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CHEM 11: Foundational Concepts and Study Skills for General Chemistry

Chemistry is a central science that provides critical knowledge for many majors. Chem11 is intended as an on-ramp into STEM and the Chem31A/B sequence for students with minimal background in chemistry. Content will focus on the mastery of foundational skills that are only briefly reviewed in Chem31A including unit conversions, dimensional analysis, writing and balancing different types of chemical reactions, and stoichiometry. Lectures will provide active individual and group practice with critical problem solving and study skills necessary for success in college STEM courses. The course will also incorporate mentor groups that will support and travel with students into Chem31A the following year. Prerequisites: Math 18; Placement through the Autumn 2023 General Chemistry Placement Test. Please contact the instructor (Dr. Schwartz Poehlmann, jks425 at stanford.edu) if you have any questions about appropriate course placement.
Terms: Spr | Units: 3

CHEM 23N: Seeing the Invisible (RAD 23N)

Seeing is believing! This seminar course will introduce breakthrough imaging technologies from super resolution fluorescence microscopes for imaging single molecules in living cells to tomography imaging for visualizing the happenings deep inside our bodies. You will learn about their applications in probing physiology, biology and biochemistry for biological research and medical diagnosis. You will have the opportunity to tour an imaging facility and perform hands-on laboratory imaging.
Terms: Spr | Units: 3 | UG Reqs: WAY-SMA
Instructors: ; Rao, J. (PI)

CHEM 33: Structure and Reactivity of Organic Molecules

An introduction to organic chemistry, the molecular foundation to understanding the life sciences, medicine, diagnostics, energy, environmental and materials sciences. Students will learn structural and bonding models of organic molecules that provide insights into reactivity. Combining these models with kinetic and thermodynamic analyses allows molecular transformations to be rationalized and even predicted. The course builds on this knowledge to begin to introduce organic reactions that can be applied to synthesis of novel molecules or materials that can positively impact society. A two-hour weekly lab section accompanies the course to introduce the techniques of separation and identification of organic compounds.
Terms: Win, Spr, Sum | Units: 5 | UG Reqs: GER: DB-NatSci, WAY-SMA

CHEM 90: Directed Instruction/Reading

Undergraduates pursue a reading program under supervision of a faculty member in Chemistry; may also involve participation in lab. Prerequisites: superior work in CHEM 31A, 31B, 31M, or 33; and consent of instructor.
Terms: Aut, Win, Spr, Sum | Units: 1-2 | Repeatable 4 times (up to 8 units total)

CHEM 93: Chemistry Unleashed: Exploring the Chemistry that Transforms Our World

Ever wondered how chemistry weaves its magic into every fiber of our existence? Why does mint taste cool? What's the chemistry behind your favorite skincare product? How do molecules shape the taste of your food, or even, the feelings of love? Each week, we'll explore such fascinating questions with the guidance of expert speakers from diverse fields such as gastronomy, environmental science, aerospace engineering, medicine, and pharmaceuticals. They'll share the chemistry secrets that drive their respective industries, turning abstract chemical principles into tangible, real-world phenomena. This seminar course will bring chemistry out of the textbooks and into the real world, demonstrating its integral role in everyday life and industries. Join us to unravel the mysteries of the universe one molecule at a time and gain insights into potential careers in chemistry through engagement with industry professionals. Strap on your lab goggles and join us for an adventure into the invisible, yet extraordinary world of chemistry. Are you ready to dive in?
Terms: Spr | Units: 1-2

CHEM 121: Understanding the Natural and Unnatural World through Chemistry

Students enrolled in this course will appreciate the transformative power of molecular science on the modern world and how foundational knowledge of chemistry enables profound discoveries in biological, pharmaceutical, agrochemical, engineering, energy, and materials science research. This course integrates the lessons of CHEM 31 and CHEM 33 through an examination of the structure-function properties of carbon-based molecules. Specific emphasis is given to the chemistry of carbonyl- and amine-derived compounds, polyfunctionalized molecules, reaction kinetics and thermodynamics, mechanistic arrow-pushing, and retrosynthetic analysis. Students will be empowered with a conceptual understanding of chemical reactivity, physical organic chemistry, and the logic of chemical synthesis. The singular nature of molecular design and synthesis to make available functional molecules and materials will be revealed. A three-hour lab section provides hands on experience with modern chemical methods for preparative and analytical chemistry. Prerequisite CHEM 33 or co-requisite CHEM 100.
Terms: Aut, Spr, Sum | Units: 5 | UG Reqs: GER: DB-NatSci

CHEM 131: Instrumental Analysis Principles and Practice

The core objectives of the course will focus upon introducing and providing hands-on practice with analytical separation, spectroscopic identification, and calibrated quantification with strong technical communication (for the Writing-in-the-Major requirement) emphasized throughout the course. Lectures will focus on theory, and laboratory activities will provide hands-on practice with the GC, LC, XPS, ICP, MS, and UV/Vis instruments. Data analysis will be emphasized throughout the course with Python being the primary tool for plotting and computations. Statistical measurements will be introduced to gauge the quality and validity of data. Lectures will be three times a week with a required four-hour laboratory section. The course should be completed prior to CHEM courses 174,176, or 184. Prerequisite: CHEM 33 or CHEM 100; and CS 106A.
Terms: Spr | Units: 5 | UG Reqs: GER: DB-NatSci, WAY-AQR, WAY-SMA
Instructors: ; Kromer, M. (PI); Liu, F. (PI)

CHEM 143: The Chemical Principles of Life II

This is the second course in a two-quarter sequence (Chem 141/143), which will continue the discussion of biological science through the lens of chemistry. In this sequence students will gain a qualitative and quantitative understanding of the molecular logic of cellular processes, which include expression and transmission of the genetic code, enzyme kinetics, biosynthesis, energy storage and consumption, membrane transport, and signal transduction. Connections to foundational principles of chemistry will be made through structure-function analyses of biological molecules. Integrated lessons in structural, mechanistic, and physical chemistry will underscore how molecular science and molecular innovation have impacted biology and medicine. Prerequisite: Chem 141.
Terms: Spr | Units: 4
Instructors: ; Banik, S. (PI); Brown, N. (PI)

CHEM 153: Inorganic Chemistry II

Learn how basic concepts in inorganic chemistry can be applied to materials of all dimensionalities. Specific topics will include: symmetry (group theory), bonding models (crystal field theory, valence bond theory, molecular orbital theory, and the Bloch theorem) and electronic structure, and properties/reactivity of molecules and extended solids. Prerequisites: CHEM 151 and either CHEM 173 or CHEM 171 for students who took CHEM 171 in Spring 2021 or later.
Terms: Spr | Units: 3 | UG Reqs: GER: DB-NatSci

CHEM 171: Foundations of Physical Chemistry

Quantum and statistical thermodynamics: obtaining quantum mechanical energy levels and connecting them to thermodynamic properties using statistical mechanics. Emphasis will be on quantum mechanics of ideal systems (particle in a box, particle on a ring, harmonic oscillator, rigid rotor, and hydrogen atom) and their connection to and uses in thermodynamics (laws of thermodynamics, properties of gases and thermal motion, and chemical equilibria). Homeworks and discussion sections will employ the Python programming language for hands-on experience with simulating chemical systems. Prerequisites: CHEM 31B or CHEM 31M; PHYS 41; CS106A; and MATH 51, MATH 61CM, MATH 61DM or CME 100.
Terms: Spr | Units: 4 | UG Reqs: GER: DB-NatSci
Instructors: ; Markland, T. (PI)

CHEM 184: Biological Chemistry Laboratory

Modern techniques in biological chemistry including protein purification, characterization of enzyme kinetics, heterologous expression of His-tagged fluorescent proteins, site-directed mutagenesis, and a course-based undergraduate research experience (CURE) module. Prerequisite: CHEM 131 and CHEM 181.
Terms: Spr | Units: 3 | UG Reqs: GER: DB-NatSci

CHEM 185: Biophysical Chemistry

Primary literature based seminar/discussion course covering classical and contemporary papers in biophysical chemistry. Topics include (among others): protein structure and stability, folding, single molecule fluorescence and force microscopy, simulations, ion channels, GPCRs, and ribosome structure/function. Course is restricted to undergraduates and is the required capstone for majors on the Biological Chemistry track, but open to students from the regular track. Prerequisites: CHEM 181; CHEM 171.
Terms: Spr | Units: 3 | UG Reqs: GER: DB-NatSci

CHEM 196: Creating and Leading New Ventures in Engineering and Science-based Industries (CHEM 296, CHEMENG 196, CHEMENG 296)

Open to seniors and graduate students interested in the creation of new ventures and entrepreneurship in engineering and science intensive industries such as chemical, energy, materials, bioengineering, environmental, clean-tech, pharmaceuticals, medical, and biotechnology. Exploration of the dynamics, complexity, and challenges that define creating new ventures, particularly in industries that require long development times, large investments, integration across a wide range of technical and non-technical disciplines, and the creation and protection of intellectual property. Covers business basics, opportunity viability, creating start-ups, entrepreneurial leadership, and entrepreneurship as a career. Teaching methods include lectures, case studies, guest speakers, and individual and team projects.
Terms: Spr | Units: 3

CHEM 225: Advanced Organic Chemistry III

Natural product total synthesis. This is a course in complex small molecule synthesis with an emphasis on synthetic strategy, reaction mechanism, and named reactions. We will focus on both classical and modern approaches to important alkaloids, terpenes, and polyketides, and we will often compare multiple approaches to the same target. By the end of the course, students should be able to draw qualitative reaction mechanisms for discussed synthetic transformations and exhibit some skills in synthesis planning. All required readings for this course will be from the primary literature.
Terms: Spr | Units: 3 | Repeatable 2 times (up to 6 units total)
Instructors: ; Burns, N. (PI)

CHEM 253: Advanced Inorganic Chemistry

Learn how basic concepts in inorganic chemistry can be applied to materials of all dimensionalities. Specific topics will include: symmetry (group theory), bonding models (crystal field theory, valence bond theory, molecular orbital theory, and the Bloch theorem) and electronic structure, and properties/reactivity of molecules and extended solids. Prerequisites: CHEM 151 and either CHEM 173 or CHEM 171 for students who took CHEM 171 in Spring 2021 or later.
Terms: Spr | Units: 3

CHEM 275: Quantum mechanics with spectroscopy examples

Quantum mechanics with examples related to spectroscopy. Includes time dependent perturbation theory, matrix formalism, density matrix formalism and angular momentum. Required: CHEM 271 or equivalent quantum mechanics course.
Terms: Spr | Units: 3 | Repeatable 2 times (up to 6 units total)
Instructors: ; Fayer, M. (PI)

CHEM 277: Manipulating Spins: NMR Theory and Applications

From the underlying quantum mechanics to isotopic labeling strategies and pulse sequence design, students will develop a strong foundation in understanding magnetic resonance and manipulating spins to detect and discover chemistry - the atomic-level structure and dynamics - in diverse biological systems, synthetic polymers, and other organic and inorganic materials and glasses. We will cover the following foundational material: quantum and classical descriptions of NMR; analysis of pulse sequences and spin coherences via density matrices and the product operator formalism; NMR spectrometer design; Fourier analysis of time-dependent observable magnetization; relaxation; solid-state NMR; NMR problem-solving strategies and examples. Student presentations of NMR applications/topics in the second half of the quarter. The course assumes completion of an undergraduate-level course in quantum mechanics.
Terms: Spr | Units: 3 | Repeatable 2 times (up to 6 units total)
Instructors: ; Cegelski, L. (PI)

CHEM 283: Therapeutic Science at the Chemistry - Biology Interface

(Formerly Chem 227) Explores the design and enablement of new medicines that were born from a convergence of concepts and techniques from chemistry and biology. Topics include an overview of the drug development process, design of of small molecule medicines with various modes of action, drug metabolism and pharmacogenomics, biologic medicines including protein- and nucleic acid-based therapeutics, glycoscience and glycomimetic drugs, and cell-based medicines derived from synthetic biology. Prerequisite: undergraduate level organic chemistry and biochemistry as well as familiarity with concepts in cell and molecular biology.
Terms: Spr | Units: 3
Instructors: ; Bertozzi, C. (PI); Ng, C. (TA)

CHEM 285: Biophysical Chemistry

Primary literature based seminar/discussion course covering classical and contemporary papers in biophysical chemistry. This is intended to provide an introduction to critical analysis of papers in the literature through intensive discussion and evaluation. Topics include (among others): protein structure and stability, folding, single molecule fluorescence and force microscopy, simulations, ion channels, GPCRs, and ribosome structure/function. Course is limited to 15 students and priority will be given to first year Chemistry graduate students.
Terms: Spr | Units: 3

CHEM 289: Concepts and Applications in Chemical Biology (CSB 260)

Current topics include chemical genetics, activity-based probes, inducible protein degradation, DNA/RNA chemistry and molecular evolution, protein labeling, carbohydrate engineering, fluorescent proteins and sensors, optochemical/optogenetic methods, mass spectrometry, and genome-editing technologies.
Terms: Spr | Units: 3
Instructors: ; Chen, J. (PI)

CHEM 296: Creating and Leading New Ventures in Engineering and Science-based Industries (CHEM 196, CHEMENG 196, CHEMENG 296)

Open to seniors and graduate students interested in the creation of new ventures and entrepreneurship in engineering and science intensive industries such as chemical, energy, materials, bioengineering, environmental, clean-tech, pharmaceuticals, medical, and biotechnology. Exploration of the dynamics, complexity, and challenges that define creating new ventures, particularly in industries that require long development times, large investments, integration across a wide range of technical and non-technical disciplines, and the creation and protection of intellectual property. Covers business basics, opportunity viability, creating start-ups, entrepreneurial leadership, and entrepreneurship as a career. Teaching methods include lectures, case studies, guest speakers, and individual and team projects.
Terms: Spr | Units: 3

CHEM 299: Teaching of Chemistry

Required of all teaching assistants in Chemistry. Techniques of teaching chemistry by means of lectures and labs.
Terms: Aut, Win, Spr, Sum | Units: 1-3 | Repeatable for credit

CHEM 300: Department Colloquium

Required of graduate students. May be repeated for credit.
Terms: Aut, Win, Spr | Units: 1 | Repeatable 15 times (up to 15 units total)

CHEM 301: Research in Chemistry

Required of graduate students who have passed the qualifying examination. Open to qualified graduate students with the consent of the major professor. Research seminars and directed reading deal with newly developing areas in chemistry and experimental techniques. May be repeated for credit. Search for adviser name on Axess.
Terms: Aut, Win, Spr, Sum | Units: 2 | Repeatable for credit

CHEM 329: Organic Chemistry Seminar

(Formerly 229) Required of graduate students majoring in organic chemistry. Students giving seminars register for CHEM 231.
Terms: Aut, Win, Spr | Units: 1 | Repeatable 11 times (up to 11 units total)
Instructors: ; Burns, N. (PI)

CHEM 359: Inorganic Chemistry Seminar

(Formerly 259) Required of graduate students majoring in inorganic chemistry.
Terms: Aut, Win, Spr | Units: 1 | Repeatable 15 times (up to 15 units total)

CHEM 379: Physical Chemistry Seminar

(Formerly 279) Required of graduate students majoring in physical chemistry. May be repeated for credit.
Terms: Aut, Win, Spr | Units: 1 | Repeatable 15 times (up to 15 units total)

CHEM 390: Curricular Practical Training for Chemists

For Chemistry majors who need work experience as part of their program of study. Confer with Chem student services office for signup.
Terms: Aut, Win, Spr, Sum | Units: 1 | Repeatable 2 times (up to 2 units total)
Instructors: ; Cegelski, L. (PI)
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