Bioinformatics Software | QIAGEN Digital Insights

Discovery from public data (GEO, SRA and more) using Ingenuity Pathway Analysis
2024-05-28 13:00 - 14:30 (America/New_York) | Virtual - Americas - EST, United States
Per public demand, we are hosting a comprehensive training on how to effectively use sample level public data and metadata from sources like GEO, SRA, TCGA, GTEx, Blueprint, CCLE and other sources through Ingenuity Pathway Analysis (IPA) and IPA Analysis Match Explorer feature. The trainer will walk through use cases in realms of biomarker discovery, drug–target investigation, studying survival in custom patient cohorts, multi-gene correlation and more.
Note: The word “condition” below refers to different diseases, disease subtypes, treatments, cell types, cell lines and more.
This training will cover topics like
• How is a gene of interest expressed across different conditions?
• Is there a correlation in the expression of two genes or biomarkers of interest for a given condition?
• For a given condition of interest, can we derive a list of genes (example genes specific to a disease, treatment or cell type)?
• Can we generate custom cohorts of patients (example TP53 wt vs mutant or PDCD1 high vs low expression) and then generate survival curves representing those cohorts? Can we generate p-values to see if there is significant difference?
• Can we detect expression of a gene in different cell types from single cell data?

HGMD Pro in action: Search, curate and classify genetic variants - Session 1
2024-06-04 13:00 - 14:00 (America/Halifax) | Virtual - Americas - EST, United States
In this live, interactive training session, our technical expert will show you how the Human Gene Mutation Database (HGMD) Professional can help you get better variant data faster.

You will learn how to:
• Differentiate between clinically significant variants and variants of unknown significance (VUS)
• Use batch search vs. advanced search, including their differences
• Curate genes using HGMD Pro’s accurate, up-to-date information
• Determine the predominant type of genetic variant that occurs in a specific gene to understand the genetic mechanisms underlying associated diseases
• Additional topics of interest based on registration feedback

Investigating genomic variants using QIAGEN CLC Genomics Workbench, QCI Interpret Translational (QCIIT), and QIAGEN Ingenuity Pathway Analysis (IPA)
2024-06-06 13:00 - 14:00 (America/New_York) | Virtual - Americas - EST, United States
Discovering new genes implicated in hereditary diseases or cancer progression is challenging yet advancing rapidly due to the increase in next-generation sequencing (NGS) cohort data. These data analyses produce insights into associations between gene variants and diseases and the biological mechanisms of these gene variants.
By combining QIAGEN CLC Genomics Workbench, QCIIT and QIAGEN IPA, you can analyze sequencing data obtained from a variety of NGS technologies, annotate gene variants using the world’s most comprehensive and up-to-date curated scientific evidence and find biological connections in gene variants with manually curated scientific findings. Using a streamlined NGS analysis workflow, you’ll get valuable and reliable insights for your research project and speed up your discoveries.
In this training, you’ll:

Learn to import whole genome or exome sequencing data into QIAGEN CLC Genomics Workbench and use the ultra-fast LightSpeed Module that delivers an end-to-end NGS FASTQ to VCF pipeline
Explore the capabilities in QCIIT which can help accelerate your discoveries from hereditary or tumor cohort analyses to find associations between gene variants and diseases
Learn how to use QIAGEN IPA and its manually curated content, among other integrated scientific evidence, to uncover novel biological mechanisms underlying these gene variants

QIAGEN Ingenuity Pathway Analysis (IPA) new user training
2024-06-06 13:00 - 14:30 (America/New_York) | Virtual - Americas - EST, United States
Large dataset analysis and exploring the knowledge base using QIAGEN Ingenuity Pathway Analysis (IPA)
Join us for a 120-minute training session for new users of QIAGEN IPA.
In this training, you’ll learn how to:
• Upload your dataset (RNA-seq, scRNA-seq, proteomics, metabolomics and more) and perform interactive core/pathway analysis in IPA
• Understand the different result types produced (pathways, key regulators, impact on biological functions/diseases and more)
• Compare different experimental conditions (treatments, time points, single-cell clusters, disease types and more) and identify similarities and contrasts
• Generate a network even without a dataset or experimental design for hypothesis generation
For those with IPA licenses: download the installer from the link below to install IPA before or after the training.
https://qiagen.showpad.com/share/CBv30blCPKFDUYHRWtAvI
To learn more about IPA or request a trial: https://digitalinsights.qiagen.com/products-overview/discovery-insights-portfolio/analysis-and-visualization/qiagen-ipa/?cmpid=CM_QDI_DISC_042024webinars-NUT

Geneset enrichment, target Validation and more through programmatically utilizing high quality biomedical literature findings
2024-06-11 13:00 - 14:00 (America/Halifax) | Virtual - Americas - EST, United States
In this 60-minute session, the trainer will go over how to effectively utilize a relationship database for below applications. In this case, QIAGEN Biomedical Knowledgebase (Biomedical KB – a database containing high-quality relationship literature findings, the same database backing Ingenuity Pathway Analysis/IPA) will be used, but learning can possibly be applied to similar databases as well.
The trainer/QIAGEN team will go over
• Conducting Geneset Enrichment Analysis (GSEA)
• How multiple Geneset enrichment methods can be used instead of only those integrated in software GUI
• Target Validation at cell, tissue, and organ level
• Potentially other use cases, queries, and applications requested by registrants
Learn more about Biomedical KB: https://qiagen.showpad.com/share/GmpIJaN5kRfsHRD5WPwgc

How is AI Changing Pharma R&D?
2024-06-12 10:00 - 11:30 (America/Halifax) | Virtual - Americas - EST, United States
AI has begun to transform and accelerate every step of the drug development lifecycle from target identification to drug discovery and clinical trial design. However, the rapid development and adoption of AI platforms come with its own set of challenges regarding data quality, data privacy, and an evolving regulatory landscape. Panelists in this webinar will share their insights into the major opportunities and challenges facing biopharma leaders today as they continue to evaluate and incorporate new AI tools into their R&D workflows.

How decentralized and small labs can adopt high-throughput NGS analysis with limited time and resource investment
2024-06-13 13:00 - 14:00 (America/Halifax) | Virtual Global Event (Times shown in EST)
Next-generation sequencing (NGS) has rapidly gained popularity as a diagnostic testing approach due to its unparalleled ability to comprehensively analyze genetic information with high throughput and precision. However, decentralized and small labs face significant hurdles when it comes to adopting NGS testing. From high upfront costs associated with acquiring the necessary equipment, to the complexity of bioinformatics tools and compliance management that require specialized expertise in data analysis and data security, adopting NGS poses challenges for labs with limited staff and infrastructure.
To empower small and decentralized labs to easily adopt NGS testing, QIAGEN has launched a new secondary analysis solution for oncology and inherited disease applications that enables high-throughput secondary analysis for use with any clinical NGS data. In this webinar, learn about QCI Secondary Analysis, an agnostic, cloud-based software-as-a-service (SaaS) solution that seamlessly integrates with QCI Interpret, QIAGEN’s clinical variant interpretation and reporting software, to deliver highly scalable and customizable Sample to Insight workflows for oncology and inherited disease applications.
In this webinar, attendees will learn how QCI Secondary Analysis:

Streamlines analysis from a range of assay types, enabling labs to process more sequencing data without extensive time and resource investment.
Ensures the highest degree of isolation and data protection, including compliance with ISO 27001, General Data Protect Regulation (GDPR), and the Health Insurance Portability and Accountability Act (HIPPA) requirements.
Directly connects to QCI Interpret for an integrated and automated FASTQ-to-report workflow with limited hands-on time.

Accelerating Drug Discovery with Comprehensive Curated Knowledge
2024-06-13 13:00 - 14:00 (America/Halifax) | Virtual - Americas - EST, United States
In the rapidly evolving landscape of drug discovery, the ability to integrate high-quality research findings into knowledge graphs is paramount. For over twenty years, the Ingenuity team with QIAGEN has curated these nodes and relationships. Our QIAGEN Biomedical KB-HD make these data available for consumption outside of Ingenuity Pathway Analysis.
In this talk, we will:
• Explore how to query and leverage this curated data resource to accelerate the drug discovery process.
• Provide live demonstration of the underlying database Biomedical-HD
• Show how the Biomedical KB-HD can be rapidly deployed
• Show how the underlying schema and ontologies could serve as a scaffold for integrating your own research
Overall, this demonstration will show the critical role of knowledge graphs in predicting adverse outcomes and toxicity, highlighting their transformative potential in steering pharmaceutical research and development.
Learn more about Biomedical KB: https://qiagen.showpad.com/share/GmpIJaN5kRfsHRD5WPwgc

HGMD Pro in action: Search, curate and classify genetic variants - Session 2
2024-06-18 13:00 - 14:00 (America/Halifax) | Virtual - Americas - EST, United States

HGMD Pro in action: Search, curate and classify genetic variants - Session 2
2024-06-18 13:00 - 14:00 (America/Halifax) | HSMD-screen-grab-2

Leveraging the QIAGEN Knowledge Graph and causal embeddings for insights into drug repurposing
2024-06-18 13:00 - 14:30 (America/Halifax) | Virtual - Americas - EST, United States
By connecting diverse entities and relationships, biomedical knowledge graphs hold the potential to uncover new insights from existing data. This webinar introduces a machine learning-based approach that utilizes causal interactions from the QIAGEN Knowledge Graph to predict novel drug-disease relationships and construct networks that capture relevant supporting evidence. We will present examples that showcase the application of this approach in the context of drug repurposing.

Leveraging the QIAGEN Knowledge Graph and causal embeddings for insights into drug repurposing
2024-06-18 13:00 - 14:30 (America/Halifax) | HSMD-screen-grab-2

QIAGEN Ingenuity Pathway Analysis (IPA) for grant writing and publications with new features
2024-06-20 13:00 - 15:00 (America/Halifax) | Virtual - Americas - EST, United States
QIAGEN Ingenuity Pathway Analysis (IPA) is more than just an analysis program; it can also help you write grants and publications. IPA provides biological insights backed by expert-curated findings and thousands of pre-analyzed multiomics datasets. You can search for existing knowledge on molecules of interest, build networks and review results from public studies. Or you can identify key pathways, regulatory molecules and functional changes in your results and see how your data relates to published studies.
Join us to learn how to:
• Search IPA’s vast collection of curated literature and omics data
• Relate molecules to phenotypes and functions
• Build your own networks and predict activity changes
• Explore a library of over 90,000 precomputed IPA analyses pulled from publicly available studies
• Format your dataset and set up an analysis
• Deeply interrogate key Canonical Pathways
• Predict regulators causing your observed expression changes
• Contextualize your results by comparing them to internal and public data
• Generate the necessary tables and figures for your manuscript
Do you already have an IPA license? Install IPA and start using it now: https://qiagen.showpad.com/share/CBv30blCPKFDUYHRWtAvI
Learn more about IPA or request a free trial: https://digitalinsights.qiagen.com/products-overview/discovery-insights-portfolio/analysis-and-visualization/qiagen-ipa/

RNA-seq data analysis and interpretation with sankey plot update
2024-06-25 13:00 - 14:30 (America/Halifax) | Virtual - Americas - EST, United States
For RNA-seq data, you will learn how to:
• Import FASTQ files, cell matrix files and metadata and how to download references
• Map reads to a reference genome and generate gene and transcript counts and QC reports displaying % mapped reads, knee plots, etc.
• Generate visualizations of results, such as heatmaps, differential expression tables, PCA/PCOA plots, Venn diagrams, sankey plot and others
• Easily customize RNA-seq workflows
• Export publication-quality graphics, tables and reports
• Send differential expression tables to QIAGEN Ingenuity Pathway Analysis directly from QIAGEN CLC Genomics Workbench to analyze and interpret relevant pathways
Learn more about CLC or request a free trial: https://digitalinsights.qiagen.com/products-overview/discovery-insights-portfolio/analysis-and-visualization/qiagen-clc-workbench-premium/

Benefits of integrating targeted next-generation sequencing (NGS) panels into molecular diagnostics of solid tumors
2024-06-27 13:00 - 14:00 (America/Halifax) | Virtual - Americas - EST, United States
Variant detection of multiple genes from a single tumor sample requires high-throughput molecular testing. To meet this demand, targeted next-generation sequencing (NGS) panels are useful in clinical settings for accurate tumor profiling and the identification of essential molecular aberrations for personalized therapies. By focusing only on a subset of genes, targeted NGS is not only a cost-effective solution, but can rapidly deliver insights into a tumor molecular profile.
To address this challenge, a clinical research team led by Dr. Michela Bulfoni at the Istituto di Anatomia Patologica designed custom NGS panels, named “Glioma” and “Routine Diagnostics”, targeting single nucleotide variations, insertions/deletions, fusions, and copy number variations of tumor-associated essential genes.
In this webinar, attendees will:
Understand the clinical utility of custom-designed NGS panels for accurate tumour diagnosis
Learn about the design and application of these NGS panels
Gain insights into the cost-effectiveness and high sensitivity of NGS panels in improving sample throughput

Benefits of integrating targeted next-generation sequencing (NGS) panels into molecular diagnostics of solid tumors
2024-06-27 13:00 - 14:00 (America/Halifax) | HSMD-screen-grab-2

QIAGEN Ingenuity Pathway Analysis (IPA) summer camp - Session#1
2024-07-09 13:00 - 14:00 (America/Halifax) | Virtual - Americas - EST, United States
Join us for three 60-minute training sessions for QIAGEN Ingenuity Pathway Analysis (IPA).

In this training, you’ll learn how to:

Tuesday July 9 – Session#1: 1pm ET/10am PT

IPA general overview
Upload your dataset (RNA-seq, scRNA-seq, proteomics, metabolomics and more)
Set up core/pathway analysis in IPA

Wednesday July 10 – Session#2: 1pm ET/10am PT

Understand the different result types produced (pathways, key regulators, and more)
Customize chart outputs using filters and different chart types like a volcano plot like bubble chart

Thursday July 11 – Session#3: 1pm ET/10am PT

Compare different experimental conditions (different ‘omics data, treatments, time points, single-cell clusters, disease types and more) and identify similarities and contrasts
Generate a network even without a dataset or experimental design for hypothesis generation

If you are able to attend, then we will have additional scientists on the call for Q&A. If you are unable to attend, registering will still allow you to view the recordings.

QIAGEN Ingenuity Pathway Analysis (IPA) summer camp - Session#1
2024-07-09 13:00 - 14:00 (America/Halifax) | HSMD-screen-grab-2

QIAGEN Ingenuity Pathway Analysis (IPA) summer camp - Session#2
2024-07-10 13:00 - 14:00 (America/Halifax) | Virtual - Americas - EST, United States

QIAGEN Ingenuity Pathway Analysis (IPA) summer camp - Session#2
2024-07-10 13:00 - 14:00 (America/Halifax) | HSMD-screen-grab-2

QIAGEN Ingenuity Pathway Analysis (IPA) summer camp - Session#3
2024-07-11 13:00 - 14:00 (America/Halifax) | Virtual - Americas - EST, United States

QIAGEN Ingenuity Pathway Analysis (IPA) summer camp - Session#3
2024-07-11 13:00 - 14:00 (America/Halifax) | HSMD-screen-grab-2

De novo assembly, BLAST and genome finishing with QIAGEN CLC Genomics Workbench
2024-07-17 13:00 - 14:30 (America/Halifax) | Virtual - Americas - EST, United States
Description
This webinar will introduce users to the tools available for short reads (Illumina) as well as long reads (Oxford Nanopore, Pac Bio) de novo assembly in CLC Genomics Workbench. It will also go over other useful functionalities such as BLAST and genome finishing.

Participants will learn the following:

o Download and install needed plugins.
o Import data required for the analysis.
o Run the de novo assembly workflow.
o For long reads, improve a de novo assembly by polishing with short, high-quality reads.
o Map reads to a reference and visualize an assembly.
o For long reads, correct raw long reads for further analysis.
o Use BLAST to investigate the contigs.
o Analyze and assemble contigs through Genome Finishing tools.

De novo assembly, BLAST and genome finishing with QIAGEN CLC Genomics Workbench
2024-07-17 13:00 - 14:30 (America/Halifax) | HSMD-screen-grab-2

Antimicrobial resistance (AMR) and multi-locus sequence typing (MLST) with QIAGEN CLC Genomics Workbench
2024-07-18 13:00 - 14:30 (America/Halifax) | Virtual - Americas - EST, United States
You asked for it by popular demand, and we’re here to deliver. In this training, we’ll cover how antimicrobial resistance (AMR) is used for isolation or can be easily integrated with other functionalities such as multi-locus sequence typing (MLST).
In this training, we’ll cover:

Introduction to AMR, MLST and relevant databases
QIAGEN Microbial Insight - Antimicrobial Resistance database (QMI-AR)
Importing data and downloading needed databases
Finding resistance with nucleotide DB, PointFinder and ShortBRED
Integrating AMR with MLST
Exporting high-resolution graphics and result tables.

Antimicrobial resistance (AMR) and multi-locus sequence typing (MLST) with QIAGEN CLC Genomics Workbench
2024-07-18 13:00 - 14:30 (America/Halifax) | HSMD-screen-grab-2

Assessing drug safety with QIAGEN Biomedical KB-AI
2024-07-23 13:00 - 14:00 (America/Halifax) | Virtual - Americas - EST, United States
Are you a healthcare professional, clinical researcher or data scientist interested in drug safety research? If so, you know how vital understanding a drug’s adverse effects is to maximize its effect while minimizing its risks. This webinar will show how the QIAGEN Biomedical KB-AI knowledge graph can be used to explore scientific and pharmacovigilance data. Focusing on immune checkpoint inhibitors (ICIs), we will also demonstrate how Neo4j and Python can be combined to query, visualize and analyze this data effectively.
We’ll cover the following:

Drug safety profiling in Biomedical KB-AI
Pharmacovigilance case study of ICIs: Pembrolizumab
Comparative analysis of ICIs for comprehensive safety monitoring

Assessing drug safety with QIAGEN Biomedical KB-AI
2024-07-23 13:00 - 14:00 (America/Halifax) | HSMD-screen-grab-2

Checkpoint inhibitor and immuno-oncology investigation through OmicSoft Lands APIs
2024-07-24 13:00 - 14:30 (America/Halifax) | Virtual - Americas - EST, United States
While there is great interest in the scientific community to investigate drug targets and biomarkers from public immune-oncology data, such investigation is hindered by the difficulty in finding and combining related datasets to perform large-scale meta-analyses. This webinar will focus on how high quality curated genomic repositories such as the QIAGEN OmicSoft Lands database immediately allows in-depth investigations across diverse data-sources (GEO, CPTAC, TCGA, GTEx and many more) to discover and validate candidate checkpoint inhibitor drug targets and biomarker investigation.
In this webinar you will learn how to

Easily identify relevant samples using extensive manually curated clinical metadata
Visualize and identify checkpoint inhibition biology related drug target and biomarkers expression patterns in bulk and single cell RNA-seq studies.
Reveal how the expression of a group of biomarkers (or genes/proteins of interest) correlates in normal and disease tissue

IPA deep dive: miRNA investigation using QIAGEN Ingenuity Pathway Analysis (IPA)
2024-07-24 13:00 - 14:30 (America/Halifax) | Virtual - Americas - EST, United States
In this 90-minute training session, you will learn how to identify target mRNAs for your miRNAs of interest and associate them with pathways, diseases, biological functions, tissues and cell types.
Topics that will be covered include:

How to analyze miRNA-seq datasets alone or both miRNA and corresponding mRNA datasets together
How to use QIAGEN IPA without a dataset, using miRNA IDs
Introduction to databases and curated content specific to miRNA
How to effectively apply various filters and functionalities to identify biomarkers, key targets and biological mechanisms

Learn more about IPA or request for a trial.
