratory
Two quarters of lab projects provide a working familiarity with the concepts, organisms, and techniques of modern biological research. Emphasis is on experimental design, analysis of data, and written and oral presentation of the experiments. Lab fee. Prerequisites: CHEM 31X, or 31A,B, and 33. Recommended: statistics, and concurrent enrollment in Biology or Human Biology core; 44X,Y should be taken sequentially in same year. 44Y equivalent to BIOHOPK 44Y.
Terms: Spr
| Units: 4
| UG Reqs: WAY-SMA
BIO 6N:
Climate Change: Drivers, Impacts, and Solutions
The scientific understanding of climate change, and the evidence, driving forces, and options for managing its impacts.
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 96A:
Jasper Ridge Docent Training
Two quarter preparation for Stanford and community students to join the Jasper Ridge education program. Multidisciplinary environmental education; hands-on field research. Field ecology and the natural history of plants and animals, archaeology, geology, hydrology, land management, and research projects of the preserve presented by faculty, local experts, and staff. Participants lead research-focused educational tours, assist with classes, and attend continuing education classes available to members of the JRBP community after the course.
Terms: Win
| Units: 4
BIO 96B:
Jasper Ridge Biological Preserve Docent Training Program
Two quarter preparation for Stanford and community students to join the Jasper Ridge education program. Multidisciplinary environmental education; hands-on field research. Field ecology and the natural history of plants and animals, archaeology, geology, hydrology, land management, and research projects of the preserve presented by faculty, local experts, and staff. Participants lead research-focused educational tours, assist with classes, and attend continuing education classes available to members of the JRBP community after the course.
Terms: Spr
| Units: 4
BIO 101:
Ecology
The principles of ecology. Topics: interactions of organisms with their environment, dynamics of populations, species interactions, structure and dynamics of ecological communities, biodiversity. Prerequisite: 43, or consent of instructor. Recommended: statistics.
Terms: Aut
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 102:
Demography: Health, Development, Environment (HUMBIO 119)
Demographic methods and their application to understanding and projecting changes in human infant, child, and adult mortality and health, fertility, population, sex ratios, and demographic transitions. Progress in human development, capabilities, and freedoms. Relationships between population and environment. Prerequisites: numeracy and basic statistics; Biology or Human Biology core; or consent of instructor.
Terms: Spr
| Units: 3
| UG Reqs: GER:DB-SocSci
BIO 104:
Advanced Molecular Biology (BIO 200)
Molecular mechanisms that govern the replication, recombination, and expression of eukaryotic genomes. Topics: DNA replication, DNA recombination, gene transcription, RNA splicing, regulation of gene expression, protein synthesis, and protein folding. Prerequisite: Biology core.
Terms: Win
| Units: 5
| UG Reqs: GER: DB-NatSci
BIO 106:
Human Origins (ANTHRO 6, ANTHRO 206, HUMBIO 6)
The human fossil record from the first non-human primates in the late Cretaceous or early Paleocene, 80-65 million years ago, to the anatomically modern people in the late Pleistocene, between 100,000 to 50,000 B.C.E. Emphasis is on broad evolutionary trends and the natural selective forces behind them.
Terms: Win
| Units: 5
| UG Reqs: GER: DB-NatSci
BIO 109A:
The Human Genome and Disease (BIO 209A, HUMBIO 158)
The variability of the human genome and the role of genomic information in research, drug discovery, and human health. Concepts and interpretations of genomic markers in medical research and real life applications. Human genomes in diverse populations. Original contributions from thought leaders in academia and industry and interaction between students and guest lecturers.
Terms: Win
| Units: 3
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 109B:
The Human Genome and Disease: Genetic Diversity and Personalized Medicine (BIO 209B)
Continuation of 109A/209A. Genetic drift: the path of human predecessors out of Africa to Europe and then either through Asia to Australia or through northern Russia to Alaska down to the W. Coast of the Americas. Support for this idea through the histocompatibility genes and genetic sequences that predispose people to diseases. Guest lectures from academia and pharmaceutical companies. Prerequisite: Biology or Human Biology core.
Terms: Spr
| Units: 3
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 112:
Human Physiology (BIO 212, HUMBIO 133)
The functioning of organ systems emphasizing mechanisms of control and regulation. Topics: structure and function of endocrine and central nervous systems, cardiovascular physiology, respiration, salt and water balance, exercise, and gastrointestinal physiology. Prerequisite: Biology or Human Biology core.
Terms: Win
| Units: 4
| UG Reqs: GER: DB-NatSci
BIO 113:
Fundamentals of Molecular Evolution (BIO 244)
The inference of key molecular evolutionary processes from DNA and protein sequences. Topics include random genetic drift, coalescent models, effects and tests of natural selection, combined effects of linkage and natural selection, codon bias and genome evolution. Prerequisites: Biology core or graduate standing in any department, and consent of instructor.
| Units: 4
| UG Reqs: GER: DB-NatSci
BIO 117:
Biology and Global Change (EARTHSYS 111)
The biological causes and consequences of anthropogenic and natural changes in the atmosphere, oceans, and terrestrial and freshwater ecosystems. Topics: glacial cycles and marine circulation, greenhouse gases and climate change, tropical deforestation and species extinctions, and human population growth and resource use. Prerequisite: Biology or Human Biology core or graduate standing.
Terms: Win
| Units: 4
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 118:
Genetic Analysis of Biological Processes (BIO 218)
Genetic principles and their experimental applications. Emphasis is on the identification and use of mutations to study cellular function. Prerequisite: Biology core.
Terms: Spr
| Units: 5
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 121:
Biogeography
Global distributions of organisms through the Phanerozoic, with emphasis on historical causes. Topics: plate tectonics, island biogeography, climatic change, dispersal, vicariance, ecology of invasions, extinction, gradients, diversity.
Terms: Spr
| Units: 3
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 125:
Ecosystems of California
The diversity and functioning of California ecosystems through time and how human beings have impacted and managed them. Prerequisite: 43, HUMBIO 2A, or EARTHSYS 10.
Terms: Spr
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 129A:
Cellular Dynamics I: Cell Motility and Adhesion
Cell motility emphasizing role of actin assembly and dynamics coupling actin organization to cell movement. Interaction of cells with extracellular matrix, and remodelling of extracellular matrix in development and disease. Directed cell migration by chemotaxis (neuronal path-finding, immune cells). Cell-cell adhesion, formation of intercellular junctions and mechanisms regulating cell-cell interactions in development and diseases. Emphasis is on experimental logic, methods, problem solving, and interpretation of results. Students present research papers. Prerequisite: Biology core.
| Units: 4
| UG Reqs: GER: DB-NatSci, WAY-AQR, WAY-SMA
BIO 130:
Current Issues in Paleoanthropology (ANTHRO 162C, ANTHRO 262C)
Current issues in fossil, archaeological, and genetic evidence for human evolution. Topics chosen by participants. May be repeated for credit.
Terms: Aut
| Units: 1
| Repeatable
for credit
BIO 132:
Advanced Imaging Lab in Biophysics (BIO 232, BIOPHYS 232, MCP 232)
Laboratory and lectures. Advanced microscopy and imaging, emphasizing hands-on experience with state-of-the-art techniques. Students construct and operate working apparatus. Topics include microscope optics, Koehler illumination, contrast-generating mechanisms (bright/dark field, fluorescence, phase contrast, differential interference contrast), and resolution limits. Laboratory topics vary by year, but include single-molecule fluorescence, fluorescence resonance energy transfer, confocal microscopy, two-photon microscopy, and optical trapping. Limited enrollment. Recommended: basic physics, Biology core or equivalent, and consent of instructor.
Terms: Spr
| Units: 4
| UG Reqs: GER: DB-NatSci
BIO 133:
Genetics of Prokaryotes
Genetic approaches for understanding cellular processes in bacteria, including metabolism, adaptive and stress responses, signal transduction, gene expression, genetic exchange and recombination, chromosome dynamics and evolution, cell division, motility, surface attachment, and developmental responses. Emphasis is on the power of effectively combining genetics with biochemistry, microscopy, and genomics. Prerequisite: Biology core.
Terms: Aut
| Units: 4
| UG Reqs: GER: DB-NatSci
BIO 134:
Replication of DNA
Seminar. Modes of DNA replication and their control in prokaryotes and eukaryotes. Structures, properties, and functions of DNA polymerases and associated factors. Emphasis is on experimental approaches and their limitations. Current research literature. Students prepare journal club style report and lead class discussions. Enrollment limited to 20 advanced undergraduates. Prerequisite: Biology core. Recommended: 118.
Terms: Win
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 136:
Evolutionary Paleobiology
A paleontological approach to evolutionary theory. Topics: history of life, speciation, heterochrony, evolutionary constraint, coevolution, macroevolution, the Cambrian Explosion, mass extinctions, taphonomy, life on land, life in the sea, life in the air.
| Units: 4
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 137:
Plant Genetics (BIO 237)
Gene analysis, mutagenesis, transposable elements; developmental genetics of flowering and embryo development; biochemical genetics of plant metabolism; scientific and societal lessons from transgenic plants. Prerequisite: Biology core or consent of instructor.
Terms: Spr
| Units: 3-4
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 139:
Biology of Birds
How birds interact with their environments and each other, emphasizing studies that had impact in the fields of population biology, community ecology, and evolution. Local bird communities. Emphasis is on field research. Enrollment limited to 20. Prerequisites: 43 or equivalent, and consent of instructor. Recommended: birding experience.
Terms: Spr
| Units: 3
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 141:
Biostatistics (STATS 141)
Introductory statistical methods for biological data: describing data (numerical and graphical summaries); introduction to probability; and statistical inference (hypothesis tests and confidence intervals). Intermediate statistical methods: comparing groups (analysis of variance); analyzing associations (linear and logistic regression); and methods for categorical data (contingency tables and odds ratio). Course content integrated with statistical computing in R. See http://www-stat.stanford.edu/~rag/stat141/.
Terms: Aut
| Units: 4-5
| UG Reqs: GER:DB-Math, WAY-AQR
BIO 143:
Evolution (BIO 243)
The basic facts and principles of the evolution of all life. The logic of and evidence for the correctness of Darwin's argument for evolution by natural selection. How Mendelian genetics was integrated into evolutionary thinking. The integration of physiological and ecological perspectives into the study of evolutionary adaptation within species. Species formation and evolutionary divergence among species. Patterns of evolution over long time scales.
Terms: Aut
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 144:
Conservation Biology (HUMBIO 112)
Principles and application of the science of preserving biological diversity. Topics: sources of endangerment of diversity; the Endangered Species Act; conservation concepts and techniques at the population, community, and landscape levels; reserve design and management; conflict mediation. 4 units if taken with a service learning component. Prerequisite: BIO 101, or BIO 43 or HUMBIO 2A with consent of instructor.
Terms: Win
| Units: 3-4
| UG Reqs: GER: DB-NatSci
BIO 146:
Population Studies
Series of talks by distinguished speakers introducing approaches to population and resource studies.
Terms: Win
| Units: 1
| Repeatable
for credit
BIO 147:
Controlling Climate Change in the 21st Century (BIO 247, EARTHSYS 147, EARTHSYS 247, HUMBIO 116)
Global climate change science, impacts, and response strategies. Topics: scientific understanding of the climate system; modeling future climate change; global and regional climate impacts and vulnerability; mitigation and adaptation approaches; the international climate policy challenge; and decarbonization of energy and transportation systems.
Terms: Win
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 149:
The Neurobiology of Sleep (BIO 249, HUMBIO 161)
(Graduate students register for 249.) Preference to seniors and graduate students. The neurochemistry and neurophysiology of changes in brain activity and conscious awareness associated with changes in the sleep/wake state. Behavioral and neurobiological phenomena including sleep regulation, sleep homeostasis, circadian rhythms, sleep disorders, sleep function, and the molecular biology of sleep. Enrollment limited to 16.
Terms: Win
| Units: 4
| UG Reqs: GER: DB-NatSci
BIO 150:
Human Behavioral Biology (BIO 250, HUMBIO 160)
Multidisciplinary. How to approach complex normal and abnormal behaviors through biology. How to integrate disciplines including sociobiology, ethology, neuroscience, and endocrinology to examine behaviors such as aggression, sexual behavior, language use, and mental illness.
| Units: 5
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 151:
Mechanisms of Neuron Death
For Biology majors with background in neuroscience. Cell and molecular biology of neuron death during neurological disease. Topics: the amyloid diseases (Alzheimer's), prion diseases (kuru and Creutzfeldt-Jakob), oxygen radical diseases (Parkinson's and ALS), triplet repeat diseases (Huntington's), and AIDS-related dementia. Student presentations. Enrollment limited to 15; application required.
Terms: Aut
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 153:
Cellular Neuroscience: Cell Signaling and Behavior
Neural interactions underlying behavior. Prerequisites: PSYCH 1 or basic biology.
| Units: 4
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 154:
Molecular and Cellular Neurobiology (BIO 254, NBIO 254)
For advanced undergraduates and graduate students. Cellular and molecular mechanisms in the organization and functions of the nervous system. Topics: wiring of the neuronal circuit, synapse structure and synaptic transmission, signal transduction in the nervous system, sensory systems, molecular basis of behavior including learning and memory, molecular pathogenesis of neurological diseases. Prerequisite for undergraduates: Biology core or equivalent, or consent of instructors.
Terms: Aut
| Units: 4-5
| UG Reqs: GER: DB-NatSci
BIO 157:
Plant Biochemistry (BIO 257)
The biochemistry of plants relevant to their physiology and cell biology. Topics include: the biosynthesis, assembly, function, and regulation of cell walls; lipids; pigments; photoreceptors; transporters; and the response of plants to pathogens and stresses. Prerequisite: Biology core or equivalent, or consent of instructors.
Terms: Spr
| Units: 3-4
| UG Reqs: GER: DB-NatSci
BIO 158:
Developmental Neurobiology
For advanced undergraduates and coterminal students. The principles of nervous system development from the molecular control of patterning, cell-cell interactions, and trophic factors to the level of neural systems and the role of experience in influencing brain structure and function. Topics: neural induction and patterning cell lineage, neurogenesis, neuronal migration, axonal pathfinding, synapse elimination, the role of activity, critical periods, and the development of behavior. Prerequisite: BIO 42 or equivalent.
Terms: Spr
| Units: 4
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 160A:
Developmental Biology and Signal Transduction I
Focus is on the molecular mechanisms underlying the generation of diverse cell types and tissues during embryonic and post-embryonic animal development. The role of cell-cell communication in controlling key developmental decisions. Embryonic axis formation, cell fate specification, regulation of tissue and animal size, tissue regeneration, and the evolution of developmental mechanisms. Experimental logic and methods of research in developmental biology. Discussions of research papers. Prerequisite: Biology core or consent of instructor.
Terms: Win
| Units: 4
| UG Reqs: GER: DB-NatSci, WAY-SMA
BIO 160B:
Developmental Biology and Signal Transduction II
Continuation of BIO 160A. Focus is on the molecular mechanisms underlying the generation of diverse cell types and tissues during embryonic and post-embryonic animal development. The role of cell-cell communication in controlling key developmental decisions. Embryonic axis formation, cell fate specification, regulation of tissue and animal size, tissue regeneration, and the evolution of developmental mechanisms. Experimental logic and methods of research in developmental biology. Discussions of research papers. Prerequisites: Biology Core and BIO 160A, or consent of instructor.
Terms: Spr
| Units: 4
| UG Reqs: GER: DB-NatSci
BIO 161:
Molecular Basis of Biological Communication
Across molecular, cellular, organismal and communal biological scales, communication among elements of a system is required for its function. The molecules and logic at the heart of communication at levels from the interactions between cells in a developing body to how organisms perceive and respond to their physical environment and the organisms around them; how these systems normally work and how failures in communication result in and from disease. Current research literature. Prerequisites: BIO 41, 42. Recommended: BIO 160A, 129A.
Terms: Spr
| Units: 4
| UG Reqs: WAY-SMA
BIO 164:
Biosphere-Atmosphere Interactions (BIO 264)
Physiological, ecological, and physical aspects of ecosystem function, emphasizing how ecosystems influence and are influenced by the atmosphere. Prerequisites: 42, 43; or consent of instructor.
Terms: Win
| Units: 4
| UG Reqs: GER: DB-NatSci
BIO 165:
Cellular and Molecular Therapeutic Approaches to Neurological Disorders (BIO 265)
Current therapeutic research for neurological conditions, including stroke, epilepsy, neurodegenerative disorders, depression, anxiety, and aging. Sources include primary literature. Guest lecturers.
Terms: Win
| Units: 1
BIO 166:
Fanual Analysis: Animal Remains for the Archaeologist (ANTHRO 113, ANTHRO 213, BIO 266)
The analysis of fossil animal bones and shells to illuminate the behavior and ecology of prehistoric collectors, especially ancient humans. Theoretical and methodoloigcal issues. The identification, counting, and measuring of fossil bones and shells. Labs. Methods of numerical analysis.
Terms: Spr
| Units: 5
BIO 175:
Tropical Ecology and Conservation
Field trip to a field station at Los Tuxtlas, Mexico; lectures at Stanford. How to address scientific questions concerning ecology and conservation. Field trip includes natural history observations and group research projects. Symposium based on project results. Recommended: 43, 101, and 141 or STATS 60.
Terms: Spr
| Units: 5
| UG Reqs: GER: DB-NatSci
BIO 178:
Microbiology Literature (BIO 278)
Critical reading of the research literature in prokaryotic genetics and molecular biology. For advanced undergraduates and first or second year graduate students. Classic and foundational papers in microbiology and molecular biology; more recent literature on prokaryotic biochemistry, genomics, pathogenesis, and cell biology. Prerequisites: Biology Core and two upper-division courses in genetics, molecular biology, or biochemistry.
Terms: Win
| Units: 3
BIO 180:
Fundamentals of Sustainable Agriculture (BIO 280, EARTHSYS 180, EARTHSYS 280)
Ecological, economic, and social dimensions of sustainable agriculture in the context of a growing world population. Focus is on management and technological approaches, and historical content of agricultural growth and change, organic agriculture, soil and water resource management, nutrient and pest management, biotechnology, ecosystem services, and climate change.
Terms: Spr
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 185:
Evolution of Reproductive Social Behavior (BIO 285)
Seminar. Controversies surrounding theory and data for the evolution of sex, gender, and sexuality. Issues include the critique of Darwin's theory of sexual selection, and the accuracy of the metaphor of universal selfishness and sexual conflict in biological nature. Readings include Evolution's Rainbow and The Genial Gene, and primary literature.
Terms: Aut
| Units: 3
| UG Reqs: GER: DB-NatSci, GER:EC-Gender
BIO 188:
Biochemistry I (BIO 288, CHEM 181, CHEMENG 181, CHEMENG 281)
(CHEMENG offerings formerly listed as 188/288.) Chemistry of major families of biomolecules including proteins, nucleic acids, carbohydrates, lipids, and cofactors. Structural and mechanistic analysis of properties of proteins including molecular recognition, catalysis, signal transduction, membrane transport, and harvesting of energy from light. Molecular evolution. Prerequisites: CHEM 135 or 171.
Terms: Win
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 189:
Biochemistry II (BIO 289, CHEM 183, CHEMENG 183, CHEMENG 283)
(CHEMENG offerings formerly listed as 189/289.) Metabolism. Glycolysis, gluconeogenesis, citric acid cycle, oxidative phosphorylation, pentose phosphate pathway, glycogen metabolism, fatty acid metabolism, protein degradation and amino acid catabolism, protein translation and amino acid biosynthesis, nucleotide biosynthesis, DNA replication, recombination and repair, lipid and steroid biosynthesis. Medical consequences of impaired metabolism. Therapeutic intervention of metabolism. Prerequisite: BIO 188/288 or CHEM 181 or CHEMENG 181/281 (formerly 188/288).
Terms: Spr
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 191:
Research in Bird Biology
Semi-independent field research in ornithology emphasizing ecological relationships. Projects involve research, planned and carried out by the student in consultation with the instructor. Results are written in publication format. Enrollment limited. Prerequisites: 43, concurrent or subsequent enrollment in 139, and consent of instructor.
Terms: Win, Spr
| Units: 1-4
BIO 198:
Directed Reading in Biology
Individually arranged under the supervision of members of the faculty.
Terms: Aut, Win, Spr, Sum
| Units: 1-15
| Repeatable
10 times
(up to 60 units total)
Instructors: ;
Baker, B. (PI);
Barton, K. (PI);
Bergmann, D. (PI);
Berry, J. (PI);
Block, B. (PI);
Block, S. (PI);
Boggs, C. (PI);
Burkholder, B. (PI);
Campbell, A. (PI);
Cyert, M. (PI);
Daily, G. (PI);
Denny, M. (PI);
Dirzo, R. (PI);
Ehrlich, P. (PI);
Epel, D. (PI);
Fang, G. (PI);
Feldman, M. (PI);
Fernald, R. (PI);
Field, C. (PI);
Frommer, W. (PI);
Frydman, J. (PI);
Fukami, T. (PI);
Gilly, W. (PI);
Gordon, D. (PI);
Gozani, O. (PI);
Grossman, A. (PI);
Hadly, E. (PI);
Hanawalt, P. (PI);
Heller, H. (PI);
Jones, P. (PI);
Khalfan, W. (PI);
Klein, R. (PI);
Kopito, R. (PI);
Long, S. (PI);
Luo, L. (PI);
McConnell, S. (PI);
Micheli, F. (PI);
Mooney, H. (PI);
Mudgett, M. (PI);
Nelson, W. (PI);
Palumbi, S. (PI);
Petrov, D. (PI);
Root, T. (PI);
Roughgarden, J. (PI);
Sapolsky, R. (PI);
Schneider, S. (PI);
Schnitzer, M. (PI);
Shen, K. (PI);
Simon, M. (PI);
Simoni, R. (PI);
Skotheim, J. (PI);
Somero, G. (PI);
Somerville, C. (PI);
Spormann, A. (PI);
Stearns, T. (PI);
Thompson, S. (PI);
Tuljapurkar, S. (PI);
Vitousek, P. (PI);
Walbot, V. (PI);
Wang, Z. (PI);
Watanabe, J. (PI);
Watt, W. (PI);
Weissman, I. (PI)
BIO 198X:
Out-of-Department Directed Reading
Individually arranged under the supervision of members of the faculty. Credit for work arranged with out-of-department faculty is restricted to Biology majors and requires department approval. See http://biohonors.stanford.edu for information and petitions. May be repeated for credit.
Terms: Aut, Win, Spr, Sum
| Units: 1-15
| Repeatable
10 times
(up to 60 units total)
Instructors: ;
Abrams, W. (PI);
Chan, P. (PI);
Chang, J. (PI);
Cimprich, K. (PI);
Clandinin, T. (PI);
Contag, C. (PI);
Cooke, J. (PI);
Darian-Smith, C. (PI);
Gardner, C. (PI);
Gold, G. (PI);
Goodman, M. (PI);
Goodman, S. (PI);
Hallmayer, J. (PI);
Heilshorn, S. (PI);
Herzenberg, L. (PI);
Hestrin, S. (PI);
Hsu, S. (PI);
Kobilka, B. (PI);
Koong, A. (PI);
Krams, S. (PI);
Kuo, C. (PI);
Kushida, C. (PI);
Levy, R. (PI);
Lipsick, J. (PI);
Lyons, D. (PI);
Maduke, M. (PI);
Manber, R. (PI);
Mellins, E. (PI);
Michie, S. (PI);
Nadeau, K. (PI);
Peebles, R. (PI);
Peehl, D. (PI);
Raymond, J. (PI);
Rothschild, L. (PI);
Sarnow, P. (PI);
Steinberg, G. (PI);
Tse, V. (PI);
Wine, J. (PI);
Yang, Y. (PI)
BIO 199:
Advanced Research Laboratory in Experimental Biology
Individual research taken by arrangement with in-department instructors. See http://biohonors.stanford.edu for information on research sponsors, units, and credit for summer research. May be repeated for credit.
Terms: Aut, Win, Spr, Sum
| Units: 1-15
| Repeatable
15 times
(up to 60 units total)
Instructors: ;
Baker, B. (PI);
Barton, K. (PI);
Bergmann, D. (PI);
Berry, J. (PI);
Block, B. (PI);
Block, S. (PI);
Boggs, C. (PI);
Burkholder, B. (PI);
Campbell, A. (PI);
Cyert, M. (PI);
Daily, G. (PI);
Denny, M. (PI);
Dirzo, R. (PI);
Ehrlich, P. (PI);
Epel, D. (PI);
Fang, G. (PI);
Feldman, M. (PI);
Fernald, R. (PI);
Field, C. (PI);
Frommer, W. (PI);
Frydman, J. (PI);
Fukami, T. (PI);
Gilly, W. (PI);
Gordon, D. (PI);
Gozani, O. (PI);
Grossman, A. (PI);
Hadly, E. (PI);
Hanawalt, P. (PI);
Heller, H. (PI);
Jones, P. (PI);
Klein, R. (PI);
Kopito, R. (PI);
Long, S. (PI);
Luo, L. (PI);
McConnell, S. (PI);
Micheli, F. (PI);
Mooney, H. (PI);
Mudgett, M. (PI);
Nelson, W. (PI);
Palumbi, S. (PI);
Petrov, D. (PI);
Root, T. (PI);
Roughgarden, J. (PI);
Sapolsky, R. (PI);
Schneider, S. (PI);
Schnitzer, M. (PI);
Shen, K. (PI);
Simon, M. (PI);
Simoni, R. (PI);
Skotheim, J. (PI);
Somero, G. (PI);
Somerville, C. (PI);
Spormann, A. (PI);
Stearns, T. (PI);
Thompson, S. (PI);
Tuljapurkar, S. (PI);
Vitousek, P. (PI);
Walbot, V. (PI);
Wang, Z. (PI);
Watanabe, J. (PI);
Watt, W. (PI);
Weissman, I. (PI)
BIO 199X:
Out-of-Department Advanced Research Laboratory in Experimental Biology
Individual research by arrangement with out-of-department instructors. Credit for 199X is restricted to declared Biology majors and requires department approval. See http://biohonors.stanford.edu for information on research sponsors, units, petitions, deadlines, credit for summer research, and out-of-Stanford research. May be repeated for credit.
Terms: Aut, Win, Spr, Sum
| Units: 1-15
| Repeatable
15 times
(up to 60 units total)
Instructors: ;
Adler, J. (PI);
Agras, W. (PI);
Altman, R. (PI);
Andriacchi, T. (PI);
Ariagno, R. (PI);
Arrigo, K. (PI);
Artandi, S. (PI);
Arvin, A. (PI);
Axelrod, J. (PI);
Baker, J. (PI);
Barr, D. (PI);
Barres, B. (PI);
Barsh, G. (PI);
Barton, K. (PI);
Bass, D. (PI);
Batzoglou, S. (PI);
Bernstein, D. (PI);
Blaschke, T. (PI);
Blau, H. (PI);
Bogyo, M. (PI);
Boothroyd, J. (PI);
Bouley, D. (PI);
Boxer, L. (PI);
Boxer, S. (PI);
Briggs, W. (PI);
Brown, J. (PI);
Brown, P. (PI);
Brundage, S. (PI);
Brunet, A. (PI);
Brutlag, D. (PI);
Buckmaster, P. (PI);
Buckwalter, M. (PI);
Butcher, E. (PI);
Calos, M. (PI);
Cartwright, C. (PI);
Cavalli-Sforza, L. (PI);
Chan, P. (PI);
Chang, H. (PI);
Chang, K. (PI);
Chase, R. (PI);
Chawla, A. (PI);
Chen, J. (PI);
Chien, Y. (PI);
Chu, G. (PI);
Cimprich, K. (PI);
Clandinin, T. (PI);
Clayberger, C. (PI);
Cleary, M. (PI);
Cochran, J. (PI);
Cohen, H. (PI);
Cohen, S. (PI);
Collman, J. (PI);
Conley, F. (PI);
Constantinou, C. (PI);
Contag, C. (PI);
Cooke, J. (PI);
Cooper, A. (PI);
Crabtree, G. (PI);
Criddle, C. (PI);
Dalman, R. (PI);
Davis, M. (PI);
Davis, R. (PI);
Deisseroth, K. (PI);
Dement, W. (PI);
Dolmetsch, R. (PI);
Doniach, S. (PI);
Dorfman, L. (PI);
Dragoo, J. (PI);
Ehrhardt, D. (PI);
Eng, L. (PI);
Engleman, E. (PI);
Falcon, W. (PI);
Falkow, S. (PI);
Fathman, C. (PI);
Feldman, D. (PI);
Felsher, D. (PI);
Ferrell, J. (PI);
Fire, A. (PI);
Ford, J. (PI);
Fortmann, S. (PI);
Foung, S. (PI);
Francke, U. (PI);
Fredericson, M. (PI);
Friedlander, A. (PI);
Froelicher, V. (PI);
Fuller, M. (PI);
Furthmayr, H. (PI);
Galli, S. (PI);
Garcia, G. (PI);
Gardner, P. (PI);
Garner, C. (PI);
Giaccia, A. (PI);
Girod, S. (PI);
Giudice, L. (PI);
Glenn, J. (PI);
Gold, G. (PI);
Goodman, M. (PI);
Goodman, S. (PI);
Gray, G. (PI);
Greenberg, H. (PI);
Guilleminault, C. (PI);
Guzman, R. (PI);
Hallmayer, J. (PI);
Haskell, W. (PI);
Helms, J. (PI);
Herschlag, D. (PI);
Herzenberg, L. (PI);
Hestrin, S. (PI);
Hodgson, K. (PI);
Hoffman, A. (PI);
Hoffman, B. (PI);
Hogness, D. (PI);
Hsu, S. (PI);
Hsueh, A. (PI);
Huestis, W. (PI);
Huguenard, J. (PI);
Jackson, P. (PI);
Jardetzky, O. (PI);
Kahn, D. (PI);
Kaiser, A. (PI);
Karasek, M. (PI);
Katzenstein, D. (PI);
Kay, M. (PI);
Kendig, J. (PI);
Khavari, P. (PI);
Kim, S. (PI);
King, A. (PI);
Kingsley, D. (PI);
Knox, S. (PI);
Knudsen, E. (PI);
Knutson, B. (PI);
Kobilka, B. (PI);
Koong, A. (PI);
Kornberg, A. (PI);
Kornberg, R. (PI);
Koseff, J. (PI);
Kraemer, F. (PI);
Krams, S. (PI);
Krasnow, M. (PI);
Krensky, A. (PI);
Kuo, C. (PI);
Lee, P. (PI);
Lehman, I. (PI);
Leung, L. (PI);
Levenston, M. (PI);
Levy, R. (PI);
Levy, S. (PI);
Lewis, D. (PI);
Lewis, R. (PI);
Lipsick, J. (PI);
Litt, I. (PI);
Longaker, M. (PI);
Lorenz, H. (PI);
Lowe, A. (PI);
Lu, B. (PI);
Lyons, D. (PI);
MacIver, M. (PI);
Mackey, S. (PI);
Madison, D. (PI);
Maduke, M. (PI);
Maldonado, Y. (PI);
Malenka, R. (PI);
Marcus, R. (PI);
Marinkovich, M. (PI);
Marmor, M. (PI);
Martinez, O. (PI);
Matheson, G. (PI);
Matin, A. (PI);
McConnell, H. (PI);
McDevitt, H. (PI);
McKay, D. (PI);
McMahan, U. (PI);
Mellins, E. (PI);
Menon, V. (PI);
Merigan, T. (PI);
Michie, S. (PI);
Mignot, E. (PI);
Miklos, D. (PI);
Miller, D. (PI);
Mobley, W. (PI);
Mocarski, E. (PI);
Mochly-Rosen, D. (PI);
Monack, D. (PI);
Morris, R. (PI);
Morton, J. (PI);
Murphy, G. (PI);
Myers, B. (PI);
Myers, R. (PI);
Nadeau, K. (PI);
Negrin, R. (PI);
Newsome, W. (PI);
Nishino, S. (PI);
Nolan, G. (PI);
Nusse, R. (PI);
Oro, A. (PI);
Palmer, T. (PI);
Parham, P. (PI);
Parker, K. (PI);
Parnes, J. (PI);
Parsonnet, J. (PI);
Patterson, D. (PI);
Pearl, R. (PI);
Pecora, R. (PI);
Peebles, R. (PI);
Peehl, D. (PI);
Pollack, J. (PI);
Porzig, E. (PI);
Prince, D. (PI);
Pringle, J. (PI);
Puglisi, J. (PI);
Raffin, T. (PI);
Rando, T. (PI);
Rasgon, N. (PI);
Raymond, J. (PI);
Reaven, G. (PI);
Reimer, R. (PI);
Reiss, A. (PI);
Relman, D. (PI);
Robbins, R. (PI);
Robertson, C. (PI);
Robinson, B. (PI);
Robinson, T. (PI);
Rockson, S. (PI);
Rosen, G. (PI);
Rosenberg, N. (PI);
Roth, R. (PI);
Rothschild, L. (PI);
Sage, J. (PI);
Sarnow, P. (PI);
Schatzberg, A. (PI);
Schneider, D. (PI);
Schoolnik, G. (PI);
Schrier, S. (PI);
Schwarz, T. (PI);
Scott, M. (PI);
Shapiro, L. (PI);
Shochat, S. (PI);
Shooter, E. (PI);
Sikic, B. (PI);
Silverberg, G. (PI);
Skirboll, S. (PI);
Smith, M. (PI);
Smith, R. (PI);
Smith, S. (PI);
Spiegel, D. (PI);
Spudich, J. (PI);
Stamey, T. (PI);
Steele, C. (PI);
Steinberg, G. (PI);
Steinman, L. (PI);
Stevens, D. (PI);
Stevenson, D. (PI);
Stockdale, F. (PI);
Strober, S. (PI);
Stryer, L. (PI);
Sudhof, T. (PI);
Sullivan, E. (PI);
Sun, Z. (PI);
Sweet-Cordero (PI);
Ta, C. (PI);
Talbot, W. (PI);
Tan, M. (PI);
Taylor, C. (PI);
Teng, N. (PI);
Theriot, J. (PI);
Triadafilopoulos, G. (PI);
Tsao, P. (PI);
Tse, V. (PI);
Tsien, R. (PI);
Vemuri, M. (PI);
Villeneuve, A. (PI);
Vollrath, D. (PI);
Wandless, T. (PI);
Wang, T. (PI);
Waymouth, R. (PI);
Weinberg, K. (PI);
Whitlock, J. (PI);
Wine, J. (PI);
Winograd, C. (PI);
Wong, A. (PI);
Wong, D. (PI);
Wu, J. (PI);
Wyss-Coray, T. (PI);
Yang, Y. (PI);
Yao, M. (PI);
Zajac, F. (PI);
Zare, R. (PI);
Zarins, C. (PI);
Zehnder, J. (PI);
Zeitzer, J. (PI);
Zhao, H. (PI);
de Lecea, L. (PI);
Guagliardo, E. (GP);
Herrman, R. (GP);
Kiernan, M. (GP);
Kim, K. (GP);
McCue, R. (GP);
Riley, R. (GP)
BIO 200:
Advanced Molecular Biology (BIO 104)
Molecular mechanisms that govern the replication, recombination, and expression of eukaryotic genomes. Topics: DNA replication, DNA recombination, gene transcription, RNA splicing, regulation of gene expression, protein synthesis, and protein folding. Prerequisite: Biology core.
Terms: Win
| Units: 5
BIO 203:
Advanced Genetics (DBIO 203, GENE 203)
For graduate students in Bioscience programs; may be appropriate for graduate students in other programs. The genetic toolbox. Examples of analytic methods, genetic manipulation, genome analysis, and human genetics. Emphasis is on use of genetic tools in dissecting complex biological pathways, developmental processes, and regulatory systems. Faculty-led discussion sections with evaluation of papers. Students with minimal experience in genetics should prepare by working out problems in college level textbooks.
Terms: Aut
| Units: 4
BIO 205:
DNA Repair and Genomic Stability
Interactions of endogenous and environmental mutagens with cellular DNA. Cellular responses to damaged DNA including molecular mechanisms for DNA repair, translesion DNA synthesis, and genetic recombination. Inducible repair responses and error-prone mechanisms. Human hereditary diseases that predispose to cancer. Relationships of DNA repair to mutagenesis, carcinogenesis, aging, and human genetic disease. Current research literature. Prerequisites: 41 and 118, or consent of instructor.
| Units: 3
BIO 206:
Field Studies in Earth Systems (EARTHSYS 189)
For advanced upper-division undergraduates and graduate students. Field-based, focusing on the components and processes by which terrestrial ecosystems function. Topics from biology, chemistry, ecology, geology, and soil science. Lecture, field, and lab studies emphasize standard field techniques, experimental design, analysis of data, and written and oral presentation. Small team projects test the original questions in the functioning of natural ecosystems. Admission by application; see Axess. Prerequisites: BIO 141 or EESS 160 (formerly GES 160), or equivalent.
Terms: Spr
| Units: 5
BIO 207:
Life and Death of Proteins
How proteins are made and degraded in the cell. Discussion of primary literature. Case studies follow the evolution of scientific ideas, and evaluate how different experimental approaches contribute to our understanding of a biological problem. Topics: protein folding and assembly, mechanisms of chaperone action, sorting into organelles and the ubiquitin-proteasome pathway.
Terms: Spr
| Units: 3
BIO 209A:
The Human Genome and Disease (BIO 109A, HUMBIO 158)
The variability of the human genome and the role of genomic information in research, drug discovery, and human health. Concepts and interpretations of genomic markers in medical research and real life applications. Human genomes in diverse populations. Original contributions from thought leaders in academia and industry and interaction between students and guest lecturers.
Terms: Win
| Units: 3
BIO 209B:
The Human Genome and Disease: Genetic Diversity and Personalized Medicine (BIO 109B)
Continuation of 109A/209A. Genetic drift: the path of human predecessors out of Africa to Europe and then either through Asia to Australia or through northern Russia to Alaska down to the W. Coast of the Americas. Support for this idea through the histocompatibility genes and genetic sequences that predispose people to diseases. Guest lectures from academia and pharmaceutical companies. Prerequisite: Biology or Human Biology core.
Terms: Spr
| Units: 3
BIO 212:
Human Physiology (BIO 112, HUMBIO 133)
The functioning of organ systems emphasizing mechanisms of control and regulation. Topics: structure and function of endocrine and central nervous systems, cardiovascular physiology, respiration, salt and water balance, exercise, and gastrointestinal physiology. Prerequisite: Biology or Human Biology core.
Terms: Win
| Units: 4
BIO 213:
Biology of Viruses
Principles of virus growth, genetics, architecture, and assembly. The relation of temperate viruses and other episomes to the host cell. Prerequisite: Biology core. Recommended: 118.
| Units: 3
BIO 214:
Advanced Cell Biology (BIOC 224)
For Ph.D. students. Current research on cell structure, function, and dynamics. Topics include complex cell phenomena such as cell division, apoptosis, compartmentalization, transport and trafficking, motility and adhesion, differentiation, and multicellularity. Current papers from the primary literature. Prerequisite for advanced undergraduates: BIO 129A,B, and consent of instructor.
Terms: Win
| Units: 2-5
BIO 215:
Biochemical Evolution
Biochemical viewpoints on the evolutionary process. Topics: prebiotic biochemistry and the origins of life; adaptive organization of metabolism; enzyme polymorphisms and other biochemical aspects of population genetics; macromolecular phylogeny and protein clocks. Prerequisites: Biology core or substantial equivalent.
Terms: Win
| Units: 3
BIO 216:
Terrestrial Biogeochemistry
Nutrient cycling and the regulation of primary and secondary production in terrestrial, freshwater, and marine ecosystems; land-water and biosphere-atmosphere interactions; global element cycles and their regulation; human effects on biogeochemical cycles. Prerequisite: graduate standing in science or engineering; consent of instructor for undergraduates or coterminal students.
Terms: Spr
| Units: 3
BIO 217:
Neuronal Biophysics
Biophysical descriptions and mechanisms of passive and excitable membranes, ion channels and pumps, action potential propagation, and synaptic transmission. Introduction to dynamics of single neurons and neuronal networks. Emphasis is on the experimental basis for modern research applications. Interdisciplinary aspects of biology and physics. Literature, problem sets, and student presentations. Prerequisites: undergraduate physics, calculus, and biology.
Terms: Win
| Units: 4
BIO 218:
Genetic Analysis of Biological Processes (BIO 118)
Genetic principles and their experimental applications. Emphasis is on the identification and use of mutations to study cellular function. Prerequisite: Biology core.
Terms: Spr
| Units: 5
BIO 230:
Molecular and Cellular Immunology
For graduate students and advanced undergraduates. Components of the immune system: structure and functions of antibody molecules; cellular basis of immunity and its regulation; molecular biology and biochemistry of antigen receptors and signaling pathways; genetic control of immunity and disease susceptibility. Emphasis is on key experimental approaches. Prerequisite for undergraduates: Biology or Human Biology core, or consent of instructor.
Terms: Aut
| Units: 4
BIO 230A:
Molecular and Cellular Immunology Literature Review
Supplement to 230. Corequisite: 230.
Terms: Aut
| Units: 1
BIO 231:
Evolution of Life Histories
Life histories as descriptions of reproduction, survival, and growth over the lives of individuals. Theoretical approaches to the dynamics and evolution of life histories and of populations with different life histories. Experimental data on natural populations and methods for their analysis.
Terms: Spr
| Units: 3
BIO 232:
Advanced Imaging Lab in Biophysics (BIO 132, BIOPHYS 232, MCP 232)
Laboratory and lectures. Advanced microscopy and imaging, emphasizing hands-on experience with state-of-the-art techniques. Students construct and operate working apparatus. Topics include microscope optics, Koehler illumination, contrast-generating mechanisms (bright/dark field, fluorescence, phase contrast, differential interference contrast), and resolution limits. Laboratory topics vary by year, but include single-molecule fluorescence, fluorescence resonance energy transfer, confocal microscopy, two-photon microscopy, and optical trapping. Limited enrollment. Recommended: basic physics, Biology core or equivalent, and consent of instructor.
Terms: Spr
| Units: 4
BIO 237:
Plant Genetics (BIO 137)
Gene analysis, mutagenesis, transposable elements; developmental genetics of flowering and embryo development; biochemical genetics of plant metabolism; scientific and societal lessons from transgenic plants. Prerequisite: Biology core or consent of instructor.
Terms: Spr
| Units: 3-4
BIO 243:
Evolution (BIO 143)
The basic facts and principles of the evolution of all life. The logic of and evidence for the correctness of Darwin's argument for evolution by natural selection. How Mendelian genetics was integrated into evolutionary thinking. The integration of physiological and ecological perspectives into the study of evolutionary adaptation within species. Species formation and evolutionary divergence among species. Patterns of evolution over long time scales.
Terms: Aut
| Units: 3
BIO 244:
Fundamentals of Molecular Evolution (BIO 113)
The inference of key molecular evolutionary processes from DNA and protein sequences. Topics include random genetic drift, coalescent models, effects and tests of natural selection, combined effects of linkage and natural selection, codon bias and genome evolution. Prerequisites: Biology core or graduate standing in any department, and consent of instructor.
| Units: 4
BIO 247:
Controlling Climate Change in the 21st Century (BIO 147, EARTHSYS 147, EARTHSYS 247, HUMBIO 116)
Global climate change science, impacts, and response strategies. Topics: scientific understanding of the climate system; modeling future climate change; global and regional climate impacts and vulnerability; mitigation and adaptation approaches; the international climate policy challenge; and decarbonization of energy and transportation systems.
Terms: Win
| Units: 3
BIO 249:
The Neurobiology of Sleep (BIO 149, HUMBIO 161)
(Graduate students register for 249.) Preference to seniors and graduate students. The neurochemistry and neurophysiology of changes in brain activity and conscious awareness associated with changes in the sleep/wake state. Behavioral and neurobiological phenomena including sleep regulation, sleep homeostasis, circadian rhythms, sleep disorders, sleep function, and the molecular biology of sleep. Enrollment limited to 16.
Terms: Win
| Units: 4
BIO 24N:
From Bread to Genomics: Using Yeast to Study Biology
Preference to freshmen. The single-celled organism, Saccharomyces cerevisiae or baker's yeast, as a tool in experiments including winemaking, evolution, and cancer. Yeast biology; how yeast genetics is used to examine the properties of cells. Modern genomic techniques in yeast research such as DNA microarrays, high-throughput genetic analysis, protein-interaction studies, and proteomic analyses. Readings from primary scientific literature. Final paper.
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 250:
Human Behavioral Biology (BIO 150, HUMBIO 160)
Multidisciplinary. How to approach complex normal and abnormal behaviors through biology. How to integrate disciplines including sociobiology, ethology, neuroscience, and endocrinology to examine behaviors such as aggression, sexual behavior, language use, and mental illness.
| Units: 5
BIO 254:
Molecular and Cellular Neurobiology (BIO 154, NBIO 254)
For advanced undergraduates and graduate students. Cellular and molecular mechanisms in the organization and functions of the nervous system. Topics: wiring of the neuronal circuit, synapse structure and synaptic transmission, signal transduction in the nervous system, sensory systems, molecular basis of behavior including learning and memory, molecular pathogenesis of neurological diseases. Prerequisite for undergraduates: Biology core or equivalent, or consent of instructors.
Terms: Aut
| Units: 4-5
BIO 257:
Plant Biochemistry (BIO 157)
The biochemistry of plants relevant to their physiology and cell biology. Topics include: the biosynthesis, assembly, function, and regulation of cell walls; lipids; pigments; photoreceptors; transporters; and the response of plants to pathogens and stresses. Prerequisite: Biology core or equivalent, or consent of instructors.
Terms: Spr
| Units: 3-4
BIO 258:
Neural Development
For Ph.D. students. Seminar; students also attend BIO 158 lectures. Topics: neural induction and patterning, cell lineage, neurogenesis, neuronal migration, axonal pathfinding, synapse elimination, the role of activity, critical periods, and the development of behavior.
Terms: Spr
| Units: 4
BIO 264:
Biosphere-Atmosphere Interactions (BIO 164)
Physiological, ecological, and physical aspects of ecosystem function, emphasizing how ecosystems influence and are influenced by the atmosphere. Prerequisites: 42, 43; or consent of instructor.
Terms: Win
| Units: 4
BIO 265:
Cellular and Molecular Therapeutic Approaches to Neurological Disorders (BIO 165)
Current therapeutic research for neurological conditions, including stroke, epilepsy, neurodegenerative disorders, depression, anxiety, and aging. Sources include primary literature. Guest lecturers.
Terms: Win
| Units: 1
BIO 266:
Fanual Analysis: Animal Remains for the Archaeologist (ANTHRO 113, ANTHRO 213, BIO 166)
The analysis of fossil animal bones and shells to illuminate the behavior and ecology of prehistoric collectors, especially ancient humans. Theoretical and methodoloigcal issues. The identification, counting, and measuring of fossil bones and shells. Labs. Methods of numerical analysis.
Terms: Spr
| Units: 5
BIO 274S:
Hopkins Microbiology Course (BIOHOPK 274, CEE 274S, EESS 253S)
(Formerly GES 274S.) Four-week, intensive. The interplay between molecular, physiological, ecological, evolutionary, and geochemical processes that constitute, cause, and maintain microbial diversity. How to isolate key microorganisms driving marine biological and geochemical diversity, interpret culture-independent molecular characterization of microbial species, and predict causes and consequences. Laboratory component: what constitutes physiological and metabolic microbial diversity; how evolutionary and ecological processes diversify individual cells into physiologically heterogeneous populations; and the principles of interactions between individuals, their population, and other biological entities in a dynamically changing microbial ecosystem. Prerequisites: CEE 274A,B, or equivalents.
Terms: Sum
| Units: 9-12
| Repeatable
for credit
BIO 278:
Microbiology Literature (BIO 178)
Critical reading of the research literature in prokaryotic genetics and molecular biology. For advanced undergraduates and first or second year graduate students. Classic and foundational papers in microbiology and molecular biology; more recent literature on prokaryotic biochemistry, genomics, pathogenesis, and cell biology. Prerequisites: Biology Core and two upper-division courses in genetics, molecular biology, or biochemistry.
Terms: Win
| Units: 3
BIO 280:
Fundamentals of Sustainable Agriculture (BIO 180, EARTHSYS 180, EARTHSYS 280)
Ecological, economic, and social dimensions of sustainable agriculture in the context of a growing world population. Focus is on management and technological approaches, and historical content of agricultural growth and change, organic agriculture, soil and water resource management, nutrient and pest management, biotechnology, ecosystem services, and climate change.
Terms: Spr
| Units: 3
BIO 285:
Evolution of Reproductive Social Behavior (BIO 185)
Seminar. Controversies surrounding theory and data for the evolution of sex, gender, and sexuality. Issues include the critique of Darwin's theory of sexual selection, and the accuracy of the metaphor of universal selfishness and sexual conflict in biological nature. Readings include Evolution's Rainbow and The Genial Gene, and primary literature.
Terms: Aut
| Units: 3
BIO 288:
Biochemistry I (BIO 188, CHEM 181, CHEMENG 181, CHEMENG 281)
(CHEMENG offerings formerly listed as 188/288.) Chemistry of major families of biomolecules including proteins, nucleic acids, carbohydrates, lipids, and cofactors. Structural and mechanistic analysis of properties of proteins including molecular recognition, catalysis, signal transduction, membrane transport, and harvesting of energy from light. Molecular evolution. Prerequisites: CHEM 135 or 171.
Terms: Win
| Units: 3
BIO 289:
Biochemistry II (BIO 189, CHEM 183, CHEMENG 183, CHEMENG 283)
(CHEMENG offerings formerly listed as 189/289.) Metabolism. Glycolysis, gluconeogenesis, citric acid cycle, oxidative phosphorylation, pentose phosphate pathway, glycogen metabolism, fatty acid metabolism, protein degradation and amino acid catabolism, protein translation and amino acid biosynthesis, nucleotide biosynthesis, DNA replication, recombination and repair, lipid and steroid biosynthesis. Medical consequences of impaired metabolism. Therapeutic intervention of metabolism. Prerequisite: BIO 188/288 or CHEM 181 or CHEMENG 181/281 (formerly 188/288).
Terms: Spr
| Units: 3
BIO 290:
Teaching of Biology
Open to upper-division undergraduates and graduate students. Practical experience in teaching lab biology or serving as an assistant in a lecture course. May be repeated for credit. Prerequisite: consent of instructor.
Terms: Aut, Win, Spr
| Units: 1-5
| Repeatable
for credit
Instructors: ;
Baker, B. (PI);
Barton, K. (PI);
Bergmann, D. (PI);
Berry, J. (PI);
Block, B. (PI);
Block, S. (PI);
Boggs, C. (PI);
Burkholder, B. (PI);
Campbell, A. (PI);
Cyert, M. (PI);
Daily, G. (PI);
Denny, M. (PI);
Dirzo, R. (PI);
Ehrlich, P. (PI);
Epel, D. (PI);
Fang, G. (PI);
Feldman, M. (PI);
Fernald, R. (PI);
Field, C. (PI);
Frommer, W. (PI);
Frydman, J. (PI);
Fukami, T. (PI);
Gilly, W. (PI);
Gordon, D. (PI);
Gozani, O. (PI);
Green, E. (PI);
Grossman, A. (PI);
Hadly, E. (PI);
Hanawalt, P. (PI);
Heller, H. (PI);
Jones, P. (PI);
Khalfan, W. (PI);
Klein, R. (PI);
Kopito, R. (PI);
Long, S. (PI);
Luo, L. (PI);
Malladi, S. (PI);
McConnell, S. (PI);
Micheli, F. (PI);
Mooney, H. (PI);
Mudgett, M. (PI);
Nelson, W. (PI);
Palumbi, S. (PI);
Petrov, D. (PI);
Root, T. (PI);
Roughgarden, J. (PI);
Sapolsky, R. (PI);
Schneider, S. (PI);
Schnitzer, M. (PI);
Shen, K. (PI);
Simon, M. (PI);
Simoni, R. (PI);
Skotheim, J. (PI);
Somero, G. (PI);
Somerville, C. (PI);
Spormann, A. (PI);
Stearns, T. (PI);
Thompson, S. (PI);
Tuljapurkar, S. (PI);
Vitousek, P. (PI);
Walbot, V. (PI);
Wang, Z. (PI);
Watanabe, J. (PI);
Watt, W. (PI);
Weissman, I. (PI)
BIO 290X:
Out-of-Department Teaching
May be repeated for credit. Prerequisite: consent of instructor.
Terms: Win
| Units: 1-5
| Repeatable
for credit
BIO 291:
Development and Teaching of Core Experimental Laboratories
Preparation for teaching the core experimental courses (44X and 44Y). Emphasis is on lab, speaking, and writing skills. Focus is on updating the lab to meet the changing technical needs of the students. Must be taken prior to teaching either of the above courses. May be repeated for credit. Prerequisite: selection by instructor.
Terms: Aut, Win
| Units: 1-2
| Repeatable
for credit
BIO 300:
Graduate Research
For graduate students only. Individual research by arrangement with in-department instructors.
Terms: Aut, Win, Spr, Sum
| Units: 1-15
| Repeatable
for credit
Instructors: ;
Baker, B. (PI);
Barton, K. (PI);
Bergmann, D. (PI);
Berry, J. (PI);
Block, B. (PI);
Block, S. (PI);
Boggs, C. (PI);
Burkholder, B. (PI);
Campbell, A. (PI);
Cyert, M. (PI);
Daily, G. (PI);
Denny, M. (PI);
Dirzo, R. (PI);
Ehrlich, P. (PI);
Epel, D. (PI);
Fang, G. (PI);
Feldman, M. (PI);
Fernald, R. (PI);
Field, C. (PI);
Frommer, W. (PI);
Frydman, J. (PI);
Fukami, T. (PI);
Gilly, W. (PI);
Gordon, D. (PI);
Gozani, O. (PI);
Grossman, A. (PI);
Hadly, E. (PI);
Hanawalt, P. (PI);
Heller, H. (PI);
Jones, P. (PI);
Klein, R. (PI);
Kopito, R. (PI);
Long, S. (PI);
Luo, L. (PI);
McConnell, S. (PI);
Micheli, F. (PI);
Mooney, H. (PI);
Mudgett, M. (PI);
Nelson, W. (PI);
Palumbi, S. (PI);
Petrov, D. (PI);
Root, T. (PI);
Roughgarden, J. (PI);
Sapolsky, R. (PI);
Schneider, S. (PI);
Schnitzer, M. (PI);
Shen, K. (PI);
Simon, M. (PI);
Simoni, R. (PI);
Skotheim, J. (PI);
Somero, G. (PI);
Somerville, C. (PI);
Spormann, A. (PI);
Stearns, T. (PI);
Thompson, S. (PI);
Tuljapurkar, S. (PI);
Vitousek, P. (PI);
Walbot, V. (PI);
Wang, Z. (PI);
Watt, W. (PI);
Weissman, I. (PI)
BIO 300X:
Out-of-Department Graduate Research
Individual research by arrangement with out-of-department instructors. Master's students: credit for work arranged with out-of-department instructors is restricted to Biology students and requires approved department petition. See http://biohonors.stanford.edu for information on research sponsors, units, petitions, deadlines, credit for summer research, and out-of-Stanford research. May be repeated for credit.
Terms: Aut, Win, Spr, Sum
| Units: 1-15
| Repeatable
for credit
Instructors: ;
Andriacchi, T. (PI);
Barres, B. (PI);
Behr, B. (PI);
Blau, H. (PI);
Boothroyd, J. (PI);
Brown, P. (PI);
Brunet, A. (PI);
Brunger, A. (PI);
Burgos, T. (PI);
Butcher, E. (PI);
Chang, K. (PI);
Chen, J. (PI);
Cimprich, K. (PI);
Clandinin, T. (PI);
Cleary, M. (PI);
Cochran, J. (PI);
Contag, C. (PI);
Crabtree, G. (PI);
Davis, M. (PI);
Davis, R. (PI);
Dragoo, J. (PI);
Ehrhardt, D. (PI);
Fathman, C. (PI);
Felsher, D. (PI);
Fire, A. (PI);
Ford, J. (PI);
Fredericson, M. (PI);
Freyberg, D. (PI);
Fuller, M. (PI);
Gardner, C. (PI);
Garner, C. (PI);
Glenn, J. (PI);
Gold, G. (PI);
Goodman, M. (PI);
Goodman, S. (PI);
Haskell, W. (PI);
Heilshorn, S. (PI);
Helms, J. (PI);
Herzenberg, L. (PI);
Hsu, S. (PI);
Katzenstein, D. (PI);
Kay, M. (PI);
Kim, S. (PI);
Koong, A. (PI);
Kornberg, A. (PI);
Krams, S. (PI);
Kuo, C. (PI);
Launer, A. (PI);
Lee, P. (PI);
Levy, R. (PI);
Longaker, M. (PI);
Lyons, D. (PI);
MacIver, M. (PI);
Maduke, M. (PI);
Marinkovich, M. (PI);
Matheson, G. (PI);
Mellins, E. (PI);
Mignot, E. (PI);
Miklos, D. (PI);
Mochly-Rosen, D. (PI);
Monack, D. (PI);
Morris, R. (PI);
Murphy, G. (PI);
Nadeau, K. (PI);
Naumovski, L. (PI);
Nayak, N. (PI);
Nolan, G. (PI);
Nusse, R. (PI);
Palmer, T. (PI);
Parker, K. (PI);
Pollack, J. (PI);
Pringle, J. (PI);
Raymond, J. (PI);
Reimer, R. (PI);
Relman, D. (PI);
Robinson, B. (PI);
Rockson, S. (PI);
Rothschild, L. (PI);
Sage, J. (PI);
Scott, M. (PI);
Shapiro, L. (PI);
Shooter, E. (PI);
Shulman, N. (PI);
Sibley, E. (PI);
Sikic, B. (PI);
Singh, U. (PI);
Skirboll, S. (PI);
Spudich, J. (PI);
Steinman, L. (PI);
Sun, Z. (PI);
Sweet-Cordero (PI);
Tan, M. (PI);
Triadafilopoulos, G. (PI);
Umetsu, D. (PI);
Vemuri, M. (PI);
West, R. (PI);
Wong, A. (PI);
Wu, J. (PI);
Yang, Y. (PI);
Yao, M. (PI);
Zarins, C. (PI);
Zhao, H. (PI);
de Lecea, L. (PI);
Lindsay, T. (GP)
BIO 301:
Frontiers in Biology
Limited to and required of first-year Ph.D. students in molecular, cellular, and developmental biology. Current research in molecular, cellular, and developmental biology emphasizing primary research literature. Held in conjunction with the department's Monday seminar series. Students and faculty meet weekly before the seminar for a student presentation and discussion of upcoming papers.
Terms: Aut, Win
| Units: 1-3
| Repeatable
for credit
BIO 302:
Current Topics and Concepts in Population Biology, Ecology, and Evolution
Required of first-year graduate students in population biology, and ecology and evolution; open to all graduate students. Major conceptual issues and developing topics.
Terms: Aut
| Units: 1
BIO 303:
Current Topics and Concepts in Population Biology, Ecology, and Evolution
Required of first-year graduate students in population biology, and ecology and evolution; open to all graduate students. Major conceptual issues and developing topics.
Terms: Win
| Units: 1
BIO 304:
Current Topics and Concepts in Population Biology, Ecology, and Evolution
Required of first-year graduate students in population biology, and ecology and evolution; open to all graduate students. Major conceptual issues and developing topics.
Terms: Spr
| Units: 1
BIO 306:
Current Topics in Integrative Organismal Biology
Limited to and required of graduate students doing research in this field. At Hopkins Marine Station.
Terms: Aut
| Units: 1
BIO 312:
Ethical Issues in Ecology and Evolutionary Biology
Focus is on ethical issues addressed in Donald Kennedy's Academic Duty and others of importance to academics and scientists in the fields of ecology, behavior, and evolutionary biology. Discussions led by faculty and outside guests. Satisfies ethics course requirement for ecology and evolutionary biology. Prerequisite: PhD student in the ecology and evolutionary biology or marine program, or consent of instructor.
Terms: Aut
| Units: 1
BIO 315:
Seminar in Biochemical Evolution
Literature review and discussion of current topics in biochemical evolution and molecular evolutionary genetics. Prerequisite: consent of instructor.
Terms: Aut, Win, Spr
| Units: 1-3
BIO 323:
Detecting Climate-Driven Changes in California Plant Ranges
Seminar. For advanced undergraduates and graduate students. Future anthropogenic climate change will continue to alter plant communities, plant ranges, and ecosystems. Studies have already documented plant and animal range shifts across the globe, yet many questions remain as to how plants will respond to climate change. Which taxa and functional groups will be most sensitive to changes in climate? What will happen to ecological communities with differential response of plant species to climate? Focus is on analyzing trends in climate change and long-term plant distribution data in California. May be repeated for credit. Prerequisite: familiarity with statistical, spatial, or modeling analyses.
Terms: Win, Spr
| Units: 1-2
| Repeatable
for credit
BIO 324:
Interpreting Ecological Data
Experimental design and the theory behind and appropriate use of parametric statistics including: student t-test; analysis of variance; linear regression and some variations including logistic regression and multiple regression; analysis of covariance; chi-squared similarity test; testing the independence of multiple tests; Monte Carlo and bootstrapping methods. Students encouraged to use data from their own research. Course does not fulfill undergraduate statistics requirement. Prerequisite: consent of instructor.
Terms: Win
| Units: 4
BIO 342:
Plant Biology Seminar
Topics announced at the beginning of each quarter. Current literature. May be repeated for credit. See http://carnegiedpb.stanford.edu/seminars/seminars.php.
Terms: Aut, Win, Spr
| Units: 1-3
| Repeatable
for credit
BIO 344:
Advanced Seminar in Cellular Biology
Enrollment limited to graduate students directly associated with departmental research groups working in cell biology.
Terms: Aut, Win, Spr
| Units: 1
BIO 346:
Advanced Seminar on Prokaryotic Molecular Biology
Enrollment limited to graduate students associated with departmental research groups in genetics or molecular biology.
Terms: Aut, Win, Spr
| Units: 1
BIO 34N:
Hunger
The biology of hunger and satiety, disease states that disrupt normal responses to hunger and satiety, starvation responses and adaptations to starvation in a variety of organisms, food production and distribution mechanisms, historic famines and their causes, the challenges of providing adequate food and energy for the Earth's growing population, local and global efforts to alleviate hunger, and hunger in fiction.
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 358:
Advanced Topics in Biology
Restricted to doctoral and medical students in neurobiology labs. May be repeated for credit.
Terms: Aut, Win, Spr, Sum
| Units: 1
| Repeatable
for credit
BIO 36N:
Physiology of Human Performance
Preference to freshmen. Laboratory-oriented. Students conduct studies on each other, and possibly on volunteers, involving physical activity and measurement of physiological variables before, during, and after physical activity. Focus is on the physiological systems underlying the capacity for physical activity and on the limits to increasing strength, power output, and endurance. Strenuous physical activity required.
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 384:
Theoretical Ecology
Recent and classical research papers in ecology, and presentation of work in progress by participants. Prerequisite: consent of instructor.
Terms: Aut, Win, Spr
| Units: 1-3
| Repeatable
for credit
BIO 38N:
Photosynthesis: From Basic Mechanisms to Biofuels
Preference to freshmen. Photosynthetic processes in terrestrial and aquatic environments. Biological and chemical ways that have been developed to capture the energy of sunlight; how this light energy can be converted to usable forms of energy, including biofuels; and potential impacts of anthropogenic energy generation on the health of the planet.
| Units: 3
BIO 459:
Frontiers in Interdisciplinary Biosciences (BIOC 459, BIOE 459, CHEM 459, CHEMENG 459, PSYCH 459)
Students register through their affiliated department; otherwise register for CHEMENG 459. For specialists and non-specialists. Sponsored by the Stanford BioX Program. Three seminars per quarter address scientific and technical themes related to interdisciplinary approaches in bioengineering, medicine, and the chemical, physical, and biological sciences. Leading investigators from Stanford and the world present breakthroughs and endeavors that cut across core disciplines. Pre-seminars introduce basic concepts and background for non-experts. Registered students attend all pre-seminars; others welcome. See http://biox.stanford.edu/courses/459.html. Recommended: basic mathematics, biology, chemistry, and physics.
Terms: Aut, Win, Spr
| Units: 1
| Repeatable
for credit
Terms: Aut, Win, Spr, Sum
| Units: 0
| Repeatable
for credit
Instructors: ;
Baker, B. (PI);
Barton, K. (PI);
Bergmann, D. (PI);
Berry, J. (PI);
Block, B. (PI);
Block, S. (PI);
Boggs, C. (PI);
Burkholder, B. (PI);
Campbell, A. (PI);
Cyert, M. (PI);
Daily, G. (PI);
Denny, M. (PI);
Dirzo, R. (PI);
Ehrlich, P. (PI);
Epel, D. (PI);
Fang, G. (PI);
Feldman, M. (PI);
Fernald, R. (PI);
Field, C. (PI);
Frydman, J. (PI);
Fukami, T. (PI);
Gilly, W. (PI);
Gordon, D. (PI);
Gozani, O. (PI);
Grossman, A. (PI);
Hadly, E. (PI);
Hanawalt, P. (PI);
Heller, H. (PI);
Jones, P. (PI);
Klein, R. (PI);
Kopito, R. (PI);
Long, S. (PI);
Luo, L. (PI);
McConnell, S. (PI);
Micheli, F. (PI);
Mooney, H. (PI);
Mudgett, M. (PI);
Nelson, W. (PI);
Palumbi, S. (PI);
Petrov, D. (PI);
Root, T. (PI);
Roughgarden, J. (PI);
Sapolsky, R. (PI);
Schneider, S. (PI);
Schnitzer, M. (PI);
Shen, K. (PI);
Simon, M. (PI);
Simoni, R. (PI);
Skotheim, J. (PI);
Somero, G. (PI);
Somerville, C. (PI);
Spormann, A. (PI);
Stearns, T. (PI);
Thompson, S. (PI);
Tuljapurkar, S. (PI);
Vitousek, P. (PI);
Walbot, V. (PI);
Wang, Z. (PI);
Watt, W. (PI);
Weissman, I. (PI);
Wong, W. (PI)
BIO 802:
TGR Dissertation
Terms: Aut, Win, Spr, Sum
| Units: 0
| Repeatable
for credit
Instructors: ;
Baker, B. (PI);
Barton, K. (PI);
Bergmann, D. (PI);
Berry, J. (PI);
Block, B. (PI);
Block, S. (PI);
Boggs, C. (PI);
Burkholder, B. (PI);
Campbell, A. (PI);
Cyert, M. (PI);
Daily, G. (PI);
Denny, M. (PI);
Dirzo, R. (PI);
Ehrlich, P. (PI);
Epel, D. (PI);
Fang, G. (PI);
Feldman, M. (PI);
Fernald, R. (PI);
Field, C. (PI);
Frydman, J. (PI);
Fukami, T. (PI);
Gilly, W. (PI);
Gordon, D. (PI);
Gozani, O. (PI);
Grossman, A. (PI);
Hadly, E. (PI);
Hanawalt, P. (PI);
Heller, H. (PI);
Jones, P. (PI);
Klein, R. (PI);
Kopito, R. (PI);
Long, S. (PI);
Luo, L. (PI);
McConnell, S. (PI);
Micheli, F. (PI);
Mooney, H. (PI);
Mudgett, M. (PI);
Nelson, W. (PI);
Palumbi, S. (PI);
Petrov, D. (PI);
Root, T. (PI);
Roughgarden, J. (PI);
Sapolsky, R. (PI);
Schneider, S. (PI);
Schnitzer, M. (PI);
Shen, K. (PI);
Simon, M. (PI);
Simoni, R. (PI);
Skotheim, J. (PI);
Somero, G. (PI);
Somerville, C. (PI);
Spormann, A. (PI);
Stearns, T. (PI);
Thompson, S. (PI);
Tuljapurkar, S. (PI);
Vitousek, P. (PI);
Walbot, V. (PI);
Wang, Z. (PI);
Watt, W. (PI);
Weissman, I. (PI);
Wong, W. (PI)
BIO 114:
Field Course on Tropical Biogeochemistry: Amazon as Case Study
Post-field seminar for students who went on the two-week field trip to the Amazon in September with Brazilian students under Professor Martinelli of the University of São Paulo and Stanford Latin American Studies. Land use changes over the last 30 years including the conversion of natural forest for cattle ranching and soy beans in the Amazon, the largest continuous area of tropical forests on Earth with the greatest number of plant and animal species. In English.
| Units: 3
BIO 129B:
Cellular Dynamics II: Building a Cell
Principles of cell organization; how common biochemical pathways are modified to generate diversity in cell structure and function. Roles of actin and microtubule cytoskeletons in cellular architecture. Mechanisms of protein sorting and trafficking, and protein modules and switches in regulating cell polarity. Yeast to polarized epithelial cells and neurons. Emphasis is on experimental logic, methods, problem solving, and interpretation of results. Students present research papers. Prerequisite: Biology core. Recommended: 129A.
| Units: 4
| UG Reqs: GER: DB-NatSci
BIO 140:
Population Biology of Butterflies
Field work on Euphydryas populations under study on campus and elsewhere in California. Course offered as participation in research when conditions permit; decisions not made until Winter Quarter. Prerequisites: 43 and consent of instructor.
| Units: 2-5
BIO 145:
Behavioral Ecology (BIO 245)
Animal behavior from an evolutionary and ecological perspective. Topics: foraging, territoriality, reproductive behavior, social groups. Lecture/seminar format; seminars include discussion of journal articles. Independent research projects. Prerequisites: Biology or Human Biology core, or consent of instructor. Recommended: statistics.
| Units: 4
| UG Reqs: GER: DB-NatSci
BIO 152:
Imaging: Biological Light Microscopy (MCP 222, NBIO 222)
Survey of instruments which use light and other radiation for analysis of cells in biological and medical research. Topics: basic light microscopy through confocal fluorescence and video/digital image processing. Lectures on physical principles; involves partial assembly and extensive use of lab instruments. Lab. Prerequisites: some college physics, Biology core.
| Units: 3
| UG Reqs: GER: DB-NatSci
BIO 163:
Neural Systems and Behavior (BIO 263, HUMBIO 163)
The field of neuroethology and its vertebrate and invertebrate model systems. Research-oriented. Readings include reviews and original papers. How animal brains compare; how neural circuits are adapted to species-typical behavior; and how the sensory worlds of different species represent the world. Prerequisites: BIO 42, HUMBIO 4A, or equivalents.
| Units: 4
| UG Reqs: GER: DB-NatSci
BIO 177:
Plant/Microbe Interactions (BIO 277)
Plant pathology and plant symbiosis.Topics include: prokaryotic and eukaryotic pathogens; molecular, genetic, and cellular basis for microbial pathogenicity and host defense; genetics and cell biology of nitrogen-fixing symbiosis and for mycorrhizal associations. Evolutionary context. Prerequisites: Biology core and two or more upper division courses in genetics, molecular biology, or biochemistry. Recommended: plant genetics or plant biochemistry.
| Units: 3
BIO 183:
Theoretical Population Genetics (BIO 283)
Models in population genetics and evolution. Selection, random drift, gene linkage, migration, and inbreeding, and their influence on the evolution of gene frequencies and chromosome structure. Models are related to DNA sequence evolution. Prerequisites: calculus and linear algebra, or consent of instructor.
| Units: 3
BIO 193:
Undergraduate Journal Club
Weekly discussion, led by students and facilitated by faculty, for reading scientific literature and presenting papers. Prerequisites: Biology core and consent of instructor. Recommended: 199 or 199X.
| Units: 1
| Repeatable
6 times
(up to 6 units total)
BIO 222:
Exploring Neural Circuits
Seminar. The logic of how neural circuits control behavior; how neural circuits are assembled during development and modified by experience. Emphasis is on primary literature. Topics include: neurons as information processing units; simple and complex circuits underlying sensory information processing and motor control; and development and plasticity of neural circuits. Advanced undergraduates with background in physical science, engineering, and biology may apply to enroll. Recommended: background in neuroscience.
| Units: 3
BIO 223:
Stochastic and Nonlinear Dynamics (APPPHYS 223)
Theoretical analysis of dynamical processes: dynamical systems, stochastic processes, and spatiotemporal dynamics. Motivations and applications from biology and physics. Emphasis is on methods including qualitative approaches, asymptotics, and multiple scale analysis. Prerequisites: ordinary and partial differential equations, complex analysis, and probability or statistical physics.
| Units: 3
BIO 235:
Challenges for Biodiversity Conservation in Latin America
Emphasis is on the largest megadiversity countries including Brazil and México. The conceptual basis of biodiversity conservation. Case studies. Topics include: habitat loss, threatened species, and hotspots; threats to the Amazon, Atlantic forest, Pantanal, and cerrado; impact of hunting; and the conflict between protected areas and parks.
| Units: 3
BIO 245:
Behavioral Ecology (BIO 145)
Animal behavior from an evolutionary and ecological perspective. Topics: foraging, territoriality, reproductive behavior, social groups. Lecture/seminar format; seminars include discussion of journal articles. Independent research projects. Prerequisites: Biology or Human Biology core, or consent of instructor. Recommended: statistics.
| Units: 4
BIO 263:
Neural Systems and Behavior (BIO 163, HUMBIO 163)
The field of neuroethology and its vertebrate and invertebrate model systems. Research-oriented. Readings include reviews and original papers. How animal brains compare; how neural circuits are adapted to species-typical behavior; and how the sensory worlds of different species represent the world. Prerequisites: BIO 42, HUMBIO 4A, or equivalents.
| Units: 4
BIO 267:
Molecular Mechanisms of Neurodegenerative Disease (NENS 267)
The epidemic of neurodegenerative disorders such as Alzheimer's and Parkinson's disease occasioned by an aging human population. Genetic, molecular, and cellular mechanisms. Clinical aspects through case presentations.
| Units: 4
BIO 277:
Plant/Microbe Interactions (BIO 177)
Plant pathology and plant symbiosis.Topics include: prokaryotic and eukaryotic pathogens; molecular, genetic, and cellular basis for microbial pathogenicity and host defense; genetics and cell biology of nitrogen-fixing symbiosis and for mycorrhizal associations. Evolutionary context. Prerequisites: Biology core and two or more upper division courses in genetics, molecular biology, or biochemistry. Recommended: plant genetics or plant biochemistry.
| Units: 3
BIO 283:
Theoretical Population Genetics (BIO 183)
Models in population genetics and evolution. Selection, random drift, gene linkage, migration, and inbreeding, and their influence on the evolution of gene frequencies and chromosome structure. Models are related to DNA sequence evolution. Prerequisites: calculus and linear algebra, or consent of instructor.
| Units: 3
BIO 294:
Cellular Biophysics (APPPHYS 294)
Physical biology of dynamical and mechanical processes in cells. Emphasis is on qualitative understanding of biological functions through quantitative analysis and simple mathematical models. Sensory transduction, signaling, adaptation, switches, molecular motors, actin and microtubules, motility, and circadian clocks. Prerequisites: differential equations and introductory statistical mechanics.
| Units: 3
BIO 325:
The Evolution of Body Size (GES 325)
The influence of organism size on evolutionary and ecological patterns and processes. Focus is on integration of theoretical principles, observations of living organisms, and data from the fossil record. What are the physiological and ecological correlates of body size? Is there an optimum size? Do organisms tend to evolve to larger size? Does productivity control the size distribution of consumers? Does size affect the likelihood of extinction or speciation? How does size scale from the genome to the phenotype? How is metabolic rate involved in evolution of body size? What is the influence of geographic area on maximum body size?
| Units: 2
BIO 383:
Seminar in Population Genetics
Literature review, research, and current problems in the theory and practice of population genetics and molecular evolution. Prerequisite: consent of instructor.
| Units: 1-3
| Repeatable
1 times
(up to 3 units total)
BIO 385:
Speaking About Science
Communication about science occurs in settings such as presenting scientific work to an audience of peers, communicating difficult concepts in a classroom, or describing a new finding to a reporter. Focus is on practice in speaking about science, emphasizing strategies for making difficult ideas easy to understand and integrating visual aids into oral presentations. Limited to Ph.D. students.
| Units: 2
BIO 388:
Communication and Leadership Skills (IPER 210)
Focus is on delivering information to policy makers and the lay public. How to speak to the media, Congress, and the general public; how to write op-eds and articles; how to package ideas including titles, abstracts, and CVs; how to survive peer review, the promotion process, and give a job talk; and how to be a responsible science advocate.
| Units: 2
