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所在平台: Udemy |
课程主页: https://www.udemy.com/course/chipseq-course/
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课程名称：ChIP下一代测序分析：从A到Z的完整指南 课程概述：你知道染色质免疫沉淀(ChIP)是评估表观遗传修饰对基因表达及细胞身份影响的最常用技术之一吗？传统上，ChIP与聚合酶链反应(PCR)相结合，但随着下一代测序(NGS)的出现，通过ChIP后随之进行的测序(ChIPseq)成为了一种更强大的全基因组水平研究表观遗传修饰的方法。本课程由生物信息学博士Alexander Abdulkader Kheirallah教授授课，教授有丰富的ChIPseq数据分析经验，并在同行评审的期刊上发表过相关研究。 课程的独特之处在于，将深入的表观遗传学理论与实用的分析能力相结合。学员不仅将获得表观遗传学的知识以帮助进行ChIPseq分析，还能有效管理项目、评估质量并进行数据分析。课程中将提供NGS ChIPseq数据，教授将带领学员逐步完成ChIPseq分析。 课程分为11个部分，最后有一个顶点项目可以添加到个人作品集中。具体内容包括： 1. 课程介绍 2. 基因表达的表观遗传学：生物学的深入视角 - 第1部分 3. 基因表达的表观遗传学：生物学的深入视角 - 第2部分 4. 表观遗传学与环境 5. 表观遗传学的实验技术与功能研究简介 6. ChIPseq分析的标准工作流程 7. 环境设置与ChIPseq项目管理 8. 利用FastQC评估质量 9. 读段比对 10. 过滤 11. 峰值调用 12. 顶点项目 通过本课程，学员将能够： - 管理ChIPseq项目的工作环境 - 免费获取ChIPseq分析准备好的Docker容器 - 免费获取一章价值31.50美元的综述论文 - 使用FastQC评估ChIPseq测序数据质量 - 使用Bowtie2进行基因组上的读段比对 - 根据自定标准过滤对齐的读段 - 运行MACS3峰值调用算法 - 理解完整的ChIPseq分析工作流程 - 利用表观遗传知识辅助ChIP数据解读 - 应用功能研究原则及表观遗传实验技术 - 解释表观遗传学与环境之间的关系 本课程将为学员提供分析大规模基因组数据的能力，开辟生物学、医学与计算机科学交叉领域的众多机会。
Did you know that chromatin immunoprecipitation (ChIP) is one of the most commonly used techniques when assessing the effect of epigenetic modifications on gene expression and hence cell identity? Traditionally ChIP was combined with polymerase chain reaction (PCR), but with the advent of next-generation sequencing (NGS), a far more powerful way to study epigenetic modifications on a genome-wide level is through ChIP followed by sequencing (ChIPseq) which this course is about.I'm Alexander Abdulkader Kheirallah, PhD and I'll be your instructor in this course. I have a doctorate in bioinformatics and my project involved analysis of many ChIPseq datasets. My bioinformatic work has been published in peer-reviewed journals. I have worked as a bioinformatician at University of Cambridge and I am also a data scientist. After the success of my first course on RNAseq differential gene expression analysis, I've decided to take it further by condensing years of my experience in the form of a concise and practical course about epigenomics and ChIPseq data analysis. The ability to analyse big genomic data gives you a lot of opportunities at the intersection of biology, medicine and computer science.What makes this course unique is that it combines thorough study of epigenetic biology with deep and practical analytical capabilities. Not only you'll gain epigenetic knowledge to aid your ChIPseq analysis endeavors but also you'll be able to effectively manage your projects, assess their quality, and analyse. You'll be provided with NGS ChIPseq data and I'll walk you through the ChIPseq analysis step-by-step.-- -- -- -- -- -- -- -- --The course is split into 11 sections culminating with a capstone project that you can add to your portfolio:Introduction to the courseEpigenetics of gene expression: a thorough view of biology - Part 1Epigenetics of gene expression: a thorough view of biology - Part 2Epigenetics and environmentLaboratory techniques of epigenetics and introduction to functional studiesCanonical ChIPseq analysis workflowEnvironment setup and ChIPseq project managementQuality assessment with FastQCAlignmentFilteringPeak callingYour capstone projectBy the end of this course you will:Be able to manage the working environment of your ChIPseq projectsYou'll be given a FREE access to ChIPseq-analysis-ready Docker containersYou'll be given a FREE access to a whole chapter from a review paper worth $31.50Be able to evaluate the quality of ChIPseq sequencing data using FastQCBe able to perform alignment of reads to the genome using Bowtie2Be able to filter aligned reads based on criteria of your own choosingBe able to run MACS3 peak calling algorithmUnderstand the full ChIPseq analysis workflowBe able to use your epigenetic knowledge in order to aid interpretation of ChIP dataBe able to use the principles of functional studies and epigenetic lab techniquesBe able to explain the relationship between epigenetics and environment
