tv.qiagenbioinformatics.com

New user training: Large dataset analysis and knowledge base queries using...

Tue, 09 Dec 2025 21:10:32 GMT

Join us for a 90-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

QIAGEN IPA deep-dive and new features training, America - Nov 3 2021

Tue, 09 Dec 2025 21:10:03 GMT

As requested by many users, your QIAGEN Digital Insights team is excited to introduce QIAGEN Ingenuity Pathway Analysis (IPA) deep-dive trainings. In these three-hour training sessions, 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

Discovery from public oncological data using QIAGEN Omicsoft OncoLand and...

Mon, 25 Aug 2025 10:45:20 GMT

In this 90-minute training, we will discuss 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. To do this, we will use QIAGEN Omicsoft OncoLand, QIAGEN Ingenuity Pathway Analysis (IPA) and the OmicSoft Land Explorer web interface.

Specifically, for conditions of interest (diseases, cell lines, treatments etc.), we will discuss 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

Speaker: Sumana Chintalapudi, Ph.D., Field Application Scientist, QIAGEN Digital Insights

Checkpoint inhibitors investigation in context of biomarkers, drug targets...

Mon, 25 Aug 2025 10:42:38 GMT

This training will focus on how QIAGEN Omicsoft Studio and IPA can be used to discover new biomarkers, validate (or study) drug targets and identify novel mechanisms of action with user and/or public checkpoint inhibitor datasets from resources like GEO, SRA, TCGA and more.

In this training, you will learn how to:
· Investigate the expression of a gene/biomarker/drug target across different treatments and diseases
· Derive a biomarker/gene signature from a specific condition (for example, non-responders of a drug, a specific disease/disease subtype and more)
· Correlate expression of multiple genes and biomarkers
· Compare different experimental groups (user and/or public data) at both gene expression and pathways/regulatory networks activity levels

Part II: Formatting and Uploading your Data into IPA

Tue, 01 Jul 2025 11:37:04 GMT

Learn how to format your own data and how to upload it into IPA. IPA can upload your experimental data to enable you to perform pathways visualization, literature searches on the molecules in the dataset, and to perform the many different types of analyses offered in IPA. In this webinar we will use phosphoproteomics data as an example dataset.

Interested in learning more?

Click here

Interpreting your comparison analyses results in IPA

Mon, 30 Jun 2025 13:40:21 GMT

Learn how to view and interpret your comparison analyses results in IPA and the multiple ways of relating the molecules in your dataset to the body of information in the Ingenuity Knowledge Base. IPA allows you to compare analysis results from multiple experimental groups to identify similarities, differences, and trends. Heatmaps for Canonical Pathways, Upstream Regulators, and Diseases & Functions allow you to easily and quickly view information from your analyses side-by-side. You can also visualize Gene Heatmaps to gain instant insight into specifically how genes affect your results.

Interpreting the Results of Your Phosphoproteomics Analysis in IPA

Mon, 30 Jun 2025 13:38:38 GMT

Learn how to view and interpret your Phosphoproteomics Analysis results in IPA. Find out how to understand your Phosphoproteomics Analysis and about the multiple ways of relating the molecules in your dataset to the body of information in the Ingenuity Knowledge Base.

Interested in learning more?

Click here

Sharing your analysis results with others in QIAGEN IPA

Fri, 16 Aug 2024 11:34:48 GMT

QIAGEN Ingenuity Pathway Analysis (IPA) is a powerful tool that allows you to upload and analyze your 'omics data to identify key biological pathways and mechanisms and regulatory molecules. But did you know that you can share your analysis results with others? In this 60-minute webinar, we’ll explore the Share Manager and the Collaboration Workspace in IPA and go over the many ways you can share your analysis results with others or how they can share their results with you.

Attendees will learn how to:

• Share datasets and analysis with other IPA users
• Use the Share with me feature
• Email interactive pathways to other IPA users
• Use a Collaboration Workspace (CWS)

IPA deeper dive: Making most out of user’s core/expression analysis

Wed, 24 Jul 2024 15:19:56 GMT

An Ingenuity Pathway Analysis (IPA) deeper dive into the core analysis (also known as expression analysis) training was requested by IPA users. Core/Expression analysis is performed on RNA-seq, scRNA-seq, proteomics and many other types of ‘omics data). Accordingly, this training will focus on these topics and more:
· What are the different result types of results produced by an IPA core analysis?
· How can we identify key regulators and relevant regulatory networks?
· What are the biomarkers and genes associated with diseases and biological processes of interest?
· Can IPA help me generate novel directional (regulator effect) and non-directional (interaction) networks from user’s dataset?
· Another topic per registrant request

If you haven’t done a core/expression analysis in IPA before, we recommend you review the below slides before (or after) this training. It’s not a requirement for following this training but it will help.

Investigate biomarkers, drug targets and more with QIAGEN IPA BioProfiler

Wed, 17 Jul 2024 10:41:52 GMT

QIAGEN IPA's BioProfiler feature allows you to explore and filter the details behind the connections of molecules to diseases and biological functions.

You'll learn to use BioProfiler to:
· Make novel discoveries with the ability to filter the fine-grained relationships between molecules (genes, RNAs, proteins and chemicals) and diseases or functions
· Identify how specific genes are causally linked to user’s disease(s) of interest
· Investigate different types of biomarkers
· Investigate drugs in different phases of clinical trials
· Display molecules and their disease or function associations as a network

QIAGEN Ingenuity Pathway Analysis (IPA) summer camp Part 3

Wed, 17 Jul 2024 10:38:08 GMT

• 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

QIAGEN Ingenuity Pathway Analysis (IPA) summer camp Part 2

Wed, 17 Jul 2024 10:37:05 GMT

• 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

QIAGEN Ingenuity Pathway Analysis (IPA) summer camp Part 1

Wed, 17 Jul 2024 10:34:59 GMT

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

Venn diagram and merging datasets using QIAGEN Ingenuity Pathway Analysis (IPA)

Wed, 12 Jun 2024 14:07:22 GMT

Based on recent feedback, we are hosting this 60min training focused on below 3 topics.
• How to increase memory in IPA for better loading of charts and networks (request from new users)
• How to generate Venn Diagram (request from new and experienced users)
• How to merge multiple dataset files into a single file

Introduction to Analysis Match in IPA - Compare your gene and protein...

Wed, 14 Feb 2024 13:27:00 GMT

With all the expression datasets that are available to the public, wouldn’t it be great to compare them to your own expression data, so you could get a better understanding of the underlying biology of your data?

With QIAGEN IPA Analysis Match, you can compare your expression data with well over 100,000 publicly available datasets that have been processed and analyzed in IPA, as well as all the IPA analyses that you have performed to date.

In this webinar, we will cover how Analysis Match works and demonstrate this feature with a live demonstration. Feel free to follow along with your analysis and ask questions along the way!

IPA Deep Dive: Generating Novel Discoveries in IPA - even when you don’t...

Thu, 16 Mar 2023 17:24:00 GMT

Take a deeper dive into the discovery capabilities of QIAGEN IPA. In this training, viewers will learn how to:

• Leverage the IPA knowledge base to generate hypotheses regarding novel biological mechanisms, discover biomarkers and targets as well as design experiments.

• Generate interactive networks using genes, chemicals and diseases of their interest

• Search and interpret pathway analyses generated from public data (GEO,

SRA etc.)

• Study gene or biomarker expression across different tissues, diseases, cell types and

Drug treatment data investigation using Omicsoft and Ingenuity Pathway Analysis

Thu, 02 Mar 2023 15:19:00 GMT

In this training, the trainer will go over how to utilize public drug treatment data from GEO, LINCS, and other sources to do discoveries regarding drug treatment investigation, biomarker discovery and validation. We will also use IPA to gain insight on the biological mechanisms of these treatments.

Participants will learn how to:
• Easily search for public studies relevant to drug treatment of their interest
• Identify a list of key genes/biomarkers relevant to a treatment or pathological condition
• Send differential expression data to Ingenuity Pathway Analysis to investigate biological mechanism (underlying disease pathology, drug response and more)
• Generate expression, correlation, heatmap and other plots to investigate key genes and biomarkers
• Explore other treatments that may share similar gene expression patterns

Addressing the multiple testing problem in pathway analysis with QIAGEN...

Wed, 15 Feb 2023 17:03:29 GMT

Pathway analysis is a powerful tool when looking at biological data. But how can you interpret the results if you don't fully understand the statistical results? In this brief video, we walk you through relevant statistical topics such as:

What does multiple hypothesis testing mean?

How do you control for multiple hypothesis testing when performing pathway analysis?

Which corrected p-value method should you use?

What does the p-value threshold mean in terms of your results?

Where can I adjust the p-values of overlap in IPA?

Time stamp information:

0:00-1:15 Introduction

1:16-1:49 Example experiment

1:50-1:56 Definition of the null hypothesis for IPA analyses
1:57-5:28 P-values and the probability of false positives
5:29-7:26 The Family Wise Error Rate
7:27-8:13 The False Discovery Rate
8:14 13:52 How False Discovery Rate method works
13:53-16:64 The Benjamini-Hochberg method and an example of how it works
16:65-18:46 How to apply the Benjamini-Hochberg method in your IPA results
18:47-19:19 How to get more information about IPA

Visit QIAGEN IPA to learn more

Keywords: FDR, False Discovery Rate, Benjamini Hochberg, Benjamini Hochberg correction, Benjamini Hochberg FDR, IPA, Ingenuity Pathway Analysis, IPA tutorials, Ingenuity Pathway Analysis tutorials, QIAGEN, corrected p value, adjust p-value, multiple hypothesis testing, statistics, p-values

Exploring drug response in low-grade glioma

Wed, 31 Aug 2022 02:58:16 GMT

This webinar introduces the Tumor Microenvironment (TME) Pathway in QIAGEN’s Ingenuity Pathway Analysis (IPA), demonstrating how users can explore immune and tumor interactions by constructing networks around targets like IL1B and predicting downstream effects on functions such as tumor proliferation. Using tools like Molecule Activity Predictor and Path Explorer, we show how curated literature-derived relationships can model cytokine activity and TME behavior. Additional features like BioProfiler, Land Explorer, and Activity Plot allow users to analyze public datasets (e.g., TCGA) for expression trends and regulatory roles, with use cases including PD-1–positive and –negative CD8+ T cells in lung cancer. IPA’s upstream regulator analysis further enabled prediction of key drivers influencing immune and tumor cell dynamics.