Name: RNA-Seq Applications for SARS-CoV-2 Research
Start: 2022-01-04T04:30:00Z
End: 2022-01-04T04:30:30.000Z
Location: BrightTALK

Next-generation sequencing (NGS) is driving advances in translational and clinical research. From expanding our understanding of cancer, reproductive and developmental biology to unravelling complex microbial populations, NGS is touching all facets of human disease and well­being.

Sample prep for NGS holds the key to unlocking the potential of every sample. Explore our integrated Roche Sample Preparation Solutions, encompassing all the steps required to convert a sample to a sequencing-ready library. From sample collection to library quantification, we offer sample prep solutions for different sample types and sequencing applications that are proven, simple, and complete.

Introducing... 
KAPA EvoPlus Kits: The convenience of enzymatic library prep—without the shortfalls

KAPA EvoPlus is a novel library prep technology that delivers the greater convenience of enzymatic fragmentation—without the performance-related shortcomings traditionally encountered with enzymatic fragmentation.  Compatible with a wide range of sample buffers, KAPA EvoPlus delivers new levels of robustness for whole genome, whole exome, and targeted sequencing from a variety of DNA inputs, including low-quality DNA from FFPE tissue.  
 
Learn more about how EvoPlus can increase the convenience of DNA library prep in our Aug 2nd webinar covering: 

- The time-saving and automation advantages of a ReadyMix library preparation workflow
- Performance metrics for KAPA EvoPlus across a range of sample inputs and buffer types
- How KAPA EvoPlus reduces sequencing artifacts versus older enzymatic solutions, increasing the accuracy of sequencing data

The convenience of enzymatic library prep—without the shortfalls

Automated solutions for NGS library prep are powerful alternatives to lengthy, labor-intensive sample preparation workflows—but the path to adopting and managing these systems can be long, complex, and expensive. In addition, the management and operation of these systems typically present several unique challenges, including the need for lab operators with extensive automation expertise. Roche’s new AVENIO Edge System is a powerful, easy-to-use automation solution that includes input QC, library prep and target enrichment, and library quant and pooling–getting you from input samples to sequencing-ready libraries with ease.

Join us for this webinar, and learn how how the features and capabilities of the AVENIO Edge System are designed to:

- provide a true walk-away automated solution for library preparation, with no requirement for previous automation experience 

- Lower barriers to automation adoption with simple, fast installation and protocol setup

- Save hours of hands-on time while reducing human-introduced errors

AVENIO Edge System is a Class 1 IVD instrument and is intended for downstream diagnostic applications. AVENIO Edge reagents and workflows are for Research Use Only. They are not intended for diagnostic applications. AVENIO is a trademark of Roche.

A new walk-away solution for NGS sample prep: Introducing the AVENIO Edge System

New SARS-CoV-2 strains are continuing to emerge, potentially impacting the effectiveness of existing vaccines. Thus, the ability to determine the genomic sequences in samples is critical for effective surveillance and tracking of the virus. Because viral RNA represents only a small fraction of the nucleic acids in a given sample, the development of robust, sensitive sequencing methods is essential.
We have developed a method for target-enriched RNA-seq with hybridization-based target enrichment (TE) of the SARS-CoV-2 genome, enabling high-throughput analysis to discover new viral mutations and track strain transmission. The workflow utilizes the KAPA SARS-CoV-2 TE panel and the HyperCap v3 workflow.

In this webinar, we:
- Review the HyperCap v3 workflow using the KAPA SARS-CoV-2 TE panel
- Describe an accelerated workflow with a shortened 1 hour hybridization
- Discuss optional workflow modifications to increase SARS-CoV-2 reads
- Present performance data for samples containing varying amounts of SARS-CoV-2 RNA in a background of human RNA
- Show that the KAPA SARS-CoV-2 TE panel can detect mutations from multiple strains within a single reaction
MC-US-09109

Target Enriched RNA-seq for SARS-CoV-2 Surveillance and Genome Analysis

Maximize Value with KAPA Target Enrichment
The right set of NGS tools can save your business— or your lab— valuable sequencing resources. To maximize efficiency and effectiveness, ask yourself: (1) Which approach is best for answering specific experimental questions? (2) Is this the most cost-effective method to get the job done?

This webinar will address:
 - The economics of sequencing; Where are your resources going?
 - GC bias; How does GC bias impact the value?
 - Analysis of dropouts (zero coverage) and low-coverage genes; How do these impact value?
 - A customizable metric for analyzing value, enabling you to gain insights to improve efficiency
MC-US-08076

Investing in the right Sample Prep Solutions to Maximize Sequencing Resources

In the age of precision medicine, molecular testing by next-generation sequencing and PCR are transforming oncology decision making. The clinical value of that molecular testing is significantly enhanced by precise dissection of formalin-fixed paraffin-embedded tissue samples.

The AVENIO Millisect System is an automated, high-performance FFPE tissue-dissection system that enables the precise and consistent recovery of tissue areas of interest for molecular pathology. Easily integrated into a variety of clinical workflow configurations, the AVENIO Millisect System can help labs efficiently extract more clinically relevant information from every sample. Accurate dissection improves the results of diagnostic testing by reducing false negatives and allowing identification of additional potential therapeutic targets.

In this webinar, we:
- Introduced the AVENIO Millisect System
- Provided a demonstration of the tissue dissection process in action
MC-US-07731

AVENIO Millisect System Webinar

RNA-sequencing (RNA-seq) and the study of transcriptomes have become essential in both molecular and clinical research. Many researchers and sequencing service providers have found RNA-seq difficult to adopt due to various challenges. 

In this webinar, we discuss:
- What RNA-seq is and why it is crucial in research
- Unique RNA-seq challenges in sample handling, library preparation, and data analysis
- KAPA RNA HyperPrep workflows and how they can help overcome these challenges
- Q&A with an experienced Roche field application specialist

Presented by Drew Cheney, Field Applications Scientist, Roche Sequencing and Life Science

MC-US-08157

RNA Seq - Addressing the challenges with KAPA RNA HyperPrep

In this webinar, we highlight 3 of these tools:

- KAPA HyperPETE, a novel NGS target enrichment technology that combines the performance of hybrid-capture target enrichment with the speed and simplicity of amplicon workflows. KAPA HyperPETE is optimized to detect all major somatic variants—including SNVs, short indels, CNVs, MSI status, and known and novel fusion transcripts—in cfDNA, FFPET, and RNA samples.
- NAVIFY Mutation Caller*, a cloud-based standalone secondary analysis software for NGS that analyzes raw sequencing data from KAPA HyperPETE to identify variants
- NAVIFY Mutation Profiler, a tertiary analysis and reporting solution for NGS that works in conjunction with NAVIFY Mutation Caller to help labs accurately and efficiently interpret the biological significance of mutations

Research Use Only. Not for use in diagnostics procedures.
*Product in development. Not for sale in the United States.
In the US, NAVIFY Mutation Profiler, and NAVIFY Mutation Caller are for Research Use Only. Not for use in diagnostics procedures.

Presented by: 

MC-US-10274

A targeted NGS solution for streamlined tumor profiling and precision oncology

KAPA HyperPETE: A Novel Primer Extension Target Enrichment Solution for Rapid and Reliable Variant Detection Results

This presentation will include:
- An overview of KAPA HyperPETE Panel technology
- Preliminary data for KAPA HyperPETE*, featuring off-the-shelf panels for somatic oncology--including data for somatic cfDNA, somatic tissue DNA, and somatic tissue RNA

MC-US-10220

Novel Primer Extension TE Solution for Rapid & Reliable Variant Detection Result

The AVENIO Edge System* is Roche's fully automated system for NGS library preparation, target enrichment, library QC, and sample pooling. With integrated workflows, trusted KAPA reagents, and end-to-end connectivity, the AVENIO Edge System* is designed to enable reliable, high-quality results without the need for constant instrument monitoring. In this demo, we will highlight key features and benefits of the AVENIO Edge System*, and demonstrate the simplicity of system setup by sharing the step-by-step process for a user-defined library preparation workflow.

* Product in development and not yet available in the United States.

MC-US-10102

Automated System for NGS Library Prep, Target Enrichment, QC, and Pooling

High-throughput NGS library preparation and expanded sequencing capacity demand greater scalability in nucleic acid extraction workflows, with less hands-on time.

In this webinar, we:
- Demonstrate that the MagNA Pure System’s hands-free workflows yield NGS-ready DNA
- Present sequencing data from libraries prepared with genomic DNA (from whole blood) and cell-free DNA (from plasma) using the MagNA Pure 24 and the MagNA Pure 96 Systems
- Compare sequencing metrics of data yielded by both manual extraction and the MagNA Pure Systems
- Discuss the advantages of using MagNA Pure Systems to extract DNA for NGS

MC-US-09885

Automated DNA extraction for NGS using the MagNA Pure System family

KAPA HyperPETE is a novel target enrichment technology that is designed to combine the performance of hybrid-capture with the ease-of-use and turnaround time of amplicon-based workflows. In addition, it is optimized to detect all major somatic variant types (SNV, CNV, InDel, MSI status, and novel fusion transcript partners), and can be performed on tissue DNA, plasma DNA, and tissue RNA samples.

In this webinar, we review:
- The science behind Primer Extension Target Enrichment (PETE) technology
- How KAPA HyperPETE reduces bias and increases the accuracy of sequencing data
- Performance metrics for KAPA HyperPETE panels for somatic tissue DNA, somatic tissue RNA, and cfDNA inputs

Research Use Only, Not for use in Diagnostic Procedures.

MC-US-10158

Performance of hybrid-capture TE w/ the speed & simplicity of amplicon workflows

Accurate DNA amplification is essential for NGS-based workflows, including CRISPR gene editing, screening of CRISPR clones for on-target and off-target genome modifications, and single-cell RNA sequencing (scRNA). The robust, high-fidelity KAPA HiFi polymerase enables fast, efficient workflows for each of these methods.

In this webinar, we demonstrate how KAPA HiFi DNA polymerase and KAPA NGS Library Preparation Kits enable robust workflows for:
- CRISPR/Cas-9 technology for genome editing
- Indel screening following CRISPR/Cas-9 editing
- CIRCLE-seq, a QC methodology for identifying CRISPR/Cas-9 off-target cleavage sites
- Single-cell RNA sequencing (scRNA-seq)

MC-US-09264

The Application of NGS in CRISPR Gene Editing & Single-cell Analysis

In this webinar, we provide an overview of how NGS technologies are advancing our understanding of the SARS-CoV-2 virus and the COVID-19 pandemic. We review:
- The structure and genomic organization of the SARS-CoV-2 virion
- The roles of NGS in the fight against the COVID-19 pandemic, including understanding immune responses to infection
- An overview of several NGS methods used in SARS-CoV-2 sequencing
- How KAPA Library Preparation Kits for NGS are being used to answer questions about SARS-CoV-2 and COVID-19

MC-US-08879

Next-generation Sequencing in SARS-CoV-2 Research

Providing targeted next-generation sequencing (NGS) results faster is a common challenge facing labs today. By reducing the time required for hybridization from 16 hours to less than an hour—without compromising performance—you can dramatically increase your lab’s productivity.
In this webinar, we:
- Review the basic steps of the KAPA HyperCap Workflow v3
- Present sequencing data for libraries generated with enzymatically and mechanically-fragmented DNA and a range of hybridization times during target enrichment
- Discuss the effectiveness of the KAPA HyperCap Workflow v3 with hybridization times as short as 15 minutes using the KAPA HyperExome panel

MC-US-08603

Single-day hybridization-based capture with KAPA Target Enrichment probes (NGS)

Automating RNA-sequencing (RNA-seq) library preparation offers advantages such as higher sample throughput, less hands-on time, fewer human errors, greater reproducibility, and better process control and workflow standardization. However, developing and implementing an automated RNA-seq library prep protocol on a liquid handling platform can be challenging and time-consuming.

In this webinar, we discuss the automation of RNA-seq library prep, including:
- Benefits of automating RNA-seq library prep
- Tips and tricks of NGS automation
- Overview of the Roche Sequencing automation program
- Examples of automated workflows for KAPA RNA HyperPrep

Automating RNA-seq Library Preparation

Understanding the cellular heterogeneity of tissues such as tumors is crucial for both translational and clinical research. As a result, highly focused techniques such as single-cell RNA sequencing (scRNA-seq) and ultra-low-input mRNA-seq are expanding rapidly to overcome the challenges that single cells and restricted cell populations pose for library preparation and reliable transcriptome analysis.

In many scRNA-seq workflows, the initial steps employ the template switching method for cDNA synthesis followed by cDNA normalization prior to library preparation. Roche’s KAPA HyperPrep Kit is effective across a 30-fold range of cDNA input amounts, eliminating the need for cDNA normalization in scRNA-seq workflows while also generating complex, uniform libraries and high-quality sequencing data.

In this webinar, we will:
- Present an ultra-low-input workflow that yields high-quality libraries from as little as 10 pg of input RNA using the template switching method for cDNA synthesis followed by library preparation using KAPA HyperPlus Kit
- Demonstrate the advantages of the KAPA HyperPlus Kit over the tagmentation-based methods, including greater flexibility on cDNA input quantities 
- Present scRNA data from libraries prepared with KAPA HyperPlus Kit

Ultra-low input and single-cell mRNA-seq library prep using KAPA HyperPlus Kit

RNA-Seq Applications for SARS-CoV-2 Research

RNA Seq

sequencing

Covid-19

Researcher

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RNA-Seq Applications for SARS-CoV-2 Research

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About this talk

Roche Sequencing and Life Science