Bioinformatics for Beginners (B4B): Introduction to RNA Sequencing
When: February 18, 2025 - March 18, 2025Share
About this Course
This module is the second part of a larger course, Bioinformatics for Beginners, which was designed to teach the basic skills needed for bioinformatics in the context of next generation sequencing experiments.
Here, participants will be guided through hands-on bulk RNA sequencing analysis exercises using student accounts furnished by Biowulf, the NIH Unix-based high performance computing system, which has approximately 1,000 scientific softwares installed including those for RNA sequencing analysis. At the end of the series, participants will have a foundational understanding of bulk RNA sequencing analysis including QC, data cleanup, alignment, gene expression estimation, finding differentially expressed genes between conditions, and extraction of biological insight. Experience with bioinformatics or RNA sequencing analysis is not needed to attend. Participants do not need personal Biowulf accounts.
Description
This class will introduce basic experimental and analytical considerations for bulk RNA sequencing, a technique that is used to profile gene expression at the tissue level. Information taught serves as the foundation for participants to incorporate RNA sequencing into research. This session is lecture only and not hands-on. Experience with bioinformatics or RNA sequencing is not needed to participate.
Meeting link:
https://cbiit.webex.com/cbiit/j.php?MTID=mf4e6636904Read More
This class will introduce basic experimental and analytical considerations for bulk RNA sequencing, a technique that is used to profile gene expression at the tissue level. Information taught serves as the foundation for participants to incorporate RNA sequencing into research. This session is lecture only and not hands-on. Experience with bioinformatics or RNA sequencing is not needed to participate.
Meeting link:
https://cbiit.webex.com/cbiit/j.php?MTID=mf4e6636904a6cdeff6d57e6f097b3a55
Meeting number:
2317 484 5724
Password:
pnD34CGu2F*
Join by video system
Dial 23174845724@cbiit.webex.com
You can also dial 173.243.2.68 and enter your meeting number.
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1-650-479-3207 Call-in number (US/Canada)
Access code: 2317 484 5724
Host PIN: 2784
Details
Where
OnlineDescription
This class will introduce the first step in analyzing NGS data using bulk RNA sequencing as an example. After attending, participants will be able to describe the file format in which NGS data is stored and how to assess its quality. This class is hands-on, and attendees will be assigned Biowulf student accounts to follow along with the exercises. Experience with bioinformatics or NGS analysis is not required to participate.
Meeting link:<Read More
This class will introduce the first step in analyzing NGS data using bulk RNA sequencing as an example. After attending, participants will be able to describe the file format in which NGS data is stored and how to assess its quality. This class is hands-on, and attendees will be assigned Biowulf student accounts to follow along with the exercises. Experience with bioinformatics or NGS analysis is not required to participate.
Meeting link:
https://cbiit.webex.com/cbiit/j.php?MTID=mf4e6636904a6cdeff6d57e6f097b3a55
Meeting number:
2317 484 5724
Password:
pnD34CGu2F*
Join by video system
Dial 23174845724@cbiit.webex.com
You can also dial 173.243.2.68 and enter your meeting number.
Join by phone
1-650-479-3207 Call-in number (US/Canada)
Access code: 2317 484 5724
Host PIN: 2784
Details
Where
Online WebinarDescription
Quality assessment may reveal low quality sequences and/or contaminations such as adapters in NGS data. Therefore, it is important to perform cleanup to ensure that the input for downstream analyses tools is of high quality and free of contamination. This class will use bulk RNA sequencing as an example and afterwards, participants will be able to describe the tools for as well as perform NGS data cleanup. This class is hands-on, and attendees Read More
Quality assessment may reveal low quality sequences and/or contaminations such as adapters in NGS data. Therefore, it is important to perform cleanup to ensure that the input for downstream analyses tools is of high quality and free of contamination. This class will use bulk RNA sequencing as an example and afterwards, participants will be able to describe the tools for as well as perform NGS data cleanup. This class is hands-on, and attendees will be assigned Biowulf student accounts to follow along with the exercises. Experience with bioinformatics or NGS analysis is not required to participate.
Meeting link:
https://cbiit.webex.com/cbiit/j.php?MTID=mf4e6636904a6cdeff6d57e6f097b3a55
Meeting number:
2317 484 5724
Password:
pnD34CGu2F*
Join by video system
Dial 23174845724@cbiit.webex.com
You can also dial 173.243.2.68 and enter your meeting number.
Join by phone
1-650-479-3207 Call-in number (US/Canada)
Access code: 2317 484 5724
Host PIN: 2784
Details
Where
Online WebinarDescription
NGS produces millions of sequences per sample and the challenge is to identify where in the genome each sequence came from. Fortunately, there are aligners that help scientists with this task. After this class, participants will be able to describe the software that can be used for RNA sequencing data alignment, differentiate between splice and non-splice aware aligners, and align an example dataset. This class is hands-on, and attendees will be assigned Biowulf student Read More
NGS produces millions of sequences per sample and the challenge is to identify where in the genome each sequence came from. Fortunately, there are aligners that help scientists with this task. After this class, participants will be able to describe the software that can be used for RNA sequencing data alignment, differentiate between splice and non-splice aware aligners, and align an example dataset. This class is hands-on, and attendees will be assigned Biowulf student accounts to follow along with the exercises. Experience with bioinformatics or NGS analysis is not required to participate.
Meeting link:
https://cbiit.webex.com/cbiit/j.php?MTID=mf4e6636904a6cdeff6d57e6f097b3a55
Meeting number:
2317 484 5724
Password:
pnD34CGu2F*
Join by video system
Dial 23174845724@cbiit.webex.com
You can also dial 173.243.2.68 and enter your meeting number.
Join by phone
1-650-479-3207 Call-in number (US/Canada)
Access code: 2317 484 5724
Host PIN: 2784
Details
Where
Online WebinarDescription
Alignment of RNA sequencing data enables researchers to identify where in the genome each sequence came from. However, it does not inform of how many sequences aligned to each genomic feature such as a gene. After this class, attendees will be able to describe and used tools for estimating gene expression from RNA sequencing data. This class is hands-on, and attendees will be assigned Biowulf student accounts to follow along with the exercises. Experience Read More
Alignment of RNA sequencing data enables researchers to identify where in the genome each sequence came from. However, it does not inform of how many sequences aligned to each genomic feature such as a gene. After this class, attendees will be able to describe and used tools for estimating gene expression from RNA sequencing data. This class is hands-on, and attendees will be assigned Biowulf student accounts to follow along with the exercises. Experience with bioinformatics or NGS analysis is not required to participate.
Register at https://forms.office.com/g/0LfheEw1we
Meeting link:
https://cbiit.webex.com/cbiit/j.php?MTID=mf4e6636904a6cdeff6d57e6f097b3a55
Meeting number:
2317 484 5724
Password:
pnD34CGu2F*
Join by video system
Dial 23174845724@cbiit.webex.com
You can also dial 173.243.2.68 and enter your meeting number.
Join by phone
1-650-479-3207 Call-in number (US/Canada)
Access code: 2317 484 5724
Host PIN: 2784
Details
Where
Online WebinarDescription
This class introduces participants to the first steps to differential expression analysis in bulk RNA sequencing which involves filtering out noise from (ie. genes without expression across samples) and performing QC on the gene expression estimates. QC steps help scientists determine whether there are technical errors and outliers in the data. This class is hands-on, and attendees will be assigned Biowulf student accounts to follow along with the exercises. Experience with bioinformatics or NGS Read More
This class introduces participants to the first steps to differential expression analysis in bulk RNA sequencing which involves filtering out noise from (ie. genes without expression across samples) and performing QC on the gene expression estimates. QC steps help scientists determine whether there are technical errors and outliers in the data. This class is hands-on, and attendees will be assigned Biowulf student accounts to follow along with the exercises. Experience with bioinformatics or NGS analysis is not required to participate.
Register at https://forms.office.com/g/0LfheEw1we
Meeting link:
https://cbiit.webex.com/cbiit/j.php?MTID=mf4e6636904a6cdeff6d57e6f097b3a55
Meeting number:
2317 484 5724
Password:
pnD34CGu2F*
Join by video system
Dial 23174845724@cbiit.webex.com
You can also dial 173.243.2.68 and enter your meeting number.
Join by phone
1-650-479-3207 Call-in number (US/Canada)
Access code: 2317 484 5724
Details
Where
Online WebinarDescription
In this class, participants will get hands-on experience with generating and interpreting differential gene expression analysis results from bulk RNA sequencing. In addition, participants will learn to generate common plots used to visualize bulk RNA sequencing data such as volcano plot. Attendees will be assigned Biowulf student accounts to follow along with the exercises. Experience with bioinformatics or NGS analysis is not required to participate.
Register at https://forms.office.com/g/0Read More
In this class, participants will get hands-on experience with generating and interpreting differential gene expression analysis results from bulk RNA sequencing. In addition, participants will learn to generate common plots used to visualize bulk RNA sequencing data such as volcano plot. Attendees will be assigned Biowulf student accounts to follow along with the exercises. Experience with bioinformatics or NGS analysis is not required to participate.
Register at https://forms.office.com/g/0LfheEw1we
Meeting link:
https://cbiit.webex.com/cbiit/j.php?MTID=mf4e6636904a6cdeff6d57e6f097b3a55
Meeting number:
2317 484 5724
Password:
pnD34CGu2F*
Join by video system
Dial 23174845724@cbiit.webex.com
You can also dial 173.243.2.68 and enter your meeting number.
Join by phone
1-650-479-3207 Call-in number (US/Canada)
Access code: 2317 484 5724
Details
Where
Online WebinarDescription
This session will introduce participants to visualizing alignment results from Next Generation Sequences using the Integrative Genomics Viewer (IGV). This step is important as scientists may want to highlight results from certain genomic locations in a publication. After this class, participants will be able to prepare files needed to visualize genomic data using IGV. This class is hands-on, and attendees will be assigned Biowulf student accounts to follow along with the exercises. Experience with Read More
This session will introduce participants to visualizing alignment results from Next Generation Sequences using the Integrative Genomics Viewer (IGV). This step is important as scientists may want to highlight results from certain genomic locations in a publication. After this class, participants will be able to prepare files needed to visualize genomic data using IGV. This class is hands-on, and attendees will be assigned Biowulf student accounts to follow along with the exercises. Experience with bioinformatics or NGS analysis is not required to participate.
Register at https://forms.office.com/g/0LfheEw1we
Meeting link:
https://cbiit.webex.com/cbiit/j.php?MTID=mf4e6636904a6cdeff6d57e6f097b3a55
Meeting number:
2317 484 5724
Password:
pnD34CGu2F*
Join by video system
Dial 23174845724@cbiit.webex.com
You can also dial 173.243.2.68 and enter your meeting number.
Join by phone
1-650-479-3207 Call-in number (US/Canada)
Access code: 2317 484 5724
Host PIN: 2784
Details
When
Thu, Mar 13, 2025 - 2:00 pm - 3:00 pmWhere
Online WebinarDescription
This class is not hands-on and will demonstrate to participants the use of IGV for visualizing alignment results from Next Generation Sequencing using RNA as an example. After this class, participants will be able to describe the differences in alignment results generated from splice versus non-splice aware aligners as well as know how to identify RNA splice junctions, potential genomic variants, gauge gene expression differences between samples, and generate visual snapshot for a genomic Read More
This class is not hands-on and will demonstrate to participants the use of IGV for visualizing alignment results from Next Generation Sequencing using RNA as an example. After this class, participants will be able to describe the differences in alignment results generated from splice versus non-splice aware aligners as well as know how to identify RNA splice junctions, potential genomic variants, gauge gene expression differences between samples, and generate visual snapshot for a genomic locus of interest.
Register at https://forms.office.com/g/0LfheEw1we
Meeting link:
https://cbiit.webex.com/cbiit/j.php?MTID=mf4e6636904a6cdeff6d57e6f097b3a55
Meeting number:
2317 484 5724
Password:
pnD34CGu2F*
Join by video system
Dial 23174845724@cbiit.webex.com
You can also dial 173.243.2.68 and enter your meeting number.
Join by phone
1-650-479-3207 Call-in number (US/Canada)
Access code: 2317 484 5724
Host PIN: 2784