Bioinformatics Software | QIAGEN Digital Insights

Supercharge your AI in drug discovery with high-quality biomedical data
2023-10-03 13:00 - 14:00 (America/New_York) | Virtual - Americas - EST, United States
If you’re working in pharma or biotech, you likely rely on artificial intelligence (AI) to help you identify new drug targets or plausible biomarkers for disease within large data sets. Yet AI alone isn't enough. A large proportion of Biomedical data have errors and are unstructured. For AI models to provide reliable insights, the underlying data must be of ‘high quality’, meaning it’s accurate, comprehensive, up-to-date and standardized.
Jesper Ryge (Idorsia Pharmaceuticals), Alex Jarasch (Neo4j) and Venkatesh Moktali (QIAGEN Digital Insights) come together to showcase the practical applications of high-quality biomedical relationships data from the QIAGEN Biomedical Knowledge Base (BKB) to accelerate, improve and transform research in drug discovery and pharmaceutical development. By applying AI to a gene-disease knowledge graph, they identify promising drug targets and key mechanisms underlying diseases. A brief introduction to Neo4j shows how graph-centric analysis and visualizations facilitate the effective exploration of large knowledge graphs like BKB. This integration of high-quality curated data, AI-driven analysis and advanced visualization provides valuable insights and accelerates the progress of precision medicine.
In this webinar, you’ll learn how you can:

Build disease interactomes using protein-protein interactions
Identify high-quality drug targets using inferred causal interactions
Choose targets with the least likelihood of adverse outcomes by leveraging the depth of the data in BKB
Formulate plausible hypotheses using state-of-the-art graph visualization

Don't miss this chance to learn how to supercharge your AI toolbox to transform your drug discovery.

Supercharge your AI in drug discovery with high-quality biomedical data
2023-10-03 13:00 - 14:00 (Europe/Paris) | Virtual - EMEA - CET

Impulsionando sus análisis con el software QIAGEN IPA: Cómo nuestros clientes utilizan nuestra herramienta para complementar su investigación
2023-09-28 12:00 - 13:30 (America/Sao_Paulo) | Virtual - Argentina, Argentina
En este seminario web, usuarios de QIAGEN IPA mostrarán cómo les ha ayudado en su investigación nuestro software de análisis e interpretación de datos de expresión génica.

Los principales temas tratados serán:
• Aplicaciones de QIAGEN IPA en Biología de la Reproducción
• Aplicaciones de QIAGEN IPA en la simulación de vías de transducción dependientes de proteínas de membrana

Venga y descubra cómo QIAGEN IPA puede impulsar sus análisis.

HGMD Pro: La solution complète pour évaluer et classer les variants issus des workflows NGS héréditaires avec une seule base de données
2023-09-28 10:00 - 11:00 (Europe/Paris) | Virtual - EMEA - CET
Rejoignez-nous le 28 septembre pour découvrir comment HGMD Pro (Human Gene Mutation Database Professional) peut rationaliser vos recherches et analyses génétiques à travers diverses approches NGS. HGMD est une base de données de référence avec des mesures expertes de conservation et de contrôle de la qualité pour garantir l'exactitude et la fiabilité de ces données. Les utilisateurs gagnent du temps en éliminant le besoin de recoupement manuel des informations. Avec plus de 410 000 mutations pathogènes collectées et intégrées à partir de milliers de publications scientifiques, HGMD Pro est la source la plus complète de mutations germinales humaines disponible, organisée par des experts. HGMD est également indépendant des plateformes d’analyse secondaire utilisées, ce qui permet une intégration facile dans votre pipeline d'analyse existant.

Introduction to Phosphorylation Analyses in QIAGEN Ingenuity Pathway Analysis (IPA)
2023-09-27 11:00 - 12:00 (America/New_York) | Virtual - Americas - EST, United States
In this training, we’ll introduce how you can analyze and interpret your phosphoproteomics data in QIAGEN IPA. Using an example phosphoproteomics dataset, we will answer questions such as:
• How can I format the data before uploading it into QIAGEN IPA?
• How do I set up the analysis?
• Which upstream kinases are implicated in the observed phosphoproteomics changes?
• What are the targets of a particular upstream kinase and how do their levels of phosphorylation change over time?
• How do the levels of phosphorylation change for proteins on Canonical Pathways over time?
• Which biological predictions trend in a time-dependent manner during the time course?
• How do the biological predictions from phosphoproteomics compare with a related transcriptomics dataset?
Learn more about QIAGEN Ingenuity Pathway Analysis and sign up for a trial:
https://qiagen.showpad.com/share/RC7IWOoVJnSsEd5w9LjiA

Cross-species comparison and validation for drug discovery and biomarker research using QIAGEN Ingenuity Pathway Analysis (IPA)
2023-09-26 13:00 - 14:30 UTC | Virtual - Americas - EST, United States
Some human studies may be unfeasible or unethical, making cross-species research critical for drug discovery and biomarker validation. Cross-species research is a crucial method to collect data to examine potential toxicity for a candidate drug, determine the efficacious doses that may be suitable for humans, identify potential biomarkers for a disease of interest or a therapeutic response and understand the mechanisms of disease or treatment. While animal models and humans have similar anatomy and physiology, the subtle differences among organisms in the animal kingdom need to be considered and data collected must be interpreted using a meaningful method.
Using QIAGEN IPA, you can perform comparative analyses across various animal models, even combining different time points, treatments, tissues and cell types with data generated from a wide variety of ‘omics technologies (RNA-seq, scRNA-seq, proteomics, metabolomics, etc.). In this training, you will learn how to:
1. Generate activity heatmaps and expression charts comparing different pathways and regulatory networks across different species
2. Use Activity Plot, Pattern Search and Analysis Match to compare your own data against thousands of public data pre-curated and pre-analyzed representing an array of disease states, conditions and other biological conditions
3. Create expression and correlation plots using pre-curated and pre-analyzed public data to validate and confirm findings derived from a comparison analysis
Please consider reviewing the below tutorials before this meeting.
https://qiagen.showpad.com/share/SQjinvdxIs1iGhL8H3eOd

QIAGEN IPA deep-dive and advanced features training, Asia-Pacific
2023-09-21 13:30 - 14:30 (Asia/Shanghai) | Virtual - APAC
As requested by many users, your QIAGEN Digital Insights team is excited to introduce QIAGEN Ingenuity Pathway Analysis (IPA) deep-dive trainings. In this 90-minute training session, we will discuss the following topics:
Part 1: Deep dive into QIAGEN IPA core and comparison analyses
Part 2: Deeper dive into how to use QIAGEN IPA even without user data; contextualize using Land Explorer for IPA: Find biological meaning using a massive collection of ‘omics data

Analyzing QIAseq DNA Panels with QIAGEN CLC Genomics Workbench
2023-09-20 15:00 - 16:00 (Europe/Paris) | Virtual - Germany, Germany
This training will focus on analyzing QIAseq DNA panel datasets with QIAGEN CLC Genomics Workbench and the Biomedical Genomics Analysis plugin, including a live “FASTQ-to-VCF” demo of data import, data analysis and investigation. We will also show how to set up the analysis of a custom QIAseq DNA panel.
During this training, you’ll learn about:
• Import of FASTQ files
• Launching an analysis workflow
• Inspection of QC reports, genome browser view, detected variants and other workflow outputs
• Customization of template workflow parameters based on findings in the QC report
• Import of custom primers and target regions file
• How to set up an analysis of a custom panel
We’ll also have time for Q&A, so bring your questions to the training.

New user training Asia-Pacific: Large dataset analysis and knowledge base queries using QIAGEN IPA
2023-09-20 13:30 - 14:30 (Asia/Shanghai) | Virtual - APAC
Join us for a 60-minute training session for new users of QIAGEN IPA.
Users will learn how to:
• Upload their 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, timepoints, single-cell clusters, disease types and more) and identify similarities and contrasts
Compare different omics data
• Generate a network even without a dataset or experimental design for hypothesis generation

Analysis of exposure to perfluoroalkyl and polyfluoroalkyl substances (PFAS) using QIAGEN CLC Genomics Workbench and Ingenuity Pathway Analysis (IPA)
2023-09-19 13:00 - 14:30 UTC | Virtual - Americas - EST, United States
Environmental contamination of perfluoroalkyl and polyfluoroalkyl substances (PFAS) is of significant concern due to a wide range of adverse health effects induced by these chemicals, including hepatotoxicity. Analyzing next-generation sequencing data (NGS) from RNA-seq experiments to identify PFAS-induced adverse outcome pathways in the liver may help better understand the mechanisms of PFAS-induced hepatotoxicity. This training will use QIAGEN CLC Genomics Workbench to generate differential expression data from RNA-seq and QIAGEN IPA to study the data within a biological context and uncover molecular mechanisms and regulatory molecules.
In this training, you’ll learn how to:
• Import NGS data into QIAGEN CLC Genomics Workbench
• Generate differential expression data using template workflows
• Export data to IPA
• Investigate pathways and regulatory networks to understand biological mechanisms
• Compare different experimental groups to identify biological similarities and differences
• Generate a custom network
Please consider reviewing the below tutorials before this meeting.
QIAGEN CLC: https://qiagen.showpad.com/share/XwwP0oVcMO1WKDGWcEf96
QIAGEN IPA: https://qiagen.showpad.com/share/SQjinvdxIs1iGhL8H3eOd

Análise de redes de interação biológicas no estudo de miRNAs utilizando o software QIAGEN IPA
2023-09-15 11:00 - 12:30 UTC | Virtual - Brazil, Brazil
Potencialize suas análises e interpretação de dados com o IPA:
User-Case Nesse webinar, a Dr. Ludmila Ferreira mostrará como utilizou o QIAGEN IPA para analisar seus resultados de estudos de miRNA em um contexto complexo de redes de interações biológicas gerando insights promissores que ajudaram a aumentar a velocidade e impacto de suas publicações.
Venha entender como o IPA pode impulsionar suas análises.

Integrating deeply curated omics data with APIs for biomarkers and drug-target investigation
2023-09-14 13:00 - 14:30 (America/New_York) | Virtual - Americas - EST, United States
If you’re a data scientist or bioinformatician working in biopharma and need extensive high-quality ‘omics data for your projects in target discovery, this training is for you. You’ll learn how to programmatically discover, retrieve, filter, aggregate and analyze ‘omics data from our extensive repositories of deeply-curated multi-omics data. You’ll learn how to leverage extensive metadata to find and combine datasets of interest, find and test signatures and perform custom analyses to reveal patterns relevant to disease.
Join us to learn how QIAGEN OmicSoft Lands API can revolutionize your data analysis workflows and help you make more informed decisions.
In this training, you’ll learn how to:
• Search for gene signatures to find datasets (e.g., gene set analysis to find matches of various related comparisons, where the result is a list of comparisons with Contrast names)
• Plot correlation of results (e.g., where the result is a scatter plot between dataset comparisons)
• Find multiple datasets with the same metadata (e.g., based on comparisons, you can define key metadata, then pull a bunch of datasets, and the result is a large table)
• Perform a meta-analysis (e.g., based on datasets, do a Wilcoxon non-parametric test, where the result is Volcano plot and list)
• Test cell specificity with custom aggregation (e.g., for hundreds of genes, calculate the % expressing, and aggregate across studies and by CellTypeGroup, where the result is a heatmap)

QIAGEN Ingenuity Pathway Analysis (IPA) for grant writing and publications with new features
2023-09-12 13:00 - 15:00 UTC | Virtual - Americas - EST, United States
QIAGEN Ingenuity Pathway Analysis (IPA) represents a robust resource to aid in the process of writing grants publications. Driven by a wealth of manually-curated molecular interactions and associations in the QIAGEN Knowledge Base together with pre-analyzed public ‘omics data for hundreds of thousands of samples from QIAGEN OmicSoft Lands, IPA provides biological insights regardless of whether you have your own data or not. In the absence of your own data, IPA provides a resource to query existing molecular knowledge from the literature or public ‘omics data, build networks in silico, and review results from pre-analyzed public studies. With data, you can dig deeply into the biological meaning of your results through the identification of key pathways, regulatory molecules and functional changes as well as understand how your study relates to other published studies.
Join us for a 120-min training session where you will learn:
• Ways to query IPA’s vast collection of curated literature and ‘omics data
• How molecules relate to phenotypes and functions
• Build your own networks and predict activity changes
• Ways to explore a library of over 100,000 precomputed IPA analyses pulled from public ‘omics data
• How to format your dataset and set up an analysis
• How to deeply interrogate key Canonical Pathway
• How to predict regulators which are causing your expression changes
• How to contextualize the result of your analysis by comparing your results to internal and public data
• Ways to generate the necessary tables and figures for your manuscript

Metagenomics and taxonomic profiling using amplicon sequence variants (ASVs)
2023-09-07 13:00 - 14:30 UTC | Virtual - Americas - EST, United States
When it comes to taxonomic profiling of the microbiome, amplicon sequence variants (ASVs) is a method that has unique benefits compared to the traditional method of sequence similarity-based operational taxonomic unit (OTU) clustering. This training’ll cover how to effectively do taxonomic profiling using QIAGEN CLC Genomics Workbench’s ASV tools and a customizable workflow.
Specifically, you’ll learn how to:
1. Collect and bin sequence variants for each sample
2. Merge AVS tables to compare profiles
3. Assign the taxonomic profile/organism
4. Export high-resolution graphical and comprehensive tabular results
If you’re new to QIAGEN CLC Genomics Workbench and are interested in a trial, learn more here:
https://qiagen.showpad.com/share/I6MqdhIybpllyvuYW3AKy

New user training: Large dataset analysis and knowledge base queries using QIAGEN Ingenuity Pathway Analysis (IPA)
2023-09-06 13:00 - 15:00 UTC | Virtual - Americas - EST, United States
Join us for a 120-minute training session for new users of QIAGEN IPA.
Users will learn how to:
• Upload their 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, timepoints, 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 license
• To install IPA before or after the training, please use below installer.
https://qiagen.showpad.com/share/CBv30blCPKFDUYHRWtAvI
• If you haven’t done core analysis in IPA before, we recommend you review below video/slides before the training (not required though).
o IPA beginner training recording:
o https://qiagen.showpad.com/share/t2cGMdF3NjVucBA0b9tIT
o IPA step-by-step guide w/ data format (slide 9) and upload (slide 28) instructions:
o https://qiagen.showpad.com/share/VjizSLJVBw1qfVnyoVJ8B

Drug treatment, toxicology and target safety assessment using QIAGEN IPA and OmicSoft
2023-08-29 13:00 - 14:30 (America/Halifax) | Virtual - Americas - EST, United States
In this 90-minute training, you'll learn how to perform drug treatment, toxicology and target safety assessment-related discoveries using QIAGEN Ingenuity Pathway Analysis (IPA) and QIAGEN Omicsoft Lands.
Using public data from GTEx (normal tissue), GEO, cancer collections and more, you'll learn how to use Omicsoft Lands to:
• Investigate a drug target or biomarker expression across different normal tissues, disease conditions, treatments and more
• Correlate the expression of two or more genes
• Identify a list of genes or biomarkers specific to treatment, disease, normal tissue, cell type and more
Using findings from peer-reviewed publications and other sources, we'll explore with you how to use QIAGEN IPA to:
• Study the impact of targeting a gene/protein on different toxicological and biological functions
• Derive toxicity findings for a gene of interest from QIAGEN IPA's knowledgebase
• Identify and study toxicity-related pathways, regulators and functions for an internal dataset or a public dataset
• Compare different drug treatments, other conditions or multi-omics data for novel discoveries

Compare and contextualize your results using QIAGEN Ingenuity Pathway Analysis (with Summer 2023 update)
2023-08-22 13:00 - 14:30 (America/Halifax) | Virtual - Americas - EST, United States
Take your QIAGEN Ingenuity Pathway Analysis (IPA) analyses to the next level by comparing them to your own analyses (different time points, treatments, cell lines, diseased and more) or to a library of over 100K precomputed datasets to find similar or opposite biological signatures. Identify key genes or entities and then explore how they are expressed across normal tissues, diseases and more from over 600K biological samples to gain deep context.
In this training, you'll learn how to:
• Get advanced insights with the QIAGEN IPA Analysis Match comparison feature to compare large numbers of your own datasets and/or public datasets (from GEO, SRA, cancer collections and more)
• Use and interpret the IPA Activity Plot feature to identify key genes and regulators common across datasets
• Explore identified key genes in Land Explorer to query and visualize expression across tissues, disease states and mutation status, including survival curves
We will feature these specific IPA analyses:
• Analysis Match, Activity Plot and Pattern Search
• Land Explorer
• Summer 2023 update and more
For those with an IPA license:
• To install IPA before or after the training, please use the below installer: https://qiagen.showpad.com/share/CBv30blCPKFDUYHRWtAvI
Consider reviewing the below (recommended but not required):
IPA beginner training: recording:https://qiagen.showpad.com/share/t2cGMdF3NjVucBA0b9tIT
IPA step-by-step guide w/ data format (slide 9) and upload (slide 28) instructions: https://qiagen.showpad.com/share/VjizSLJVBw1qfVnyoVJ8B

Immune repertoire analysis using QIAGEN CLC Genomics Workbench
2023-08-17 13:00 - 14:30 (America/Halifax) | Virtual - Americas - EST, United States
The composition of the immune repertoire, consisting of the T cell and B cell receptors (TCR and BCR), is important for an organism's adaptive immune system and plays a pivotal role in an individual's overall health. Understanding the complex array of TCR and BCR allows for developing precision medicine and immunotherapy. Analyzing next-generation sequencing (NGS) data from RNA-seq experiments to characterize and understand TCR and BCR clonotypes may aid in identifying cases that could benefit from personalized immunotherapy or potentially predict therapeutic outcomes.
In this training, we'll use QIAGEN CLC Genomics Workbench to analyze immune repertoire NGS data generated from RNA-seq or single-cell RNA-seq data. Together we'll explore how to import, analyze and interpret your NGS data. Specifically, you'll learn how to:
-Import NGS data into QIAGEN CLC Genomics Workbench
-Analyze the data using template workflows
-Interpret the results using the interactive graphics produced by the workflows

Part II: Single-cell RNA sequencing data interpretation using QIAGEN Ingenuity Pathway Analysis
2023-08-16 13:00 - 14:30 (America/Halifax) | Virtual - Americas - EST, United States
This two-part series will walk you through single-cell RNA sequencing (scRNA-seq) analysis starting with a matrix file or FASTQ files and ending with a deep understanding of key pathways, regulators and cell type signatures within your data.
In this session, we'll explore how you can take your scRNA-seq differential expression results produced from QIAGEN CLC Genomics Workbench (or from another software/package) and upload them into QIAGEN Ingenuity Pathway Analysis (IPA) to uncover a deep understanding of the biology in your experiment by exploring enrichment and activity prediction for pathways, regulators and more.
Specifically, you'll learn how to:
• Import data using the QIAGEN IPA plugin from QIAGEN CLC or data generated from a different software/pipeline/package
• Explore canonical pathway enrichment and predicted activity for your comparisons
• Find key regulators that may be responsible for the biology in your experiment
• Compare multiple core analyses and see side-by-side results for various cell types, clusters and more
• Compare the expression patterns for pathways and regulators in your dataset with over 135,000 precomputed public analyses in IPA
• Compare your complete analysis signature with over 135,000 precomputed public analyses in IPA
Part I takes place on Tuesday, Aug. 15 and focuses on the secondary analysis of scRNA-seq data using QIAGEN CLC Genomics Workbench. You'll learn to explore differential expression, UMAP, dot plot and more. Here you can register for Part I: https://qiagen.zoom.us/webinar/register/2216662770217/WN_oZyIwr-uQAybn5c4G88HLA

Part I: Single-cell RNA sequencing data analysis using QIAGEN CLC Genomics Workbench
2023-08-15 13:00 - 14:30 (America/Halifax) | Virtual - Americas - EST, United States
This two-part series will walk you through single-cell RNA sequencing (scRNA-seq) analysis starting with a matrix file or FASTQ files and ending with a deep understanding of key pathways, regulators and cell type signatures within your data.
This session is for part I of this training. In this session, you'll learn to use QIAGEN CLC Genomics Workbench to perform secondary analysis on your scRNA-seq data. Specifically, you will learn how to:
• Import your raw FASTQ or processed cell-matrix files
• Use pre-configured but customizable pipelines/workflows for scRNA-seq data
• Generate high-resolution visuals and other files from your analysis for publications and biopharmaceutical discoveries. These include:
o UMAP, t-SNE plots
o Differential expression table for clusters, cell types, or a combination of both
o Heat map
o Dot plots
o Violin plots
Part II of this training takes place on Wednesday, Aug. 16. It focuses on interpreting scRNA-seq data using QIAGEN Ingenuity Pathway Analysis (IPA) to understand key pathways, regulators and cell type signatures within your data. Here you can register for Part II: https://qiagen.zoom.us/webinar/register/4716889476421/WN_IA23wGOhQMa_dSc6QJiTkw

Interpreting genetic risk loci from GWAS in the context of key genes and pathways using QIAGEN Ingenuity Pathway Analysis
2023-08-10 13:00 - 14:30 (America/Halifax) | Virtual - Americas - EST, United States
Genome-wide association studies (GWAS) provide insights into the genetic architecture of disease by identifying susceptibility loci for the disease within a population. If you'd like to identify disease genes and novel biological pathways that underlay the disease pathogenesis to identify novel drug targets, QIAGEN Ingenuity Pathway Analysis (IPA) helps you characterize and validate risk loci within a biological context. In this training, you'll discover how to perform a core analysis for a list of risk loci to study their association with different pathways and regulatory networks.
You'll learn how to:
• Upload and perform a core analysis on a list of GWAS risk loci
• Investigate pathways and regulatory networks to understand biological mechanisms
• Compare enrichment between risk loci analysis to identify biological similarities and difference
• Identify commonalities and differences between risk loci list
• Generate a custom network and contextualize it using public data
• Export high-resolution images and comprehensive tabular results in preferred formats

Indication expansion and drug repurposing using QIAGEN OmicSoft and Ingenuity Pathway Analysis
2023-08-08 13:00 - 14:30 UTC | Virtual - Americas - EST, United States
Research and development for new drugs and disease treatments can be lengthy and costly. Indication expansion can help broaden the impact of a new drug that has already been through the arduous R&D process for a disease or cancer. Drug repurposing can take this concept and expand on it by looking for other diseases with similar drug target biology. The logic is if they share similar target biology, they may benefit from the same treatment.
During this training, we'll cover skills such as:
• Querying QIAGEN OmicSoft Lands data from sources like TCGA or ICGC and exploring the incidence of a cancer-driving somatic mutation that is targeted by a treatment
• Creating a cohort of patients within OmicSoft with a disease-causing mutation and wild type for the gene of interest
• Generating survival curves for each mutant and wild type group for various indications in the relevant OmicSoft Land
• Using QIAGEN Ingenuity Pathway Analysis (IPA) to generate a mechanism of action network for the drug's target
• Exploring various network overlay features to enable in silico testing and combination drug partner investigation
• Searching for publicly available datasets relevant to your chosen indication
• Comparing the expression profile from our disease state with other publicly available analyses to find other indications or diseases that share similar biology

New user training: Large dataset analysis and knowledge base queries using QIAGEN IPA
2023-08-03 13:00 - 14:30 (America/Halifax) | Virtual - Americas - EST, United States
Join us for a 90-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 license,
To install IPA before or after this training, please use below installer.
https://qiagen.showpad.com/share/CBv30blCPKFDUYHRWtAvI

Metagenomics taxonomic profiling using QIAGEN CLC Genomics Workbench
2023-07-26 13:00 - 14:30 UTC | Virtual - Americas - EST, United States
QIAGEN CLC Microbial Genomics Module provides tools and workflows for many various 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.
This training focuses on amplicon-based taxonomic profiling (16S/18S/ITS sequencing OTU clustering). Specifically, we’ll cover together:
• An overview of the different tools within QIAGEN CLC Microbial Genomics Module and the research areas supported
• Taxonomic profiling
• Importing data
• Utilization of metadata
• Downloading and managing references
• The OTU clustering workflow (analytical pipeline)
• Downstream processing of abundance tables
• Creating and exporting high-quality graphics

Delving into public single-cell RNA-seq data using QIAGEN OmicSoft and Ingenuity Pathway Analysis (IPA)
2023-07-25 13:00 - 14:30 UTC | Virtual - Americas - EST, United States
Single-cell RNA-sequencing (scRNA-seq) is widely used to study tissue heterogeneity, identify novel cell types, study pathogenic mechanisms, develop targeted therapies (including immunotherapy) and more. Accordingly, scientists have deposited a tremendous amount of scRNA-seq data into public domains like GEO.
In this training, you will learn how to:
· Locate public single-cell studies of interest to you using QIAGEN Omicsoft Single Cell Lands
· Study different cell types by dimension reduction plots (for example, t-SNE, UMAP)
· Investigate expression of genes of interest across different cell types (Violin plots, overlay expression on cluster)
· Identify key pathways and regulators from scRNA-seq data using QIAGEN IPA

Investigating genomic variants using QIAGEN CLC Genomics Workbench, QCI Interpret-Translational (QCII-T), and QIAGEN Ingenuity Pathway Analysis (IPA)
2023-07-18 13:00 - 14:30 UTC | 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, QCII-T 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:
1. Learn to import whole genome or exosome 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
2. Explore the capabilities in QCII-T which can help accelerate your discoveries from hereditary or tumor cohort analyses to find associations between gene variants and diseases
3. 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

Target exploration and cell line selection for drug discovery
2023-07-13 13:00 - 14:30 UTC | Virtual - Americas - EST, United States
Cancer cell line models have been a cornerstone of cancer research for decades. Profiling cancer cell lines is a powerful tool to identify gene alterations or cancer-related pathways and to discover potential drug targets. This training will focus on using QIAGEN OmicSoft Lands and Ingenuity Pathway Analysis (IPA) as guides to select cell lines and translate insights gained from cell lines into discovering new possible drug targets.
In this 90-minute training, we’ll explore how you can use our platforms to:
• Select appropriate cancer cell lines for a variety of applications such as drug discovery, precision disease modeling, understanding gene function in cancer and immune-oncology research
• Examine genes of interest across various ‘omics datasets to analyze changes in expression, mutation, hotspots and gene dependency data
• Generate networks for hypotheses and test them in-silico to improve the translation of insights derived from cell line models to drug target identification
• Analyze integrated public 'omics data and drug response phenotypes using cell line model systems by exploring data from the Library of Integrated Network-Based Cellular Signatures (LINCS)
• Prioritize drug targets and profile phenotypic/downstream effects of drug action by overlaying public data on your own generated networks
Our system uses millions of curated literature findings in the QIAGEN/ IPA Knowledge Base and the OmicSoft digital warehouse. This training is for those of you familiar with QIAGEN IPA, as well as newcomers interested in learning more.

Pathogen detection and variant analysis using hybrid capture technology and QIAGEN CLC Genomics Workbench
2023-07-11 13:00 - 14:30 UTC | Virtual - Americas - EST, United States
The detection and surveillance of pathogens such as respiratory viruses, sexually transmitted pathogens, adventitious agents and antimicrobial-resistant bacteria are increasingly important in healthcare settings and environmental monitoring. The COVID-19 pandemic highlighted the importance of identifying and differentiating variants of concern. By applying the lessons learned from the COVID-19 pandemic to other pathogens of interest, it’s clear there’s a widespread need for the ability to target sensitive variants using next-generation sequencing (NGS) enrichment strategies and to analyze NGS data.
In this training, we'll use QIAGEN CLC Genomics Workbench to analyze NGS data generated from hybrid capture technology. Using data generated from QIAGEN HYB panels, you'll learn how to import, analyze and interpret NGS data. Specifically, you’ll discover:
1. How to import NGS data into QIAGEN CLC Genomics Workbench
2. How to analyze the data using template workflows;
3. How to interpret the results using the interactive graphics produced by the workflows;
4. How to modify the template workflows to accommodate custom panels

Insights into cancer genomics via COSMIC v98
2023-07-11 11:00 - 12:30 UTC | Virtual - Americas - EST, United States
Our understanding of cancer mechanisms, genetics and complexities continues to expand rapidly. Without a streamlined, standardized and easy to understand organizational system to keep track of this plethora of knowledge, potentially crucial data can effectively be lost. Trusted by scientists for nearly 20 years, COSMIC is the world’s largest, most comprehensive, expert-curated resource for exploring the impact of somatic mutations in human cancers.

Join Leonie Hodges, Scientific Communications Officer for COSMIC, for this webinar to take a journey through COSMIC’s mission, the results of our latest curation focus and how we have developed our download files to improve accessibility and useability.

Through the lens of COSMIC v98, participants of this session will:

Delve into our manual curation and rigorous data annotation processes, and how the resulting gold standard data enables users to experiment and innovate with confidence.
Gain insight into the motivations behind our curation focuses and the results of our latest focus: rare skin tumors, including new tumor types/histologies, a newly fully curated cancer gene and more.
Explore the revamped COSMIC download files, with particular focus on their interoperability, accessibility and useability.

De novo assembly, BLAST and genome finishing using QIAGEN CLC Genomics Workbench
2023-06-27 13:00 - 14:30 UTC | Virtual - Americas - EST, United States
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 QIAGEN 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.
