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White Papers and Videos

PGDx elio tissue complete: A Pan Solid Tumor CGP Test

White Paper

This white paper from PGDx presents data demonstrating the predictive value and specifications of the elio tissue complete comprehensive genomic profiling test across several genomic alterations, cancer biomarkers, and tumor types.

 

Enabling Precision Therapy in Oncology: Liquid biopsy complements tissue testing for comprehensive genomic profiling

White Paper

Comprehensive genomic profiling (CGP) of tumors identifies specific acquired molecular alterations, thereby enabling biomarker-directed therapies for many cancer types. Although historically performed on tumor tissue, recent efforts have focused on alternative methods of obtaining the same information.

This white paper from PGDx presents data that supports the incorporation of circulating tumor DNA (ctDNA) analysis into cancer care to increase biomarker detection and decrease time to treatment, demonstrating the concordance between tissue NGS and the PGDx elio plasma resolve assay.

 

The PGDx elio tissue complete test is a Viable Alternative to Send-Out Testing for Comprehensive Genomic Profiling

White Paper

Next-generation sequencing has emerged as the preferred approach for comprehensive genomic profiling in cancer. Less than 20 percent of late-stage cancer patients receive the molecular tumor testing necessary to help guide treatment strategies. PGDx elio tissue complete, an FDA 510(k) cleared and CE-IVD marked decentralized pan solid tumor CGP test, demonstrated high concordance with the Foundation Medicine FoundationOne test.

This white paper from PGDx presents results from a study comparing the PGDx elio tissue complete test to send-out testing for comprehensive genomic profiling, finding it to be a viable local testing solution for molecular laboratories and may thereby increase patient access to accurate tumor profiling at a faster turnaround time.

Metagenomic Taxonomic Profiling Using Qiagen CLC Genomics Workbench

Video

Qiagen CLC Microbial Genomics Module provides tools and workflows for a broad range of bioinformatics applications, including microbiome analysis, isolate characterization, functional metagenomics, and antimicrobial resistance characterization. The module supports the analysis of bacterial, viral, and eukaryotic (fungal) genomes and metagenomes.

Topics covered in this 90-minute training include:

  • An overview of different tools within Qiagen CLC Microbial Genomics Module.
  • Supported applications and research areas.
  • Focused review of whole shotgun taxonomic profiling.
  • Importing data.
  • Utilizing metadata.
  • Downloading and managing references.
  • The whole shotgun workflow.
  • Data QC and taxonomic profiling.
  • Downstream processing of abundance tables.
  • Creating and exporting high-quality graphics.

DNA Methylation Data Analysis and Interpretation Using Qiagen CLC Genomics Workbench and Qiagen Ingenuity Pathway Analysis (IPA)

Video

In this on-demand webinar from Qiagen, viewers will learn how to analyze and interpret DNA methylation data using Qiagen CLC Genomics Workbench and Qiagen Ingenuity Pathway Analysis (IPA).

Viewers will learn how to use CLC Genomics Workbench to:

  • Import fastq files, metadata, and download references.
  • Map reads to a reference, call methylation peaks and interpret QC reports.
  • Annotate methylation peaks by nearby gene information.

The webinar also covers how to use Qiagen IPA to:

  • Format and upload DNA methylation data for pathway analysis.
  • Biologically interpret methylation data through pathways, regulators, and functions.
  • Compare different experimental conditions as well as multi-omics data.

Attendees will also learn how to export results, including high-resolution graphics and tables, for publications and generating biopharma reports.

Discovery from Public Oncological Data Using Qiagen Omicsoft OncoLand and Qiagen Ingenuity Pathway Analysis

Video

In this 90-minute on-demand webinar from Qiagen, Field Application Scientist Sumana Chintalapudi discusses how to discover and validate biomarkers as well as drug targets and key genes using public oncological data from GEO, TCGA, CCLE, and other sources using Qiagen Omicsoft OncoLand, Qiagen Ingenuity Pathway Analysis, and the OmicSoft Land Explorer web interface.

Viewers will learn how to: • Identify public studies of interest. • Derive a biomarker/gene signature. • Study expression of a gene or drug target. • Correlate expression of multiple genes and biomarkers. • Visualize a gene signature in the context of a heatmap. • Compare public data with other public data or a user’s own data.

Detecting Antimicrobial Resistance in Extensively Drug-Resistant Salmonella enterica Serovar Typhi from Pakistan

White Paper

Infections caused by drug-resistant bacteria are being reported at an increasing rate. Antibiotic resistance is, now, recognized as one of the major threats to global public health. Whole-genome sequencing has become an important method for understanding antimicrobial resistance determinants and for surveillance of the emergence and spread of resistant bacteria and the underlying genetic mechanisms of resistance.

This white paper from Qiagen demonstrates how mediators of antimicrobial resistance can be determined from the genomes of pathogen isolates, and how their allocation on either the chromosome or plasmid can be resolved using tools of the CLC Microbial Genomics Module for CLC Genomics Workbench software.

Discovering the Functional Potential of Microbial Communities Through Whole Metagenome Shotgun Sequencing Analysis

White Paper

It is estimated that under 1 percent of all microbes have been characterized in culture. Metagenomic approaches are key to unlocking this treasure of hidden biological information. Metagenomics allows researchers to discover not only which microbes are uncultivable, but also to gain insight into their functional potential.

Microbial communities in extreme environments are receiving increasing interest. These inhabitants can survive under extraordinary conditions, and insights as to their functional capabilities and survival strategies are of potential value for industrial, medical, and commercial applications.

This white paper from Qiagen presents data showing that Actinobacteria and Proteobacteria dominate the microbial community at a polar desert in Antarctica, demonstrating the utility of CLC Genomics Workbench software and CLC Microbial Genomics Module for analyzing the composition and functional potential of microbial metagenomes.

Biomarker and Target Discovery with Qiagen Digital Insights Solutions

White Paper

This infographic from Qiagen describes how Qiagen Digital Insights solutions can be applied for biomarker and drug target discovery through RNA-seq, gene expression analysis, interaction network analysis, pathway analysis, and other approaches and techniques.

Lung Healing Pathways

White Paper

Qiagen’s Ingenuity Pathway Analysis (IPA) software uses an extensive set of curated data to visualize complex signaling and metabolic pathways, predicting pathway activation and the activity of related molecules and helping explore upstream regulatory networks.

This poster from Qiagen illustrates the molecular activity of the signaling pathways involved in lung healing in response to gastroesophageal reflux, smoke exposure, respiratory viruses, ventilator-induced injury, and other damage as visualized by Qiagen IPA.

Oxytocin Signaling Pathway

White Paper

Qiagen’s Ingenuity Pathway Analysis (IPA) software uses an extensive set of curated data to visualize complex signaling and metabolic pathways, predicting pathway activation and the activity of related molecules and helping explore upstream regulatory networks.

This poster from Qiagen illustrates the molecules and interactions of the oxytocin signaling pathways involved in labor, lactation, bone formation, social behavior, cardioprotection, neuroprotection, and diabetes mellitus as visualized by Qiagen IPA.

OEM by Qiagen Advancing with Asian Molecular Diagnostic Companies

White Paper

In this interview excerpt from Qiagen, Vice President and Head of OEM Kay Koerner discusses the volatility that molecular diagnostics manufacturers faced with their supply chain during the COVID-19 pandemic, how the pandemic affected the OEM business, developing trends in life sciences, and how the diagnostics market is evolving in the APAC region.

Quality Control for Human Cell Lines and Other Human Samples Manipulated Ex Vivo

White Paper

Research on ex vivo human cells, including induced pluripotent stem cells and CAR T cells, has advanced remarkably in the last decade, and some cell-based therapies have already been developed. However, much remains to be done to realize the full potential of these therapies. Key aspects of this research are to ensure that cells are correctly identified, have the correct karyotype and differentiation potential, lack oncogenic mutations, and are free of contaminants. This white paper describes quality control solutions for investigating human cells to establish ex vivo manipulation methods that comply with clinical research.

SARS-CoV-2 Biology and Reagents

White Paper

This infographic from BioLegend illustrates and explains the structure and functional elements of the SARS-CoV-2 virus, its interactions with target cells, and the immune response to infection, highlighting reagents that can be used to investigate each stage of infection for diagnostic, treatment, or vaccine development.

The Role of Genomics Analytics in Precision Medicine

Video

Genomics and multiomics analytics are increasingly playing a role in enabling individualized prevention, diagnosis, and treatment through precision medicine. Precision medicine is enabling clinicians to tailor their patients’ care by predicting their susceptibility to disease and treatments based on the patients’ genomes. However, there is a big challenge — the need to analyze large sets of multi-omics data quickly and in real time. For the multi-disciplinary community of data scientists, bioinformaticians, researchers, and IT administrators, this webinar addresses ways to accelerate the path to scientific insight by leveraging the best of high-performance computing and omics analytics. Here’s what you will learn:

  • What are the latest trends in genomics-enabled precision medicine?
  • How to analyze a whole genome in minutes rather than days and without resorting to specialty hardware?
  • Lessons learned by expert panelists on deploying large-scale omics analytics.
  • How to leverage the Lenovo Genomics Optimization and Scalability Tool (GOAST) for large-scale omics analytics.