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What is in this? Students Deliberate on Endocrine Disrupting Chemicals Found in Everyday Healthcare Items to Build Democratic Skills 这里面有什么?学生探讨日常医疗用品中发现的内分泌干扰物质,以建立民主技能
Pub Date : 2022-01-01 DOI: 10.24918/cs.2022.31
Liz Rain-Griffith, Emma C Goodwin, E. Shortlidge
In helping our students become informed and active members of society, it is necessary that they develop certain skills that will empower them to improve their community and governance. These skills include communication, collaboration, and application of information. One way of helping students develop these important skills is through deliberative pedagogy. In this article, we present the curriculum for a small group activity called Deliberative Democracy (DD). Here we describe one DD activity that was iteratively developed over five years for an introductory biology course. In this DD activity, students were asked to develop a policy statement that addresses the question: “What kind of regulations should be placed on cosmetics that contain potential endocrine disrupting chemicals (EDCs)?” We incorporate multiple strategies in this activity, including readings, videos, worksheets, clicker questions, small group and individual work, and whole class discussions. This activity supports students in developing important democratic skills and provides an opportunity to apply course content to real- world issues.
在帮助我们的学生成为见多识广和积极的社会成员的过程中,他们有必要发展某些技能,使他们能够改善他们的社区和治理。这些技能包括沟通、协作和信息应用。帮助学生发展这些重要技能的一种方法是通过深思熟虑的教学法。在这篇文章中,我们介绍了一个名为协商民主(DD)的小组活动的课程。在这里,我们描述了一个DD活动,迭代开发超过五年的入门生物学课程。在这个DD活动中,学生们被要求制定一份政策声明来解决这个问题:“应该对含有潜在内分泌干扰物质(EDCs)的化妆品制定什么样的法规?”我们在这个活动中采用了多种策略,包括阅读、视频、工作表、点击题、小组和个人作业以及全班讨论。这项活动支持学生发展重要的民主技能,并提供将课程内容应用于现实世界问题的机会。
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引用次数: 0
Exploring the Complexities of Photosynthesis Through a Comic Strip 通过连环画探索光合作用的复杂性
Pub Date : 2022-01-01 DOI: 10.24918/cs.2022.33
Ellen M. Wisner
Photosynthesis is a conceptually challenging topic. The small scale at which photosynthesis takes place makes it difficult for students to visualize what is occurring, and students are often overwhelmed by all of the details of the process. This activity uses a freely-available comic to make learning photosynthesis more approachable and to help students identify their own misconceptions and questions about the process. This activity is appropriate for any college-level introductory biology course and although it was designed for an online class, it could be adapted for in-person learning. In this activity, students work through a four-part online module. Each part consists of readings and videos containing background information on the steps of photosynthesis followed by the corresponding portion of a comic on photosynthesis. Students then use the background information in the module and the comic to identify their own misconceptions and questions and post these in an online discussion forum. The online module is followed by a live session in which the instructor uses the student discussion posts to clarify any remaining questions. Learning about photosynthesis in the unique visual format of a comic allows students to more easily visualize a process that they cannot see with their own eyes. Students enjoyed this activity because it makes learning photosynthesis fun and less intimidating. This lesson is powerful because it allows the instructor to hear from all students in the course via the discussion forum and then tailor the live discussion session to cover student identified problem topics. ,
光合作用是一个概念上具有挑战性的话题。光合作用发生的规模很小,这使得学生们很难想象发生了什么,而且学生们经常被过程的所有细节所淹没。这个活动使用了一个免费的漫画,使学习光合作用更容易接近,并帮助学生识别自己对这个过程的误解和问题。这个活动适用于任何大学水平的生物学入门课程,尽管它是为在线课程设计的,但它也可以用于面对面的学习。在这个活动中,学生们完成了一个由四部分组成的在线模块。每个部分都包括阅读和视频,其中包含光合作用步骤的背景信息,然后是光合作用漫画的相应部分。然后,学生们使用模块中的背景信息和漫画来识别他们自己的误解和问题,并将这些问题发布到在线论坛上。在线模块之后是一个现场会话,教师使用学生讨论帖子来澄清任何剩余的问题。通过漫画这种独特的视觉形式来学习光合作用,可以让学生更容易地想象一个他们无法亲眼看到的过程。学生们喜欢这个活动,因为它使学习光合作用变得有趣而不那么吓人。这节课很强大,因为它允许教师通过讨论论坛听取课程中所有学生的意见,然后根据学生确定的问题主题定制现场讨论环节。,
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引用次数: 0
Learning Quantitative Genetics: Investigation of Genetic Control for Cold Stress Response in Plants 学习数量遗传学:植物冷胁迫反应的遗传控制研究
Pub Date : 2022-01-01 DOI: 10.24918/cs.2022.4
I. Makarevitch, Raeann Goering
Course-embedded undergraduate research experiences (CUREs) for students have been shown to increase students’ understanding of the process of science, affirm their scientific identity, and improve retention in STEM fields. Despite many CUREs recently developed for introductory biology, genetics, biochemistry, and molecular biology courses, projects related to quantitative genetics and polygenic inheritance are rare. Students frequently struggle with the uncertainty and complexity of quantitative genetic studies in a traditional genetics course. This lesson describes a series of laboratory exercises that provide an authentic research experience focused on quantitative trait loci (QTL) analysis of the traits related to cold stress response in plants. Maize varieties show a large variation in the degree of their response to stress, suggesting that this trait is highly heritable, even though most of the genes contributing to this trait remain elusive. The results of the QTL analysis vary depending on the plant material used in the study and the specific traits measured in the study, reflecting the polygenic nature of the trait. This laboratory project allows students to make decisions about the details of the experimental design, collaborate with their peers, conduct the experiments, and analyze the results using standard protocols for the QTL analysis. The accompanying worksheets and supplemental instruction demonstrate the complex architecture of quantitative traits and their dependency on the number of plants involved in the analysis and the details of the experimental design. The laboratory series invites students to discuss the nature of the scientific investigation. Citation: Makarevitch I, Goering R. 2022. Learning quantitative genetics: Investigation of genetic control for cold stress response in plants. CourseSource. https://doi.org/10.24918/cs.2022.4 Editor: Megan Barker, Simon Fraser University Received: 2/23/2021; Accepted: 8/31/2021; Published: 2/14/2022 Copyright: © 2022 Makarevitch and Goering. This is an open-access article distributed under the terms of the Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License, which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original author and source are credited. Conflict of Interest and Funding Statement: None of the authors has a financial, personal, or professional conflict of interest related to this work. This work was supported by NSF awards (IOS 1444456). Supporting Materials: Supporting Files S1. QTLs of Maize Cold Response – Detailed Timeline; S2. QTLs of Maize Cold Response – Student Handout; S3. QTLs of Maize Cold Response – Sample Answers to the Questions of the Worksheets; S4. QTLs of Maize Cold Response – Multiple Choice Assessment Quiz with Correct Answers; S5. QTLs of Maize Cold Response – Rubric Used for the Assessment of Student Skills in Data Analysis and Interpretation in the Lab Reports; S6. QTL
学生的课程嵌入式本科研究经历(CUREs)已被证明可以增加学生对科学过程的理解,肯定他们的科学身份,并提高对STEM领域的保留。尽管最近在生物学入门、遗传学、生物化学和分子生物学课程中开发了许多cure,但与数量遗传学和多基因遗传相关的项目很少。在传统的遗传学课程中,学生经常与定量遗传学研究的不确定性和复杂性作斗争。本课程介绍了一系列的实验室练习,提供了一个真实的研究经验,重点是植物中与冷胁迫反应相关的性状的数量性状位点(QTL)分析。玉米品种对压力的反应程度有很大的差异,这表明这一特性是高度可遗传的,尽管大多数导致这一特性的基因仍然难以捉摸。QTL分析的结果根据研究中使用的植物材料和研究中测量的特定性状而有所不同,反映了性状的多基因性质。这个实验项目允许学生对实验设计的细节做出决定,与他们的同伴合作,进行实验,并使用QTL分析的标准协议分析结果。随附的工作表和补充说明展示了数量性状的复杂结构,以及它们对参与分析的植物数量和实验设计细节的依赖。实验系列邀请学生讨论科学调查的本质。引用本文:Makarevitch I, Goering R. 2022。学习数量遗传学:植物冷胁迫反应的遗传控制研究。CourseSource。https://doi.org/10.24918/cs.2022.4编辑:Megan Barker, Simon Fraser University收稿日期:2/23/2021;接受:8/31/2021;版权所有:©2022 Makarevitch and Goering。这是一篇在知识共享署名-非商业-相同方式共享4.0国际许可协议下发布的开放获取文章,该协议允许在任何媒体上不受限制的非商业使用、分发和复制,前提是要注明原作者和来源。利益冲突和资金声明:作者没有与本研究相关的财务、个人或专业利益冲突。这项工作得到了NSF奖励(IOS 1444456)的支持。支持材料:支持文件玉米冷响应qtl -详细时间轴研究S2。玉米冷反应的qtl -学生讲义S3。玉米冷反应的qtl -工作表问题样答S4。玉米冷反应的qtl——带正确答案的多项选择评估测验S5。玉米冷反应的qtl——用于评价学生实验报告数据分析和解释能力的指标S6。玉米冷响应qtl的遗传结构研究S7。玉米冷反应的qtl——学生样本表型数据和S8。玉米冷反应的QTL -样本格式化数据文件准备与视觉评分数据进行QTL分析。*通讯地址:1536 Hewitt Ave, Saint Paul, MN 55104;imakarevitch01@hamline.edu CourseSource | www.coursesource.org 2022 |卷09 1课
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引用次数: 0
A Muscular Dystrophy Case Study Illustrating the Phenotypic Effects of Mutation 一个说明突变的表型效应的肌肉萎缩症病例研究
Pub Date : 2022-01-01 DOI: 10.24918/cs.2022.42
L. Hodkinson, Julia L. Gross, Leila E. Rieder
Mutations in genes can lead to a variety of phenotypes, including various human diseases. Students often understand that a particular mutation in a single gene causes a disease phenotype, but it is more challenging to illustrate complex genetic concepts such as that similar mutations in the same gene cause very different phenotypes or that mutations in different genes cause similar phenotypes. We originally designed this lesson to build off of the CourseSource lesson “A clicker-based case study that untangles student thinking about the processes in the central dogma,” but it can also stand alone. In our lesson, students read or listen to a real-life case study featuring a patient who doggedly pursues the underlying genetic cause of her own disease—muscular dystrophy—and stumbles upon a similar mutation in the same gene that gives an athlete the seemingly opposite phenotype: pronounced muscles. The lesson also leads the students to overlay their understanding of the central dogma and mutation on protein function and disease, compares muscular dystrophy to the disease progeria, and concludes with an ethical challenge. We tested the lesson as both an independent homework assignment, as well as a small group in-class worksheet and both formats were successful.
基因突变可导致多种表型,包括各种人类疾病。学生们通常理解单个基因的特定突变会导致疾病表型,但要阐明复杂的遗传概念则更具挑战性,例如同一基因的相似突变会导致非常不同的表型,或者不同基因的突变会导致相似的表型。我们最初设计这节课是为了建立在CourseSource课程“一个基于点击器的案例研究,解开学生对中心教条过程的思考”的基础上,但它也可以独立存在。在我们的课上,学生们阅读或听一个真实的案例研究,一个病人顽强地寻找她自己的疾病——肌肉萎缩症的潜在遗传原因,并偶然发现了同一个基因的类似突变,这给了一个运动员看似相反的表型:明显的肌肉。这节课还引导学生们覆盖他们对蛋白质功能和疾病的中心教条和突变的理解,将肌肉萎缩症与早衰症进行比较,并以道德挑战结束。我们将这节课作为独立的家庭作业进行测试,也将其作为小组课堂工作表进行测试,两种形式都很成功。
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引用次数: 0
Introducing Immunology Research Literature to Understand B-cell Receptor Gene Expression 引入免疫学研究文献了解b细胞受体基因表达
Pub Date : 2022-01-01 DOI: 10.24918/cs.2022.36
D. E. Morgan
Immunology is relevant to our everyday lives, driving a need for more engaging and inclusive undergraduate immunology education. One way to engage a diverse group of learners is by teaching them how to read and interpret the scientific literature. This introduction can be challenging for immunology research, which often includes jargon and significant background information. The lesson described here meets this challenge by first teaching students the basics of reading a journal article. Students then read a seminal research article in the field and discuss the data and conclusions via think-pair-share in the classroom. This lesson teaches students the overall structure of a journal article, how to read a journal article, and the ability to read and interpret a research article’s findings. Additionally, students learn specifically about the organization and expression of the genes encoding B-cell receptors.
免疫学与我们的日常生活息息相关,因此需要更有吸引力和包容性的本科免疫学教育。吸引不同群体的学习者的一种方法是教他们如何阅读和解释科学文献。这种介绍对免疫学研究具有挑战性,通常包括术语和重要的背景信息。这里所描述的课程通过首先教学生阅读期刊文章的基础知识来应对这一挑战。然后,学生们阅读一篇该领域的开创性研究文章,并在课堂上通过“思考-结对-分享”的方式讨论数据和结论。本课教授学生期刊文章的整体结构,如何阅读期刊文章,以及阅读和解释研究文章发现的能力。此外,学生还将学习编码b细胞受体的基因的组织和表达。
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引用次数: 0
Hands-On, Hands-Off: The Community College Genomics (ComGen) Course-Based Undergraduate Research Experience 实践,放手:社区大学基因组学(ComGen)基于课程的本科生研究经验
Pub Date : 2022-01-01 DOI: 10.24918/cs.2022.37
Gita Bangera, Kimberly Harrington, Irene Shaver
Science is a process of discovery where failure is inherent and iteration is necessary, yet instructors often teach the scientific process as if it is a controlled, highly supervised, confirmatory practice of following directions to get a known answer. We believe this mismatch occurs because instructors often struggle to feel comfortable in facilitating open-ended inquiry and giving students the trust and autonomy to experience an authentic scientific process. In this quarter-long lab curriculum, we bring the scientific process into the classroom in the form of an authentic course-based undergraduate research experience (CURE). We present a pedagogy, which is hands-on for students and hands-off for instructors, that incorporates and celebrates the learning that occurs from failing safely and often. The research project presented in this article is a genomics-based CURE where students sequence and analyze DNA genome segments. Throughout the lesson, we present core instructional structures and techniques that are transferable to any project and help scaffold and support the learning impact of the CURE. In the following curriculum, we outline this pedagogy, applied to a model CURE focused on sequencing a bacterium, and suggest ways that both the pedagogy and the core components of our CURE ( i.e., journal club, posters, lab notebook, and self-assessments) transfer to other courses, and other research projects.
科学是一个发现的过程,在这个过程中,失败是不可避免的,迭代是必要的,然而教师们经常把科学过程教授得好像是一种受控的、高度监督的、遵循指示得到已知答案的验证实践。我们认为,之所以会出现这种不匹配,是因为教师在促进开放式探究和给予学生信任和自主权以体验真正的科学过程时,往往难以感到舒适。在这个长达一个季度的实验课程中,我们将科学过程以真实的基于课程的本科生研究体验(CURE)的形式带入课堂。我们提出了一种教学方法,学生亲自动手,教师放手,它结合并庆祝从安全而经常的失败中获得的学习。在这篇文章中提出的研究项目是一个基于基因组学的CURE,学生测序和分析DNA基因组片段。在整个课程中,我们提出了可转移到任何项目的核心教学结构和技术,并帮助支撑和支持CURE的学习影响。在接下来的课程中,我们概述了这种教学法,并将其应用于一个专注于细菌测序的CURE模型,并提出了将教学法和CURE的核心组成部分(即期刊俱乐部、海报、实验笔记本和自我评估)转移到其他课程和其他研究项目的方法。
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引用次数: 1
Online Information Literacy: Applying the CRAAP Test to Vaccine (Mis)information 在线信息素养:应用CRAAP测试疫苗(Mis)信息
Pub Date : 2022-01-01 DOI: 10.24918/cs.2022.44
E. Holzhausen, Jhewelle Fitz-Henley, C. Theisen
Teaching scientific literacy skills can help combat the propagation of misinformation online. This lesson is intended to give students practice identifying reliable scientific information on the Internet, in the context of vaccine safety. It was designed for a first-year seminar taught fully through remote instruction but can be adapted for any in-person or blended course. It can also be easily modified to use for other biologically-relevant topics and is especially well suited for controversial topics. This lesson consists of three activities. First, students review an article about identifying reliable Internet resources and search online for vaccine safety information. Then, students meet in small groups to review and rank the resources that each of them found from most to least reliable, referencing the criteria laid out by the CRAAP test (Currency, Relevance, Accuracy, Authority, Purpose). After ranking each resource, students reflect on how their thinking about online resources has changed during the activity and how they will evaluate scientific information online in the future. Finally, students use the reliable resources that they and their classmates compiled during the activity as references to write about how the biology of vaccines relates to the five Core Concepts. Following this lesson, 100% of student groups were able to correctly identify at least one reliable and unreliable online resource and 95% of groups were able to articulate particular qualities of resources that helped them establish their reliability. Further, 100% of groups could articulate how their thinking had changed throughout this activity.
教授科学素养技能有助于打击网上错误信息的传播。本课旨在让学生练习在疫苗安全的背景下识别互联网上可靠的科学信息。它是为第一年的研讨会设计的,完全通过远程教学,但可以适应任何面对面或混合课程。它也可以很容易地修改,以用于其他生物学相关的主题,特别适合于有争议的话题。这节课包括三个活动。首先,学生们复习一篇关于确定可靠的互联网资源和在线搜索疫苗安全信息的文章。然后,学生们以小组为单位,参照CRAAP测试列出的标准(实用性、相关性、准确性、权威性、目的),从最可靠到最不可靠地对他们发现的资源进行审查和排名。在对每个资源进行排名后,学生们反思他们对在线资源的看法在活动中发生了什么变化,以及他们将如何在未来评估在线科学信息。最后,学生利用他们和同学在活动中收集的可靠资源作为参考,撰写疫苗生物学与五个核心概念的关系。在这节课之后,100%的学生小组能够正确识别至少一种可靠和不可靠的在线资源,95%的小组能够清晰地表达帮助他们建立可靠性的资源的特定品质。此外,100%的小组都能清楚地表达出他们的想法是如何在这个活动中发生变化的。
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引用次数: 0
Pick Your Poison: A Semester-Long Case Study for Undergraduate Toxicology 选择你的毒药:一个学期的本科生毒理学案例研究
Pub Date : 2022-01-01 DOI: 10.24918/cs.2022.46
J. Gray
The ability to collate information from diverse scientific resources and effectively employ scientific writing is an essential skill for scientists. This lesson describes a semester-long project entitled “Pick Your Poison,” which is designed for use in a one-semester Toxicology course. Students are each assigned to or choose their own individual toxicant as a case study from a pre-selected list of toxicants (poisons) that align with the theme of the course. As content is covered in the course, students complete ten scaffolded, low-stakes writing modules that are shared with groupmates of 4–5 students. Each module covers a major feature of the toxicant, such as chemical features, characteristics of absorption, distribution, metabolism, and elimination (ADME), and organ-specific toxicities. Students share their work with their group mates and the instructor, peer review one another’s work, and then edit their original post as appropriate to produce a concise, 3–4 paragraph product. At the end of the course, students compile their writing modules into an article in the format of the Encyclopedia of Toxicology. This project can be adapted to any toxicology course through alteration of the content and number of modules and/or the type of final deliverable. Several evidence-based and inclusive teaching practices are included, such as writing-to-learn, peer review, and low-stakes assessments.
从不同的科学资源中整理信息和有效地运用科学写作的能力是科学家的一项基本技能。本课描述了一个长达一个学期的项目,名为“选择你的毒药”,这是为一个学期的毒理学课程设计的。每个学生都被分配到或选择自己的个人毒物作为一个案例研究,从预先选择的毒物(毒药)列表,与课程的主题一致。由于课程内容涵盖,学生完成10个脚手架,低风险的写作模块,与4-5名学生的小组成员共享。每个模块涵盖了毒物的主要特征,如化学特征,吸收,分布,代谢和消除(ADME)的特征,以及器官特异性毒性。学生与他们的小组成员和老师分享他们的工作,同行评审彼此的工作,然后编辑他们的原始帖子,以产生一个简洁的,3-4段的产品。在课程结束时,学生将他们的写作模块以《毒理学百科全书》的格式汇编成一篇文章。这个项目可以通过改变内容和模块数量和/或最终交付的类型来适应任何毒理学课程。其中包括一些基于证据和包容性的教学实践,如写作学习、同行评议和低风险评估。
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引用次数: 0
Exploring Miracle Fruit: An Undergraduate Laboratory Exercise on Experimental Design 探索奇迹果实:一项本科生实验设计实验练习
Pub Date : 2021-10-20 DOI: 10.24918/cs.2021.29
Samantha J. Ganser, J. Hines, M. W. Butler
In recent years, undergraduate biology and biochemistry curricula have seen an increase in the use of course-based undergraduate research experiences (CUREs). CUREs maximize potential student gains when students take an active role in experimental design. Here we propose an activity that can either complement CUREs or function as a stand-alone activity that develops students’ abilities to design an experiment. While most active-learning interventions are designed for the purpose of teaching content, with experimental design skills as a secondary concern, this activity was created primarily to develop experimental design skills, while concurrently teaching important biochemistry concepts. The activity, designed to occur during a single three-hour lab meeting, allows students to experimentally explore the mechanisms of the taste-altering miraculin protein, found in the fruit of Richadella dulcifica, commonly known as miracle fruit. Students in an advanced biology class reported increased understanding of important experimental design concepts and increased knowledge of receptor binding and structural dynamism of proteins. Students also reported learning the importance of identifying nested variables that are difficult to tease apart, particularly when resources, time, or subjects are limited. While intended to develop experimental design skills in an upper-level undergraduate biology course, instructors can adapt the activity to suit biochemistry and introductory biology courses. Citation: Ganser SJ, Hines JK, Butler MW. 2021. Exploring Miracle Fruit: An Undergraduate Laboratory Exercise on Experimental Design. CourseSource. https://doi.org/10.24918/cs.2021.29 Editor: Neena Grover, Colorado College Received: 8/14/2020; Accepted: 4/12/2021; Published: 10/20/2021 Copyright: © 2021 Ganser, Hines, and Butler. This is an open-access article distributed under the terms of the Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License, which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original author and source are credited. Conflict of Interest and Funding Statement: None of the authors has a financial, personal, or professional conflict of interest related to this work. Supporting Materials: Supporting Files S1. Miracle Fruit Presentation Slides; S2. Miracle Fruit Probing Questions to Uncover Experimental Design Issues; S3. Miracle Fruit Exit Survey; S4. Miracle Fruit Pre-lab Questions; and S5. Miracle Fruit Laboratory Protocol. *Correspondence to: Mike Butler, Department of Biology, Lafayette College, 746 High Street, 326 RockwellEaston, PA, USA 18042; butlermw@lafayette.edu. CourseSource | www.coursesource.org 2021 | Volume 08 1 Lesson
近年来,本科生生物学和生物化学课程越来越多地使用基于课程的本科生研究经验(CURE)。当学生在实验设计中发挥积极作用时,CURE最大限度地提高了学生的潜在收益。在这里,我们提出了一项活动,既可以补充CURE,也可以作为一项独立的活动,培养学生设计实验的能力。虽然大多数积极的学习干预措施都是为了教学内容而设计的,实验设计技能是次要考虑因素,但这项活动主要是为了培养实验设计技能,同时教授重要的生物化学概念。这项活动设计在一次三小时的实验室会议上进行,让学生们能够通过实验探索改变味觉的奇迹蛋白的机制,奇迹蛋白存在于杜尔西菲卡(Richadella dulcificica)果实中,通常被称为奇迹果。生物学高级班的学生报告说,他们对重要的实验设计概念有了更多的理解,对受体结合和蛋白质结构动力学的了解也有所增加。学生们还报告了识别难以区分的嵌套变量的重要性,特别是在资源、时间或主题有限的情况下。虽然旨在在高水平的本科生生物学课程中培养实验设计技能,但导师可以调整活动以适应生物化学和生物学入门课程。引文:Ganser SJ,Hines JK,Butler MW。2021。探索奇迹果实:实验设计的本科生实验练习。CourseSource。https://doi.org/10.24918/cs.2021.29编辑:Neena Grover,科罗拉多学院收到时间:2020年8月14日;接受日期:2021年4月12日;发布时间:2021年10月20日版权所有:©2021 Ganser、Hines和Butler。这是一篇开放获取的文章,根据知识共享署名非商业性ShareAlike 4.0国际许可证的条款分发,该许可证允许在任何媒体上进行不受限制的非商业性使用、分发和复制,前提是原始作者和来源可信。利益冲突和资金声明:没有一位作者与本作品存在财务、个人或职业利益冲突。支持材料:支持文件S1。奇迹水果演示幻灯片;S2.《奇迹果实探究问题》,揭示实验设计问题;S3.奇迹果出口调查;S4.奇迹果实验室前问题;和S5。奇迹水果实验室协议*致:Mike Butler,拉斐特学院生物系,746 High Street,326 RockwellEaston,PA,USA 18042;butlermw@lafayette.edu.课程资源|www.CourseSource.org 2021 |第08卷第1课
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引用次数: 0
Single Cell Insights Into Cancer Transcriptomes: A Five-Part Single-Cell RNAseq Case Study Lesson 单细胞洞察癌症转录组:一个由五部分组成的单细胞RNAseq案例研究课程
Pub Date : 2021-09-24 DOI: 10.24918/cs.2021.26
L. Samsa, M. Eslinger, Adam J. Kleinschmit, Amanda C Solem, Carlos C. Goller
There is a growing need for integration of “Big Data” into undergraduate biology curricula. Transcriptomics is one venue to examine biology from an informatics perspective. RNA sequencing has largely replaced the use of microarrays for whole genome gene expression studies. Recently, single cell RNA sequencing (scRNAseq) has unmasked population heterogeneity, offering unprecedented views into the inner workings of individual cells. scRNAseq is transforming our understanding of development, cellular identity, cell function, and disease. As a ‘Big Data,’ scRNAseq can be intimidating for students to conceptualize and analyze, yet it plays an increasingly important role in modern biology. To address these challenges, we created an engaging case study that guides students through an exploration of scRNAseq technologies. Students work in groups to explore external resources, manipulate authentic data and experience how single cell RNA transcriptomics can be used for personalized cancer treatment. This five-part case study is intended for upper-level life science majors and graduate students in genetics, bioinformatics, molecular biology, cell biology, biochemistry, biology, and medical genomics courses. The case modules can be completed sequentially, or individual parts can be separately adapted. The first module can also be used as a stand-alone exercise in an introductory biology course. Students need an intermediate mastery of Microsoft Excel but do not need programming skills. Assessment includes both students’ self-assessment of their learning as answers to previous questions are used to progress through the case study and instructor assessment of final answers. This case provides a practical exercise in the use of high-throughput data analysis to explore the molecular basis of cancer at the level of single cells. Citation: Samsa LA, Eslinger M, Kleinschmit A, Solem A, Goller CC. 2021. Single cell insights into cancer transcriptomes: A five-part single-cell RNAseq case study lesson. CourseSource. https:// doi.org/10.24918/cs.2021.26 Editor: William Morgan, College of Wooster Received: 10/6/2020; Accepted: 3/25/2021; Published: 9/24/2021 Copyright: © 2021 Samsa, Eslinger, Kleinschmit, Solem, and Goller. This is an open-access article distributed under the terms of the Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License, which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original author and source are credited. Conflict of Interest and Funding Statement: This case study is part of other cases created as part of the NSF HITS RCN network (NSF award: 1730317). Our goal is to raise awareness of the use of high-throughput approaches and datasets using case study pedagogies. Carlos C. Goller is also supported by an NIH Innovative Program to Enhance Research Training (IPERT) grant “Molecular Biotechnology Laboratory Education Modules (MBLEMs)” 1R25GM130528-01A1. None of the a
越来越需要将“大数据”整合到本科生物学课程中。转录组学是从信息学的角度来研究生物学的一个场所。RNA测序在很大程度上取代了微阵列在全基因组基因表达研究中的应用。最近,单细胞RNA测序(scRNAseq)揭示了群体异质性,为单个细胞的内部工作提供了前所未有的视角。scRNAseq正在改变我们对发育、细胞身份、细胞功能和疾病的理解。作为一个“大数据”,scRNAseq可能会让学生望而生畏,难以概念化和分析,但它在现代生物学中扮演着越来越重要的角色。为了应对这些挑战,我们创建了一个引人入胜的案例研究,指导学生探索scRNAseq技术。学生以小组为单位探索外部资源,操作真实数据,并体验如何将单细胞RNA转录组学用于个性化癌症治疗。本案例研究由五部分组成,适用于遗传学、生物信息学、分子生物学、细胞生物学、生物化学、生物学和医学基因组学课程的高年级生命科学专业学生和研究生。机箱模块可以按顺序完成,也可以单独适配各个部件。第一个模块也可以作为生物学入门课程的独立练习。学生需要掌握Microsoft Excel的中级水平,但不需要编程技能。评估包括学生对自己学习的自我评估,因为之前的问题的答案被用来通过案例研究和教师对最终答案的评估。这个案例提供了一个使用高通量数据分析在单细胞水平上探索癌症分子基础的实践练习。引用本文:Samsa LA, Eslinger M, Kleinschmit A, Solem A, Goller CC. 2021。单细胞洞察癌症转录组:由五部分组成的单细胞RNAseq案例研究课程。CourseSource。https://doi.org/10.24918/cs.2021.26编辑:William Morgan, College of Wooster收稿日期:10/6/2020;接受:3/25/2021;发布日期:2021年9月24日版权:©2021 Samsa, Eslinger, Kleinschmit, Solem和Goller。这是一篇在知识共享署名-非商业-相同方式共享4.0国际许可协议下发布的开放获取文章,该协议允许在任何媒体上不受限制的非商业使用、分发和复制,前提是要注明原作者和来源。利益冲突和资助声明:本案例研究是作为NSF HITS RCN网络(NSF奖励:1730317)的一部分创建的其他案例的一部分。我们的目标是通过案例研究教学法提高对高通量方法和数据集使用的认识。Carlos C. Goller还获得了美国国立卫生研究院加强研究培训创新计划(IPERT)资助的“分子生物技术实验室教育模块(MBLEMs)”1R25GM130528-01A1。所有作者都没有与这项工作相关的财务、个人或专业利益冲突。支持材料:支持文件scRNAseq - scRNAseq案例研究部分1-5学生版本;S2。scRNAseq - scRNAseq案例分析1-5部分答案关键;S3。scRNAseq - Part 1患者和诊断S4。scRNAseq -第2部分技术人员和样本学生版本;S5。scRNAseq -第3部分数据处理S6。scRNAseq - Part 4数据可视化学生版;S7。scRNAseq - Part 5治疗学生版;S8。scRNAseq - Part 1患者与诊断答案关键;S9。scnaseq -第2部分技术人员和样品回答关键;S10。scnaseq -第3部分数据处理答案键;S11系列。scnaseq - Part 4数据可视化S12。scnaseq - Part 5治疗答案关键;向。scRNAseq - File for Part 2 Sequencing Metadata Student版本;S14系列。scRNAseq -文件的第2部分测序元数据指导版本;S15。scRNAseq - File for Part 2 Processing Datasheet学生版;S16。scRNAseq -文件的第2部分处理数据手册的指导版本;肌力。scRNAseq - File for Part 3 Expression Student version;S18。scRNAseq - File for Part 3 Expression Instructor version;S19。scRNAseq - File for Part 3 Metadata Student版本;S20。scRNAseq -文件第3部分元数据指导版本;S21。scRNAseq - File for Part 3 Processing Notes学生版;S22。scRNAseq -文件的第3部分处理笔记指导版本;S23。scRNAseq -文件从第4部分规范化表达式指导版本;S24。scRNAseq -文件从第4部分元数据与集群讲师版本;S25。scRNAseq - File from Part 4 DE PDX meta vs PDX primaryInstructor Version和S26。scnaseq -第5部分文件规范化表达式为讲师注释。*与共同通讯作者的通信:Leigh Ann Samsa: 123 W。富兰克林街,600街B,教堂山,北卡罗莱纳州27516。 卡洛斯·高勒:校园信箱7512,6104乔丹大厅,2800水龙头驱动器罗利,北卡罗来纳州27695-7512。ccgoller@ncsu.edu CourseSource | www.coursesource.org 2021 |卷08 1课
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