Roche Webinar Series

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Watch on-demand:

Ultra-low Input and Single-cell mRNA-seq Library Prep Using KAPA HyperPlus Kit

Wednesday, June 2nd 2021, 1:00 p.m. ET, 10 a.m. PT

Presenter: Mariana Fitarelli Kiehl, PhD, Sr. Applications Scientist, Roche Sequencing & Life Science

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:

  • 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

The Application of Next-generation Sequencing in CRISPR Gene Editing and Single-cell Analysis

Wednesday, April 21st 2021, 1:00 p.m. ET, 10 a.m. PT

Presenter: Jason Liu, PhD, Field Application Scientist, Roche Sequencing & Life Science

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)

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

Wednesday, March 24th 2021, 1:00 p.m. ET, 10 a.m. PT

Presenter: Sarah Trusiak, PhD, Sr. Application Scientist, Roche Sequencing & Life Science

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

Next-generation Sequencing in SARS-CoV-2 Research

Wednesday, February 24th 2021, 1:00 p.m. ET, 10 a.m. PT

Presenter: Jason Liu, PhD, Field Application Scientist, Roche Sequencing & Life Science

In this webinar, we provided an overview of how NGS technologies are advancing our understanding of the SARS-CoV-2 virus and the COVID-19 pandemic. We will 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

Single-day Hybridization-based Capture with KAPA Target Enrichment Probes for NGS

Wednesday, January 27th 2021, 1:00 p.m. ET, 10 a.m. PT

Presenter: Mariana Fitarelli Kiehl, PhD, Sr. Applications Scientist, Roche Sequencing & Life Science

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

Automating RNA-seq Library Preparation

Wednesday, December 16th 2020, 1:00 p.m. EST, 10 a.m. PST

Presenter: Eleanor Cowley, M.S., Sr. NGS Field Automation Scientist, Roche Sequencing & Life Science

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 discussed 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

KAPA RiboDesigner: A simplified Custom Probe Design Solution for rRNA Depletion

Wednesday, November 18th 2020, 1:00 p.m. ET, 10 a.m. PT

Presenter: Ranjit Kumar, Ph.D. Sr. Bioinformatics Scientist, Roche Sequencing and Life Science

Ribosomal RNA (rRNA) accounts for majority of total cellular RNA, and efficient depletion of rRNA is an important step in RNA-sequencing (RNA-seq) for good transcript coverage and cost effectiveness. KAPA RiboDesigner is Roche’s latest custom probe design solution that helps the KAPA RNA HyperPrep RiboErase users to easily design custom probes for studying the transcriptomics of multiple species without going through the complex, time-consuming, and costly manual probe design process.

In this webinar, we discussed:

  • Ribosomal RNA and the challenges it brings to RNA-seq
  • Bioinformatics challenges in ribosomal depletion
  • KAPA RNA HyperPrep RiboErase Workflow
  • KAPA RiboDesigner custom probe design process
  • Evaluation of E. coli using KAPA RiboDesigner
  • Evaluation of mixed bacterial species using KAPA RiboDesigner

Overcome the Challenges of RNA-seq Using KAPA RNA HyperPrep

Tuesday, November 3th 2020, 1:00 p.m. ET, 10 a.m. PT

Presenter: Drew Cheney, Field Application Specialist, Roche Sequencing and Life Science

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 discussed:

  • 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

Investing in the Right Sample Prep Solutions to Maximize your Sequencing Resources

Wednesday, October 14th 2020, 1:00 p.m. ET, 10 a.m. PT

Presenters:
Jonathan Nowacki, Senior Technical Services Consultant - Bioinformatics, Roche Sequencing and Life Science;

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?

In this webinar, we discussed:

  • 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

AVENIO Millisect System: Optimize Tumor Yield with Precise Dissection

Wednesday, September 16th 2020, 1:00 p.m. ET, 10 a.m. PT

Presenters:
Teri Rambo Mueller, Field Applications Consultant, Roche Sequencing and Life Science;
Daniel Kim, Instrument Sales Specialist, Roche Sequencing and Life Science

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

New KAPA Target Enrichment: Better by Design

Wednesday, September 2nd 2020, 1:00 p.m. ET, 10 a.m. PT

Presenter: Drew Cheney, Field Application Specialist, Roche Sequencing and Life Science

Building on over 10 years of design expertise, Roche is pleased to introduce the KAPA Target Enrichment Portfolio. These new probes for hybridization-based target enrichment are available in the new KAPA HyperExome or in Custom Panels that you develop using HyperDesign , our new online development tool.

In this webinar, we:

  • Shared the improved benefits offered by KAPA Target Enrichment probes, especially when paired with our KAPA library prep workflows
  • Compared the performance and efficiency of KAPA Target Enrichment probes and the HyperCap Workflow v3 to other widely used targeted enrichment products
  • Introduced HyperDesign, our new probe design interface that provides customized probe selection, and live expert assistance at your fingertips

RNA-Seq Applications for SARS-CoV-2 Research

Wednesday, August 26th 2020, 1:00 p.m. ET, 10 a.m. PT

Presenter: Dr. Sarah Trusiak, PhD, Senior Applications Scientist Roche Sequencing and Life Science

Since the emergence of the SARS-CoV-2 virus in late 2019, many research groups have pivoted their focus to studying the virus and its associated disease, COVID-19. RNA-seq offers a powerful, high-throughput tool for studying both the genome of RNA viruses, such as SARS-CoV-2, and the resulting transcriptional changes in a host during viral infection.

In this webinar, we:

  • Presented several applications of RNA-seq in viral research, including host response, drug discovery, and viral genome mutation analysis, while highlighting examples from recent preprints and publications
  • Discussed specific RNA-seq workflows for each viral application