Library Overview

IPA Overview – The Basics 

Getting Started in IPA Get started with IPA: Logging in, Overview, Basic Features, and more. IPA Datasheet Learn how IPA provides unique insight and understanding into the complex biological and chemical systems at the core of life science research. IPA-Tox Datasheet See how IPA-Tox, a component of IPA, can be used to obtain a focused toxicity assessment of candidate compounds. Six Ways IPA Accelerates Research Discover six powerful ways IPA helps you get better biological insights. How is IPA Different? See what makes IPA unique. IPA Publications Overview See how IPA has been used and cited in publications across a wide variety of therapy areas and platforms. Publications Citing IPA See what published papers have used IPA - search by platform, research area, institution name, or keyword   Guidelines for Citing IPA in Publications Access this resource to help you cite IPA in your research. SNP Datasheet Learn how to analyze Affymetrix SNP Identifiers in IPA. Science Spotlight Archive Get a closer look at how IPA has been used in selected publications.   IPA Quick Card - Basic Interpretation of a Core Analysis These simple steps will help you get started interpreting your results. IPA Quick Card - Running a Core Analysis These simple steps will help you get started running a Core Analysis.

IPA White Papers – Explore IPA's capabilities 

Using a Novel microRNA Target Filter to Prioritize Candidate Melanoma Biomarkers NEW! See how a unique new tool in IPA helps you quickly narrow in on relevant microRNA targets. Best Practices for Assessing Toxicity throughout the Drug Discovery Process: Toxicogenomics NEW! Learn about the benefits of incorporating a toxicogenomics approach like IPA-Tox® into an integrated toxicity/safety assessment program. Search and Explore in IPA Learn how to rapidly generate of testable hypotheses and streamline experimental planning. Path Designer in IPA Create publication-quality graphics that are integrated with Ingenuity’s knowledge base to clearly communicate experimental insights and system models. Comparing Functions and Pathways Affected by the COX-2 Inhibitors Celebrex and Vioxx: Search and Explore in IPA Examine the key mechanistic differences between Celebrex and Vioxx. IPA Integration Module Easy-to-use module allows researchers to quickly integrate IPA's content and analysis capabilities into their internal tools and workflows. ROI for Pathways Analysis Third party white paper on the Return on Investment of IPA in pharmaceutical R&D. IPA Analysis of Metabolomics Data Including Cross-Platform Integration with Transcriptomics Data from a Diabetic Mouse Model See how IPA can help researchers gain a better understanding of the molecular basis of disease.

IPA Application Notes – IPA in action 

Safety Assessment of Lead Compounds and Insight Into Molecular Mechanisms of Hepatotoxicity Learn about the advances in understanding molecular mechanisms of toxicity. Analysis of Circadian Regulation of Gene Expression in the Liver IPA identifies cellular processes, pathways, and liver functions. Novel Molecular Mechanisms of Immune Systems Regulation IPA identifies the downstream effects of targeting a novel immune system regulator. Molecular Network Shift With Progression to Metastatic Prostate Cancer Analysis of gene expression signatures from patient tumor samples. Identify Putative Biomarkers of Childhood Leukemia Disease Subtypes Highlights of a biomarker discovery workflow. Analysis Identifies Perturbed Energy Pathways in Skeletal Muscle Tissue From a Subset of Morbidly Obese Patients Learn how to build molecular models of disease states and develop appropriate strategies. Application to Elucidate Distinct Transcriptional Responses of a Series of Synthetic Toll-Like Receptor 4 Agonists Understanding the differential activities of Toll-Like Receptor 4 (TLR4) agonists.

Applying IPA 

Applying IPA – Biomarkers Discover how to use IPA to identify and prioritize biomarker candidates. Applying IPA – Cancer Learn how IPA can be applied in cancer research. Applying IPA – Cardiovascular Disease Learn how IPA can be applied in cardiovascular disease research. Applying IPA – CNS Disorders Learn how IPA can be applied in CNS disorder research. Applying IPA –  Immune Disorders Learn how IPA can be applied in immune disorder research. Applying IPA – Infectious Diseases Learn how IPA can be applied in infectious disease research. Feature Highlight – Human Isoform View with Expression OverlayNEW! Display gene expression changes at the isoform level and explore isoform-specific biology from RNA-Seq and Exon microarray experiments Feature Highlight – microRNA Target Filter NEW! See how to use IPA to upload, analyze, prioritize, filter, and visualize microRNAmRNA target relationships, all in a single tool. Feature Highlight – Path Designer Learn about creating custom, publication-quality, interactive graphics in IPA. Feature Highlight – Reagent View beta Learn how to search for reagent information in IPA. Research Approach – Epigenetics in IPA See how IPA can be applied to epigenetics research.

IPA Videos 

IPA Winter 2011 Release Overview NEW! See how new the transcription factor analysis and downstream effects map in IPA can help you understand the cause and effect of gene expression changes. How IPA Helps you Get Novel Insights NEW! See how IPA helps visualize data in the context of published biological findings and established pathways to paint an accurate, detailed picture of the affected biology What's New in IPA 9.0 NEW! Learn about the new microRNA Target Filter and support for RNA-Seq data in IPA 9.0 What is IPA? Learn what IPA is and how it can help in your research. IPA Overview & Demo Walk through the major features and functionalities in IPA. IPA-Biomarker® Analysis Learn how IPA-Biomarker can identify the most promising and relevant biomarker candidates. IPA-Tox® Analysis Learn how IPA-Tox can assess the toxicity and safety of your candidate compounds. Oncology Web Seminar Learn how IPA can be applied to your oncology research

Ingenuity Products and Services 

Ingenuity Analysis Services Learn about customized analysis services projects performed by Ingenuity scientists. Ingenuity Security Overview Learn how Ingenuity’s security measures ensure the privacy and safety of your data and proprietary information. Ingenuity Citation Services (For Life Science Vendors) Learn how Ingenuity can compile a list of citations that include your products for use on your website or internal use. Ingenuity Ecommerce Search Solutions (For Life Science Vendors) Learn how Ingenuity can help you include relevant biological information on your e-commerce website to help customers quickly select relevant products.

Scientific Posters 

Using IPA to explore microRNA impacts on molecular mechanisms of disease NEW! IPA's new microRNA Target Filter enables prioritization of experimentally validated and predicted mRNA targets through the addition of biological information. Using RNA-Seq Data to Gain Insight into Disease Mechanisms in IPA NEW! Integrated In Silico Analysis of NGS Prostate Cancer Data via High-Resolution RNA-Seq Analysis. Analysis of Molecular Profiling Data to Understand Mechanisms of Disease, Targets, and Biomarkers NEW! IPA analysis provides a bridge between molecular profiles of cancer and cancer-specific process, phenotypes, and pathways. In Silico Approaches Inform Drug Repurposing Strategies for the Treatment of Infectious Disease NEW! See how IPA can provide key insights into drug mechanism of action, generate testable hypotheses, and understand key host responses in infectious-disease research. IPA Helps Generate Novel Hypotheses IPA Facilitates Generation of New Hypotheses and Provides Additional Insights into Ebola-modulated Immune Response Mechanisms New Biomarker Capability in IPA 5.0 Applying IPA-Biomarker® for Analysis of Morbid Obesity. New Toxicology Capability in IPA 5.0 Applying IPA-Tox® for Efficient Evaluation of Compound Toxicity and Safety. IPA Pathways to Discovery Leveraging Pathways to Gain Novel Insights into Biology for Drug Discovery, Development, and Clinical Studies. Collaboration Pathways Tools Collaboration Pathways Tools: Gaining Novel Insights and Biological Understanding Through Cross Functional Sharing of Expression Data Analysis. Generation of de novo Pathways Using Gene Expression Data (AACR 2004) Rapid Generation of de novo Biological Pathways from Large-Scale Gene Expression Data Using the IPA Application. Understanding Microarray Data Sets (DDT 2004) Making Sense of it All: A New Approach to Gaining Novel Insights and Biological Understanding of Clinical Microarray Data for Drug Discovery and Development. Predictive Technology and Preclinical Development Using Pathways for Prediction: A New approach for Gaining Novel Insights and Biological Understanding of Toxicogenomic Expression Data.

Company 

Corporate Backgrounder Learn more about Ingenuity Systems

Partner Downloads 

Agilent GeneSpring GeneSpring GX Connector to Ingenuity's IPA WebEx* link Rosetta Resolver Resolver Custom Command to Ingenuity's IPA     Spotfire DecisionSite Connector to Ingenuity's IPA WebEx* link *Requires the WebEx player for viewing.

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