From treatment of infections to prophylactic use following surgery, antibiotics have transformed healthcare since their discovery and distribution. However, poor management of this medical resource has seen resistance whittle down their efficacies, and it is now recognized that antibiotics can disrupt the microbiota that keep us healthy. This course will use lectures, lab demonstrations, guest speakers, and primary literature to introduce how science, engineering, medicine, and policy have shaped the current age of antibiotics, which is characterized by a variety of treatment options, MDR bacteria, and a weak pipeline of new agents.

This interdisciplinary course provides a broad overview of computational and experimental approaches to decipher genomes and characterize molecular systems. We focus on methods for analyzing "omics" data, such as genome and protein sequences, gene expression, proteomics and molecular interaction networks. We cover algorithms used in computational biology, key statistical concepts (e.g., basic probability distributions, significance testing, multiple hypothesis correction, data evaluation), and machine learning methods which have been applied to biological problems (e.g., hidden Markov models, clustering, classification techniques).

How do immune systems work, and why do they work as they do? Why is there so much immunological polymorphism? To address these questions, students will examine immunology across multiple biological scales. At the molecular and cellular scales, students will learn mechanisms by which animals recognize and kill parasites. At the population scale, students will investigate causes of immunological heterogeneity. Both the clinical relevance (including to COVID-19) and the evolutionary basis of heterogeneity will be emphasized.

An integrated, mathematically and computationally sophisticated introduction to physics, chemistry, molecular biology, and computer science. This year long, four course sequence is a multidisciplinary course taught across multiple departments with the following faculty: COS: O. Troyanskaya; EEB: J. Akey; LSI: B. Bratton, J. Gadd, A. Mayer, Q. Wang; MOL: E. Wieschaus, M. Wuhr; PHY: T. Gregor, J. Shaevitz. Five hours of lecture, one three-hour lab, one three-hour precept, one required evening problem session.

An integrated, mathematically and computationally sophisticated introduction to physics, chemistry, molecular biology, and computer science. This year long, four course sequence is a multidisciplinary course taught across multiple departments with the following faculty: COS: O. Troyanskaya; EEB: J. Akey; LSI: B. Bratton, J. Gadd, A. Mayer, Q. Wang; MOL: E. Wieschaus, M. Wuhr; PHY: T. Gregor, J. Shaevitz. Five hours of lecture, one three-hour lab, one three-hour precept, one required evening problem session.

Important concepts and elements of molecular biology, biochemistry, genetics, and cell biology are examined in an experimental context. This course fulfills the requirement for students majoring in the biological sciences and satisfies the biology requirement for entrance into medical school.

Fundamental concepts of biomolecular structure and function will be discussed, with an emphasis on principles of thermodynamics, binding and catalysis. A major portion of the course will focus on metabolism and its logic and regulation.

MOL350 is a course designed to prepare students to be contributing members of research labs and to foster creative, critical thinking, and effective communication skills. The class utilizes a reading and discussion-based curriculum, mixed with original research projects, to arrive at a higher-order understanding of scientific literature and the scientific method. While completing original research, students employ techniques used by cell and molecular biologists and developmental geneticists. Currently, MOL350 projects focus on branching morphogenesis and lumen formation in the Drosophila tracheal system.

At a 10 nanometer scale, protein machines 'walk' on microtubule tracks. At a scale 10,000 times larger, networks of interacting genes pattern a developing embryo into different body regions. This course will examine these and other complex biological systems at the molecular, cellular, and multicellular scales. In parallel, we will cover emerging methods for quantitatively probing and analyzing biological systems. Specific topics will include structural biology from crystallography to cryo-electron microscopy, enzyme kinetics, gene regulatory networks, next-generation sequencing, data mining, simulating biological models and image analysis.

Viruses are unique parasites of living cells and may be the most abundant, highest evolved life forms on the planet. The general strategies encoded by all known viral genomes are discussed using selected viruses as examples. A part of the course is dedicated to the molbio (tactics) inherent to these strategies. Another part introduces the biology of engagement of viruses with host defenses, what happens when virus infection leads to disease, vaccines and antiviral drugs, and the evolution of infectious agents and emergence of new viruses. These topics are intertwined with discussions of modern technologies that benefit the field of virology.

Within a broad context of historical, social, and ethical concerns, a survey of normal childhood development and selected disorders from the perspectives of the physician, the biologist, and the bioethicist. There is an emphasis on the complex relationship between genetic and acquired causes of disease, the environment, medical practice, social conditions, and cultural values. The course features visits from children with some of the conditions discussed, site visits, and readings from the original medical, scientific, and bioethical literature.

The course will be a detailed overview of the practice of light microscopy as applied to scientific investigation. The emphasis of the course will be on the use of the light microscope by biological scientists, however students of other disciplines are welcome. We will cover optical microscope theory, microscope components and mechanics, and all modern optical techniques from brightfield through super-resolution and lightsheet microscopies. Instruction will consist of lectures, demonstrations, and hands-on experience using the light microscopes in the Molecular Biology Confocal Imaging Facility (CIF) and others provided by vendors.

This course focuses on the molecules and molecular assemblies that underlie cellular structure and function. Topics include protein structure and folding; ligand binding and enzyme catalysis; membranes, ion channels, and translocation; intracellular trafficking; signal transduction and cell-cell communication; and cytoskeleton assembly, regulation, and function. A major goal of the course is to increase proficiency in parsing and critically discussing papers from the primary literature.

Advanced-level discussions of topics in prokaryotic and eukaryotic molecular biology and genetics. Emphasis is placed on original research papers and extensive reading together with critical thinking is required. Part I (weeks 1-8) topics include the genetic code, mutagenesis, chromosomes, DNA replication, recombination, repair, and transposition, and gene structure, function, and regulation in bacteriophage and bacteria. Part 2 (weeks 9-12) focuses on classical and modern genetic tools and the logical framework used to study gene function in cell, developmental, disease biology of multicellular model organisms.

Students will perform research in the laboratories of two faculty advisers.

Viruses are unique parasites of living cells and may be the most abundant, highest evolved life forms on the planet. The general strategies encoded by all known viral genomes are discussed using selected viruses as examples. A part of the course is dedicated to the molbio (tactics) inherent to these strategies. Another part introduces the biology of engagement of viruses with host defenses, what happens when virus infection leads to disease, vaccines and antiviral drugs, and the evolution of infectious agents and emergence of new viruses. These topics are intertwined with discussions of modern technologies that benefit the field of virology.

The course is a detailed overview of the practice of light microscopy as applied to scientific investigation. The emphasis of the course is on the use of the light microscope by biological scientists, however students of other disciplines are welcome. We cover optical microscope theory, microscope components and mechanics, and all modern optical techniques from brightfield through super-resolution and lightsheet microscopies. Instruction consists of lectures, demonstrations, and hands-on experience using the light microscopes in the Molecular Biology Confocal Imaging Facility (CIF) and others provided by vendors.

A survey of modern neuroscience in lecture format, focusing on brain function from cells and the molecules they express to the function of circuits. The course emphasizes theoretical and computational/quantitative approaches. Topics include cellular neurophysiology, neuroanatomy, neural circuits and dynamics, cell fate decisions, neural development and plasticity, sensory systems, and molecular neuroscience. Students read and discuss primary literature throughout the course. This is one-half of a double-credit core course required of all Neuroscience Ph.D. students.

This laboratory course complements NEU 501A and introduces students to the variety of techniques and concepts used in modern neuroscience, from the point of view of experimental and computational/quantitative approaches. Topics include synaptic transmission and plasticity, two-photon imaging, central neuron activity patterns, optogenetic methods to control neural activity and student-designed special projects. In-lab lectures give students the background necessary to understand the scientific content of the labs but the emphasis is on the laboratory work. Second half of a double-credit core course required of all NEU Ph.D. students.

This interdisciplinary course provides a broad overview of computational and experimental approaches to decipher genomes and characterize molecular systems. We focus on methods for analyzing "omics" data, such as genome and protein sequences, gene expression, proteomics and molecular interaction networks. We cover algorithms used in computational biology, key statistical concepts (e.g., basic probability distributions, significance testing, multiple hypothesis correction, data evaluation), and machine learning methods which have been applied to biological problems (e.g., hidden Markov models, clustering, classification techniques).

Close reading of published papers illustrating the principles, achievements, and difficulties that lie at the interface of theory and experiment in biology. Two important papers, read in advance by all students, will be considered each week; the emphasis will be on discussion with students as opposed to formal lectures. Topics include: cooperativity, robust adaptation, kinetic proofreading, sequence analysis, clustering, phylogenetics, analysis of fluctuations, and maximum likelihood methods. A general tutorial on Matlab and specific tutorials for the four homework assignments will be available.