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Bioethics, Spring 2009
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" This course does not seek to provide answers to ethical questions. Instead, the course hopes to teach students two things. First, how do you recognize ethical or moral problems in science and medicine? When something does not feel right (whether cloning, or failing to clone) ‰ŰÓ what exactly is the nature of the discomfort? What kind of tensions and conflicts exist within biomedicine? Second, how can you think productively about ethical and moral problems? What processes create them? Why do people disagree about them? How can an understanding of philosophy or history help resolve them? By the end of the course students will hopefully have sophisticated and nuanced ideas about problems in bioethics, even if they do not have comfortable answers."

Subject:
Arts and Humanities
Genetics
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Hare, Caspar
Jones, David
Date Added:
01/01/2009
Chemicals in the Environment: Toxicology and Public Health (BE.104J), Spring 2005
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This course addresses the challenges of defining a relationship between exposure to environmental chemicals and human disease. Course topics include epidemiological approaches to understanding disease causation; biostatistical methods; evaluation of human exposure to chemicals, and their internal distribution, metabolism, reactions with cellular components, and biological effects; and qualitative and quantitative health risk assessment methods used in the U.S. as bases for regulatory decision-making. Throughout the term, students consider case studies of local and national interest.

Subject:
Environmental Science
Genetics
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Sherley, James
Date Added:
01/01/2005
Cognitive and Behavioral Genetics, Spring 2001
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How genetics can add to our understanding of cognition, language, emotion, personality, and behavior. Use of gene mapping to estimate risk factors for psychological disorders and variation in behavioral and personality traits. Mendelian genetics, genetic mapping techniques, and statistical analysis of large populations and their application to particular studies in behavioral genetics. Topics also include environmental influence on genetic programs, evolutionary genetics, and the larger scientific, social, ethical, and philosophical implications.

Subject:
Biology
Genetics
Psychology
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Nedivi, Elly
Pinker, Steve
Date Added:
01/01/2001
Computation for Biological Engineers, Fall 2006
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This course covers the analytical, graphical, and numerical methods supporting the analysis and design of integrated biological systems. Topics include modularity and abstraction in biological systems, mathematical encoding of detailed physical problems, numerical methods for solving the dynamics of continuous and discrete chemical systems, statistics and probability in dynamic systems, applied local and global optimization, simple feedback and control analysis, statistics and probability in pattern recognition.

Subject:
Genetics
Statistics and Probability
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Alm, Eric
Date Added:
01/01/2006
Crispr Cas9
Unrestricted Use
CC BY
Rating

Precise modification of faulty genes for repair has been one of the most important goals in medicine. It is now finally within the realm of possibility thanks to the gene editing tool CRISPR. This microbial adaptive immune system can copy and cut specific DNA sequences. This animation provides a visual introduction of this revolutionary genetic tool.

Subject:
Health, Medicine and Nursing
Genetics
Material Type:
Lecture
Provider:
CUNY Academic Works
Provider Set:
City College
Author:
Chen, Ching-jung
Cheng, Katie
Chowdhury, Abanti Deb
Eng, Timmy
Estevez, Irving
Malik, Rafay
Ndjiharine, Vitjitua
Oviedo, Hysell V.
Date Added:
04/01/2019
Crispr-Cas 9 · Science Animation
Unrestricted Use
CC BY
Rating

Precise modification of faulty genes for repair has been one of the most important goals in medicine. It is now finally within the realm of possibility thanks to the gene editing tool CRISPR. This microbial adaptive immune system can copy and cut specific DNA sequences. This animation provides a visual introduction of this revolutionary genetic tool.

Subject:
Life Science
Biology
Genetics
Material Type:
Diagram/Illustration
Simulation
Provider:
CUNY
Provider Set:
City College
Author:
Abanti Deb Chowdhury
Ching-Jung Chen
Hysell Ovideo
Irving Estevez
Katie Cheng
Rafay Malik
Timmy Eng
Vitjitua Ndjiharine
Date Added:
11/09/2019
Designing Computational Biology Workflows with Perl - Part 1
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This material introduces the AWS console interface, describes how to create an instance on AWS with the VMI provided, connect to that machine instance using the SSH protocol. Once connected, it requires the students to write a script to enter the data folder, which includes gene-sequencing input files and print the first five line of each file remotely. The same exercise can be applied if the VMI is installed on a local machine using virtualization software (e.g. Oracle VirtualBox). In this case, the Terminal program of the VMI can be used to do the exercise.

Subject:
Computer Science
Biology
Genetics
Material Type:
Activity/Lab
Provider:
CUNY Academic Works
Provider Set:
Queensborough Community College
Author:
Yildirim, Esma
Date Added:
05/01/2019
Designing Computational Biology Workflows with Perl - Part 1
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This material introduces Linux File System structures and demonstrates how to use commands to communicate with the operating system through a Terminal program. Basic program structures and system() function of Perl are discussed. A brief introduction to gene-sequencing terminology and file formats are given.

Subject:
Computer Science
Biology
Genetics
Material Type:
Lecture
Provider:
CUNY Academic Works
Provider Set:
Queensborough Community College
Author:
Yildirim, Esma
Date Added:
05/01/2019
Designing Computational Biology Workflows with Perl - Part 2
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This material briefly reintroduces the DNA double Helix structure, explains SNP and INDEL mutations in genes and describes FASTA, FASTQ, BAM and VCF file formats. It also explains the index creation, alignment, sorting, marking duplicates and variant calling steps of a simple preprocessing workflow and how to write a Perl script to automate the execution of these steps on a Virtual Machine Image.

Subject:
Computer Science
Biology
Genetics
Material Type:
Lecture
Provider:
CUNY Academic Works
Provider Set:
Queensborough Community College
Author:
Yildirim, Esma
Date Added:
05/01/2019
Designing Computational Biology Workflows with Perl - Part 2
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This material introduces the AWS console interface, describes how to create an instance on AWS with the VMI provided and connect to that machine instance using the SSH protocol. Once connected, it requires the students to write a script to automate the tasks to create VCF files from two different sample genomes belonging to E.coli microorganisms by using the FASTA and FASTQ files in the input folder of the virtual machine. The same exercise can be applied if the VMI is installed on a local machine using virtualization software (e.g. Oracle VirtualBox). In this case, the Terminal program of the VMI can be used to do the exercise.

Subject:
Computer Science
Biology
Genetics
Material Type:
Activity/Lab
Provider:
CUNY Academic Works
Provider Set:
Queensborough Community College
Author:
Yildirim, Esma
Date Added:
05/01/2019
Design of Medical Devices and Implants, Spring 2006
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" This design course targets the solution of clinical problems by use of implants and other medical devices. Topics include the systematic use of cell-matrix control volumes; the role of stress analysis in the design process; anatomic fit, shape and size of implants; selection of biomaterials; instrumentation for surgical implantation procedures; preclinical testing for safety and efficacy, including risk/benefit ratio assessment evaluation of clinical performance and design of clinical trials. Student project materials are drawn from orthopedic devices, soft tissue implants, artificial organs, and dental implants."

Subject:
Health, Medicine and Nursing
Genetics
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Spector, Myron
Yannas, Ioannis
Date Added:
01/01/2006
Elements of Mechanical Design, Spring 2009
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" This is an advanced course on modeling, design, integration and best practices for use of machine elements such as bearings, springs, gears, cams and mechanisms. Modeling and analysis of these elements is based upon extensive application of physics, mathematics and core mechanical engineering principles (solid mechanics, fluid mechanics, manufacturing, estimation, computer simulation, etc.). These principles are reinforced via (1) hands-on laboratory experiences wherein students conduct experiments and disassemble machines and (2) a substantial design project wherein students model, design, fabricate and characterize a mechanical system that is relevant to a real world application. Students master the materials via problems sets that are directly related to, and coordinated with, the deliverables of their project. Student assessment is based upon mastery of the course materials and the student's ability to synthesize, model and fabricate a mechanical device subject to engineering constraints (e.g. cost and time/schedule)."

Subject:
Engineering
Manufacturing
Genetics
Chemistry
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Culpepper, Martin
Date Added:
01/01/2009
Experimental Microbial Genetics, Fall 2008
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" In this class, students engage in independent research projects to probe various aspects of the physiology of the bacteriumĺĘPseudomonas aeruginosa PA14, an opportunistic pathogen isolated from the lungs of cystic fibrosis patients. Students use molecular genetics to examine survival in stationary phase, antibiotic resistance, phase variation, toxin production, and secondary metabolite production. Projects aim to discover the molecular basis for these processes using both classical and cutting-edge techniques. These include plasmid manipulation, genetic complementation, mutagenesis, PCR, DNA sequencing, enzyme assays, and gene expression studies. Instruction and practice in written and oral communication are also emphasized. WARNING NOTICE The experiments described in these materials are potentially hazardous and require a high level of safety training, special facilities and equipment, and supervision by appropriate individuals. You bear the sole responsibility, liability, and risk for the implementation of such safety procedures and measures. MIT shall have no responsibility, liability, or risk for the content or implementation of any of the material presented. Legal Notice "

Subject:
Biology
Genetics
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Croal, Laura
Laub, Michael
Melvold, Janis
Newman, Dianne
Date Added:
01/01/2008
The Fountain of Life: From Dolly to Customized Embryonic Stem Cells, Fall 2007
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" During development, the genetic content of each cell remains, with a few exceptions, identical to that of the zygote. Most differentiated cells therefore retain all of the genetic information necessary to generate an entire organism. It was through pioneering technology of somatic cell nuclear transfer (SCNT) that this concept was experimentally proven. Only 10 years ago the sheep Dolly was the first mammal to be cloned from an adult organism, demonstrating that the differentiated state of a mammalian cell can be fully reversible to a pluripotent embryonic state. A key conclusion from these experiments was that the difference between pluripotent cells such as embryonic stem (ES) cells and unipotent differentiated cells is solely a consequence of reversible changes. These changes, which have proved to involve reversible alterations to both DNA and to proteins that bind DNA, are known as epigenetic, to distinguish them from genetic alterations to DNA sequence. In this course we will explore such epigenetic changes and study different approaches that can return a differentiated cell to an embryonic state in a process referred to as epigenetic reprogramming, which will ultimately allow generation of patient-specific stem cells and application to regenerative therapy. This course is one of many Advanced Undergraduate Seminars offered by the Biology Department at MIT. These seminars are tailored for students with an interest in using primary research literature to discuss and learn about current biological research in a highly interactive setting. Many instructors of the Advanced Undergraduate Seminars are postdoctoral scientists with a strong interest in teaching."

Subject:
Biology
Genetics
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Meissner, Alexander
Date Added:
01/01/2007
Freshman Seminar: Structural Basis of Genetic Material: Nucleic Acids, Fall 2005
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Since the discovery of the structure of the DNA double helix in 1953 by Watson and Crick, the information on detailed molecular structures of DNA and RNA, namely, the foundation of genetic material, has expanded rapidly. This discovery is the beginning of the "Big Bang" of molecular biology and biotechnology. In this seminar, students discuss, from a historical perspective and current developments, the importance of pursuing the detailed structural basis of genetic materials.

Subject:
Biology
Genetics
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Zhang, Shuguang
Date Added:
01/01/2005
General Biology I
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An integrated course stressing the principles of biology. Life processes are examined primarily at the molecular and cellular levels. Intended for students majoring in biology or for non-majors who wish to take advanced biology courses.

Subject:
Biology
Genetics
Chemistry
Material Type:
Activity/Lab
Full Course
Lecture Notes
Syllabus
Provider:
UMass Boston
Provider Set:
UMass Boston OpenCourseWare
Author:
Ph.D.
Professor Brian White
Date Added:
03/04/2019
Genetic Neurobiology, Fall 2005
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Deals with the specific functions of neurons, the interactions of neurons in development, and the organization of neuronal ensembles to produce behavior, by functional analysis of mutations and molecular analysis of their genes. Concentrates on work with nematodes, fruit flies, mice, and humans.

Subject:
Biology
Genetics
Psychology
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Littleton, Troy
Quinn, William
Date Added:
01/01/2005
Genomic Medicine, Spring 2004
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This course reviews the key genomic technologies and computational approaches that are driving advances in prognostics, diagnostics, and treatment. Throughout the semester, emphasis will return to issues surrounding the context of genomics in medicine including: what does a physician need to know? what sorts of questions will s/he likely encounter from patients? how should s/he respond? Lecturers will guide the student through real world patient-doctor interactions. Outcome considerations and socioeconomic implications of personalized medicine are also discussed. The first part of the course introduces key basic concepts of molecular biology, computational biology, and genomics. Continuing in the informatics applications portion of the course, lecturers begin each lecture block with a scenario, in order to set the stage and engage the student by showing: why is this important to know? how will the information presented be brought to bear on medical practice? The final section presents the ethical, legal, and social issues surrounding genomic medicine. A vision of how genomic medicine relates to preventative care and public health is presented in a discussion forum with the students where the following questions are explored: what is your level of preparedness now? what challenges must be met by the healthcare industry to get to where it needs to be?

Subject:
Health, Medicine and Nursing
Genetics
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Kohane, Isaac
Date Added:
01/01/2004
Introduction to Biological Engineering Design, Spring 2009
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" This class is a project-based introduction to the engineering of synthetic biological systems. Throughout the term, students develop projects that are responsive to real-world problems of their choosing, and whose solutions depend on biological technologies. Lectures, discussions, and studio exercises will introduce (1) components and control of prokaryotic and eukaryotic behavior, (2) DNA synthesis, standards, and abstraction in biological engineering, and (3) issues of human practice, including biological safety; security; ownership, sharing, and innovation; and ethics. Enrollment preference is given to freshmen. This subject was originally developed and first taught in Spring 2008 by Drew Endy and Natalie Kuldell. Many of Drew's materials are used in this Spring 2009 version, and are included with his permission. This OCW Web site is based on the OpenWetWare class Wiki, found at OpenWetWare: 20.020 (S09)"

Subject:
Biology
Genetics
Chemistry
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Kuldell, Natalie
Date Added:
01/01/2009
The Law of Black Mirror - Syllabus
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Using episodes from the show Black Mirror as a study tool - a show that features tales that explore techno-paranoia - the course analyzes legal and policy considerations of futuristic or hypothetical case studies. The case studies tap into the collective unease about the modern world and bring up a variety of fascinating key philosophical, legal, and economic-based questions.

Subject:
Engineering
Information Science
Philosophy
Business and Communication
Communication
Journalism
Law
Genetics
Social Science
Sociology
Material Type:
Syllabus
Provider:
CUNY Academic Works
Provider Set:
Baruch College
Author:
Lev-Aretz, Yafit
Packin, Nizan
Date Added:
08/15/2020
Molecular Structure of Biological Materials (BE.442), Fall 2005
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Basic molecular structural principles of biological materials. Molecular structures of various materials of biological origin, including collagen, silk, bone, protein adhesives, GFP, self-assembling peptides. Molecular design of new biological materials for nanotechnology, biocomputing and regenerative medicine. Graduate students are expected to complete additional coursework. This course, intended for both graduate and upper level undergraduate students, will focus on understanding of the basic molecular structural principles of biological materials. It will address the molecular structures of various materials of biological origin, such as several types of collagen, silk, spider silk, wool, hair, bones, shells, protein adhesives, GFP, and self-assembling peptides. It will also address molecular design of new biological materials applying the molecular structural principles. The long-term goal of this course is to teach molecular design of new biological materials for a broad range of applications. A brief history of biological materials and its future perspective as well as its impact to the society will also be discussed. Several experts will be invited to give guest lectures.

Subject:
Biology
Genetics
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Zhang, Shuguang
Date Added:
01/01/2005
Nanomechanics of Materials and Biomaterials, Spring 2007
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This course focuses on the latest scientific developments and discoveries in the field of nanomechanics, the study of forces and motion on extremely tiny (10-9 m) areas of synthetic and biological materials and structures. At this level, mechanical properties are intimately related to chemistry, physics, and quantum mechanics. Most lectures will consist of a theoretical component that will then be compared to recent experimental data (case studies) in the literature. The course begins with a series of introductory lectures that describes the normal and lateral forces acting at the atomic scale. The following discussions include experimental techniques in high resolution force spectroscopy, atomistic aspects of adhesion, nanoindentation, molecular details of fracture, chemical force microscopy, elasticity of single macromolecular chains, intermolecular interactions in polymers, dynamic force spectroscopy, biomolecular bond strength measurements, and molecular motors.

Subject:
Biology
Genetics
Chemistry
Physics
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Ortiz, Christine
Date Added:
01/01/2007
Quantitative Genomics, Fall 2005
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Subject assesses the relationships between sequence, structure, and function in complex biological networks as well as progress in realistic modeling of quantitative, comprehensive functional-genomics analyses. Topics include: algorithmic, statistical, database, and simulation approaches; and practical applications to biotechnology, drug discovery, and genetic engineering. Future opportunities and current limitations critically assessed. Problem sets and project emphasize creative, hands-on analyses using these concepts.

Subject:
Biology
Genetics
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Berwick, Robert
Kho, Alvin
Kohane, Isaac
Mirny, Leonid
Date Added:
01/01/2005
Sophisticated Survival Skills of Simple Microorganisms, Spring 2008
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In this course, we will discuss the microbial physiology and genetics of stress responses in aquatic ecosystems, astrobiology, bacterial pathogenesis and other environments. We will learn about classical and novel methods utilized by researchers to uncover bacterial mechanisms induced under both general and environment-specific stresses. Finally, we will compare and contrast models for bacterial stress responses to gain an understanding of distinct mechanisms of survival and of why there are differences among bacterial genera.

Subject:
Biology
Genetics
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Dolberry, Adrienne
Date Added:
01/01/2008
Special Topics: Genetics, Neurobiology, and Pathophysiology of Psychiatric Disorders, Fall 2008
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" An opportunity for graduate study of advanced subjects in Brain and Cognitive Sciences not included in other subject listings. The key topics covered in this course are Bipolar Disorder, Psychosis, Schizophrenia, Genetics of Psychiatric Disorder, DISC1, Ca++ Signaling, Neurogenesis and Depression, Lithium and GSK3 Hypothesis, Behavioral Assays, CREB in Addiction and Depressive Behaviors, The GABA System-I, The GABA System-II, The Glutamate Hypothesis of Schizophrenia, The Dopamine Pathway and DARPP32."

Subject:
Biology
Genetics
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Scolnick, Edward
Tsai, Li-Huei
Date Added:
01/01/2008
The X in Sex: A Genetic, Medical, and Evolutionary View of the X Chromosome, Fall 2009
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" This course will explore a diverse collection of striking biological phenomena associated with the X chromosome. We will examine the genetic basis and significance of several X-linked mutations. We will also discuss why men are more likely than women to display X-linked traits. We will look at the different mechanisms by which X chromosome gene expression is equalized in mammals, flies, and worms and how these mechanisms can yield unusual phenotypes. Throughout our discussions of the X chromosome we will use both recent and classic primary research papers to learn about this chromosome's fascinating biology. This course is one of many Advanced Undergraduate Seminars offered by the Biology Department at MIT. These seminars are tailored for students with an interest in using primary research literature to discuss and learn about current biological research in a highly interactive setting. Many instructors of the Advanced Undergraduate Seminars are postdoctoral scientists with a strong interest in teaching."

Subject:
Biology
Genetics
Material Type:
Full Course
Provider:
M.I.T.
Provider Set:
M.I.T. OpenCourseWare
Author:
Mueller, Jacob
Date Added:
01/01/2009