课程信息
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中级

None required but you should be familiar with basic aspects of plant and molecular biology. Bioinformatic Methods I and II would be good preparation

完成时间大约为11 小时

建议:6 weeks of hands-on study, plus 2 evaluation weeks. The hands-on modules will take 2-4 hours of time...

英语(English)

字幕:英语(English)

100% 在线

立即开始,按照自己的计划学习。

可灵活调整截止日期

根据您的日程表重置截止日期。

中级

None required but you should be familiar with basic aspects of plant and molecular biology. Bioinformatic Methods I and II would be good preparation

完成时间大约为11 小时

建议:6 weeks of hands-on study, plus 2 evaluation weeks. The hands-on modules will take 2-4 hours of time...

英语(English)

字幕:英语(English)

教学大纲 - 您将从这门课程中学到什么

1
完成时间为 3 小时

Plant Genomic Databases, and useful sites for info about proteins

In this module we'll be exploring several plant databases including Ensembl Plants, Gramene, PLAZA, SUBA, TAIR and Araport. The information in these databases allows us to easily identify functional regions within gene products, view subcellular localization, find homologs in other species, and even explore pre-computed gene trees to see if our gene of interest has undergone a gene duplication event in another species, all at the click of a mouse!

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4 个视频 (总计 44 分钟), 4 个阅读材料, 1 个测验
4 个视频
Mini-lecture17分钟
Summary1分钟
4 个阅读材料
Acknowledgements10分钟
Course Logistics10分钟
Mini-lecture Notes10分钟
Lab 1 -- Plant Genomic Databases and Tools for Exploring Protein Information1 小时 30 分
1 个练习
Lab Quiz 1
2
完成时间为 2 小时

Expression Analysis

Vast databases of gene expression and nifty visualization tools allow us to explore where and when a gene is expressed. Often this information can be used to help guide a search for a phenotype if we don't see a phenotype in a gene mutant under "normal" growth conditions. We explore several tools for Arabidopsis data (eFP Browser, Genevestigator, TraVA DB, Araport) along with NCBI's Genome Data Viewer for RNA-seq data for other plant species. We also examine the MPSS database of small RNAs and degradation products to see if our example gene has any potential microRNA targets.

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4 个视频 (总计 38 分钟), 2 个阅读材料, 1 个测验
4 个视频
Mini-lecture17分钟
Summary50
2 个阅读材料
Mini-lecture Notes10分钟
Lab 2 -- Expression Analysis1 小时 30 分
1 个练习
Lab Quiz 2
3
完成时间为 2 小时

Coexpression Tools

Being able to group genes by similar patterns of expression across expression data sets using algorithms like WGCNA is a very useful way of organizing the data. Clusters of genes with similar patterns of expression can then be subject to Gene Ontology term enrichment analysis (see Module 5) or examined to see if they are part of the same pathway. What's even more powerful is being able to identify genes with similar patterns of expression without doing a single expression profiling experiment, by mining gene expression databases! There are several tools that allow you to do this in many plant species simply by entering a query gene identifier. The genes that are returned are often in the same biological process as the query gene, and thus this "guilt-by-association" paradigm is a excellent tool for hypothesis generation.

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4 个视频 (总计 29 分钟), 2 个阅读材料, 1 个测验
4 个视频
Summary49
2 个阅读材料
Mini-lecture Notes10分钟
Lab 3 -- Coexpression Tools1 小时 30 分
1 个练习
Lab Quiz 3
4

Sectional Quiz 1

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1 个测验
1 个练习
Sectional Quiz 1
4.8
8 个审阅Chevron Right

来自Plant Bioinformatics的热门评论

创建者 QRMar 10th 2019

Very good course for mastering bioinformatics skills. Genetics and molecular biology students/professionals should take this course to augment their research skills.

创建者 WHFeb 12th 2019

Great overview of the different tools available for plant bio

讲师

Avatar

Nicholas James Provart

Professor
Cell & Systems Biology

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