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Designing Computational Biology Workflows with Perl
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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:
Applied Science
Computer Science
Material Type:
Activity/Lab
Lecture Notes
Provider:
CUNY Academic Works
Provider Set:
Queensborough Community College
Author:
Esma Yildirim
Date Added:
06/04/2019
Applied Bioinformatics
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CC BY
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Short Description:
The current edition of the book may be downloaded from the Applied Bioinformatics site. Traffic analytics interactive report

Word Count: 45304

(Note: This resource's metadata has been created automatically by reformatting and/or combining the information that the author initially provided as part of a bulk import process.)

Subject:
Applied Science
Computer Science
Material Type:
Textbook
Provider:
Oregon State University
Author:
David A. Hendrix
Date Added:
10/03/2019
Experimental Molecular Genetics
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CC BY-NC-SA
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This project-based laboratory course provides students with in-depth experience in experimental molecular genetics, using modern methods of molecular biology and genetics to conduct original research. The course is geared towards students (including sophomores) who have a strong interest in a future career in biomedical research. This semester will focus on chemical genetics using Caenorhabditis elegans as a model system. Students will gain experience in research rationale and methods, as well as training in the planning, execution, and communication of experimental biology.
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.
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Subject:
Arts and Humanities
Biology
Genetics
Life Science
Literature
Physical Science
Material Type:
Full Course
Provider:
MIT
Provider Set:
MIT OpenCourseWare
Author:
Cruz, Nelly
Weng, Jing-Ke
Date Added:
02/01/2015
Syllabus for BI 314: Introductory Genetics
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CC BY-NC-SA
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Syllabus for course at Western Oregon University that outlines course goals and program outcomes and includes a schedule with weekly topics and reading. Included reading assignments come from the open access textbook "Introduction to Genetics" (Singh et al, 2023) available at https://opengenetics.pressbooks.tru.ca.

Subject:
Biology
Genetics
Life Science
Material Type:
Syllabus
Provider:
Western Oregon University
Author:
Melissa Kelley
Date Added:
03/27/2024
7.28x Molecular Biology
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CC BY-NC-SA
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This course is an in-depth adventure through the molecular mechanisms that control the maintenance, expression, and evolution of prokaryotic and eukaryotic genomes. Through lectures and readings of relevant literature, students will explore gene regulation, DNA replication, genetic recombination, transcription, and mRNA translation. The quizzes are designed to build students' experimental design and data analysis skills.
This course, based on the MIT course 7.28/7.58 Molecular Biology taken by enrolled MIT students, was organized as a three-part series on edX by MIT’s Department of Biology. It is self-paced and free as long as you enroll in the Audit Track option, which you can select after creating a free account on edX.

Subject:
Biology
Genetics
Life Science
Physical Science
Material Type:
Full Course
Provider:
MIT
Provider Set:
MIT OpenCourseWare
Author:
Baker, Tania
Bell, Stephen
Carr, Swati
Schafheimer, Nathaniel
Thornton, Sera
Wiltrout, Mary Ellen
Date Added:
02/01/2023
Biology, Evolutionary Processes, Evolution and the Origin of Species, Understanding Evolution
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CC BY-NC
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By the end of this section, you will be able to:Describe how the present-day theory of evolution was developedDefine adaptationExplain convergent and divergent evolutionDescribe homologous and vestigial structuresDiscuss misconceptions about the theory of evolution

Subject:
Applied Science
Biology
Life Science
Material Type:
Module
Date Added:
07/10/2017
Simple Mendelian Genetics: An interactive lecture using "DNA from the Beginning"
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CC BY-NC-SA
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An interactive lecture that uses flash animations showing the researcher and their experiments that were used to develop the basic concepts in Mendelian genetics. Includes multiple choice questions students can answer in class.

Subject:
Ecology
Genetics
Geoscience
Life Science
Physical Science
Material Type:
Activity/Lab
Provider:
Science Education Resource Center (SERC) at Carleton College
Provider Set:
Pedagogy in Action
Author:
Jeff Bell
Date Added:
11/06/2014
Cognitive & Behavioral Genetics
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CC BY-NC-SA
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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
Life Science
Physical Science
Psychology
Social Science
Material Type:
Full Course
Provider:
MIT
Provider Set:
MIT OpenCourseWare
Author:
Nedivi, Elly
Pinker, Steven
Date Added:
02/01/2001
Psychology, Biopsychology, Human Genetics
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CC BY-NC
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By the end of this section, you will be able to:Explain the basic principles of the theory of evolution by natural selectionDescribe the differences between genotype and phenotypeDiscuss how gene-environment interactions are critical for expression of physical and psychological characteristics

Subject:
Psychology
Social Science
Material Type:
Module
Date Added:
07/10/2017
Principles of Evolution, Ecology and Behavior
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CC BY-NC-SA
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This course presents the principles of evolution, ecology, and behavior for students beginning their study of biology and of the environment. It discusses major ideas and results in a manner accessible to all Yale College undergraduates. Recent advances have energized these fields with results that have implications well beyond their boundaries: ideas, mechanisms, and processes that should form part of the toolkit of all biologists and educated citizens.

Subject:
Arts and Humanities
Biology
Ecology
Genetics
Life Science
Material Type:
Full Course
Lecture
Reading
Syllabus
Provider:
Yale University
Provider Set:
Open Yale Courses
Date Added:
02/16/2011
Introduction to Biological Engineering Design
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CC BY-NC-SA
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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:
Applied Science
Biology
Engineering
Life Science
Material Type:
Full Course
Provider:
MIT
Provider Set:
MIT OpenCourseWare
Author:
Endy, Andrew
Kuldell, Natalie
Date Added:
02/01/2009
Protein Conservation
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CC BY-NC-SA
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In this module, students use several online databases and bioinformatics tools to study the evolutionary conservation of a protein of their choice. Students are first introduced to amino acid chemistry and to some of the theory underlying sequence comparisons. In the exercises, students:learn how amino acid side chain chemistries are reflected in the BLOSUM62 matrix used to identify conserved regions of protein sequencesuse the BLASTP algorithm to compare two homologous protein sequencesconstruct a multiple sequence alignment that compares homologous proteins from multiple speciesThis module is part of a semester-long introductory laboratory course, Investigations in Molecular Cell Biology, at Boston College. 

Subject:
Biology
Computer Science
Genetics
Material Type:
Module
Author:
Clare OConnor
Date Added:
09/03/2018
Perspectives on Ocean Science: Marine Genomics - Discovering the Secrets of Survival in the Abyss
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How do organisms survive the extreme pressures and temperatures of the ocean abyss? Join Dr. Doug Bartlett as he describes genomics research to understand how deep sea Bacteria have adapted to these extremes, and how this may lay the groundwork for biotechnology using deep sea Bacterial genes. (59 minutes)

Subject:
Biology
Life Science
Oceanography
Physical Science
Material Type:
Lecture
Provider:
UCTV Teacher's Pet
Date Added:
02/07/2010
Biology I
Unrestricted Use
CC BY
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An introduction to cellular and molecular biology. Major topics include the biochemical basis of life, cell biology, photosynthesis, respiration, mitosis, meiosis, genetics, DNA structure and replication and protein synthesis. Students engage the scientific method by designing, conducting and evaluating laboratory experiences that include selected topics in cell structure and function, enzymes, respiration, photosynthesis, genetics and molecular biology. NOTE: Students may receive credit for BIO 119 or BIO 126, but not for both.

Subject:
Biology
Life Science
Material Type:
Full Course
Provider:
Greenfield Community College
Author:
Amanda Hyde
Date Added:
05/06/2019
Bioinformatics and Proteomics
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CC BY-NC-SA
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This interdisciplinary course provides a hands-on approach to students in the topics of bioinformatics and proteomics. Lectures and labs cover sequence analysis, microarray expression analysis, Bayesian methods, control theory, scale-free networks, and biotechnology applications. Designed for those with a computational and/or engineering background, it will include current real-world examples, actual implementations, and engineering design issues. Where applicable, engineering issues from signal processing, network theory, machine learning, robotics and other domains will be expounded upon.

Subject:
Applied Science
Biology
Computer Science
Engineering
Life Science
Physical Science
Material Type:
Full Course
Provider:
MIT
Provider Set:
MIT OpenCourseWare
Author:
Alterovitz, Gil
Kellis, Manolis
Ramoni, Marco
Date Added:
01/01/2005
Misconceptions about Evolution
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Unfortunately, many people have persistent misconceptions about evolution. Some are simple misunderstandingsŃideas that develop in the course of learning about evolution, possibly from school experiences and/or the media. Other misconceptions may stem from purposeful attempts to misrepresent evolution and undermine the public's understanding of this topic.

Subject:
Biology
Life Science
Material Type:
Reading
Teaching/Learning Strategy
Provider:
University of California Museum of Paleontology
Provider Set:
Understanding Evolution
Date Added:
05/17/2013