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My Findings Overview


QIAGEN Ingenuity Pathway Analysis (IPA) | How to Format and Upload custom findings data file in IPA

My Findings


QIAGEN Ingenuity Pathway Analysis (IPA) | My Findings

Add My Findings


QIAGEN Ingenuity Pathway Analysis (IPA) | Add My Findings from the Build Tool

Summer IPA Release notes, July 2022


QIAGEN Ingenuity Pathway Analysis (IPA) | Release Notes

Gene View


QIAGEN Ingenuity Pathway Analysis (IPA)

Data Upload definitions


QIAGEN Ingenuity Pathway Analysis (IPA) | Definitions for the Data Upload workflow

Version number or Date of Third Party Databases


QIAGEN Ingenuity Pathway Analysis (IPA)

Available Canonical Pathways


QIAGEN Ingenuity Pathway Analysis (IPA) | Currently Available Canonical Pathways

Search for Genes Tutorial


QIAGEN Ingenuity Pathway Analysis (IPA)

Exploring large public data resources through IPA


QIAGEN Ingenuity Pathway Analysis (IPA) | A brief overview of curated 'omics data resources available in IPA

How can I see the pathways related to this analysis


QIAGEN Ingenuity Pathway Analysis (IPA) | How can I see the pathways related to this analysis?

Analysis Match


QIAGEN Ingenuity Pathway Analysis (IPA) | Core Analysis tab that displays related analyses (among thousands of curated analyses) based on shared pattern of predicted "entities" like Upstream Regulators, Canonical Pathways, etc.)

Application Preferences


QIAGEN Ingenuity Pathway Analysis (IPA)

Canonical Pathways for a Dataset


QIAGEN Ingenuity Pathway Analysis (IPA) | Canonical Pathways for a Dataset

Downstream Effects Analysis Tutorial


QIAGEN Ingenuity Pathway Analysis (IPA)

Downstream Effects Analysis Tutorial


MAP-Molecule Activity Predictor


QIAGEN Ingenuity Pathway Analysis (IPA)

Importing Pathways


How to import pathways from sources outside of IPA

Highlight or Select


Overlay tool to identify nodes or relationships in networks and pathways and then act upon them

Relationship Export


QIAGEN Ingenuity Pathway Analysis (IPA) | Relationship Export

Accessing and Using Upstream Regulators


Change IPA Password


QIAGEN Ingenuity Pathway Analysis (IPA) | Password Reset

Batch Analysis


QIAGEN Ingenuity Pathway Analysis (IPA) | How to run multiple analysis as a batch

What can I do with the search results?


QIAGEN Ingenuity Pathway Analysis (IPA) | What can I do with the search results?

Gene and Chemical Search


Project Manager


QIAGEN Ingenuity Pathway Analysis (IPA)

Analysis Results Tutorial


Core Analysis based on microarray expression data (single comparison)

FAQs on HumanCyc Database


QIAGEN Ingenuity Pathway Analysis (IPA) | FAQs on HumanCyc Database

Analyzing mRNA expression data


QIAGEN Ingenuity Pathway Analysis (IPA) | Summary on how to upload and analyze expression data in IPA, with links to videos and more

Best Practice - Expression Data Analysis


QIAGEN Ingenuity Pathway Analysis (IPA)

Pathways and Lists Search


Differences between the search tabs


QIAGEN Ingenuity Pathway Analysis (IPA) | What’s the difference between the search tabs?

Advanced Search


QIAGEN Ingenuity Pathway Analysis (IPA)

Disease and Functions Search


QIAGEN Ingenuity Pathway Analysis (IPA)

Dataset and Analysis Search


QIAGEN Ingenuity Pathway Analysis (IPA) | Search Project Manager for Analysis and Dataset

Running-IPA-on-Windows


QIAGEN Ingenuity Pathway Analysis (IPA) | Running IPA on Windows

IPA Video Tutorials


QIAGEN Ingenuity Pathway Analysis (IPA) | Summary of available video tutorials for IPA

Eligible Pathways List


QIAGEN Ingenuity Pathway Analysis (IPA) | Canonical Pathways that are currently eligible for Pathway Activity Analysis

IPA Technical Requirements


QIAGEN Ingenuity Pathway Analysis (IPA) | IPA Technical Requirements

PathTracer


QIAGEN Ingenuity Pathway Analysis (IPA) | PathTracer

Brief IPA help overview


QIAGEN Ingenuity Pathway Analysis (IPA) | Guide to the key help articles for QIAGEN IPA

Analysis Summary Page


QIAGEN Ingenuity Pathway Analysis (IPA) | Analysis Summary Page

Searching for pathways associated with a gene


How do I search for pathways associated with a gene?

Species Filter


Compare Data


QIAGEN Ingenuity Pathway Analysis (IPA) | Compare data tool

Cuffdiff file import


QIAGEN Ingenuity Pathway Analysis (IPA) | Uploading Cuffdiff RNA-Seq files as datasets in IPA

Canonical Pathway


QIAGEN Ingenuity Pathway Analysis (IPA)

Text Tool


Mechanistic Networks


Mechanistic Networks

Batch Upload


QIAGEN Ingenuity Pathway Analysis (IPA) | How to upload multiple datasets as a batch

Pre-Analysis Filtering


Description of the filters available to pre-filter a Core Analysis

Upstream Regulator Analysis


QIAGEN Ingenuity Pathway Analysis (IPA) | More info link for URA master table

Causal Networks


QIAGEN Ingenuity Pathway Analysis (IPA) | Advanced Analytics - Generate virtual upstream regulators which are networks of regulators

Accessing and Using Downstream Effects Analysis


QIAGEN Ingenuity Pathway Analysis (IPA)

IsoProfiler Findings


QIAGEN Ingenuity Pathway Analysis (IPA) | Examine the detailed relationships between isoforms (splice variants) and known diseases and functions.

Reviewing Mapped Identifiers


QIAGEN Ingenuity Pathway Analysis (IPA)

Molecule View


QIAGEN Ingenuity Pathway Analysis (IPA) | Description of the molecule tab in Core Analysis

Tox List


QIAGEN Ingenuity Pathway Analysis (IPA)

Creating a Dataset


QIAGEN Ingenuity Pathway Analysis (IPA)

Can I use more than one identifier type?


QIAGEN Ingenuity Pathway Analysis (IPA) | IPA can accept a dataset file that contains more than one identifier type, either in one column or in multiple columns.

Collaboration Workspace CWS


QIAGEN Ingenuity Pathway Analysis (IPA)

Using Lists


Human Isoforms View Tutorial


QIAGEN Ingenuity Pathway Analysis (IPA)

IPA-Tox Analysis Workflow


QIAGEN Ingenuity Pathway Analysis (IPA)

microRNA Target Filter Workflow


QIAGEN Ingenuity Pathway Analysis (IPA) | How to use the microRNA Target Filter in IPA

IPA installer


QIAGEN Ingenuity Pathway Analysis (IPA) | How to use the IPA client installer

Cache


QIAGEN Ingenuity Pathway Analysis (IPA)

Legend Tool


QIAGEN Ingenuity Pathway Analysis (IPA) | Describes how to add a legend to a Path Designer pathway

Listing of Networks


QIAGEN Ingenuity Pathway Analysis (IPA) | Listing of Networks

Analyzing Genomic Regions from UCSC Genome Browser


QIAGEN Ingenuity Pathway Analysis (IPA)

Biomarkers


QIAGEN Ingenuity Pathway Analysis (IPA)

Comparing Biomarkers


QIAGEN Ingenuity Pathway Analysis (IPA)

Publication Date Range Filter


QIAGEN Ingenuity Pathway Analysis (IPA)

Connectivity filter


QIAGEN Ingenuity Pathway Analysis (IPA) | Filter used to identify nodes on pathways with a certain number of connections to other nodes on the pathway or network

Disease Filter


QIAGEN Ingenuity Pathway Analysis (IPA)

Biofluids Filter


QIAGEN Ingenuity Pathway Analysis (IPA)

Relationship Types Filter


QIAGEN Ingenuity Pathway Analysis (IPA)

Biomarker Filter


QIAGEN Ingenuity Pathway Analysis (IPA)

Tissue and Cell Line Filter


QIAGEN Ingenuity Pathway Analysis (IPA)

Data Source Filter


QIAGEN Ingenuity Pathway Analysis (IPA)

Can I suggest articles and findings to add?


Can I suggest articles and findings to add to IPA?

microRNA Target Filter FAQ


QIAGEN Ingenuity Pathway Analysis (IPA) | FAQs about the microRNA Target Filter

Shared With Others


QIAGEN Ingenuity Pathway Analysis (IPA)

FAQ - Ingenuity Knowledge Base


Description of the QIAGEN Knowledge Base used by IPA

Mutation Filter


QIAGEN Ingenuity Pathway Analysis (IPA) | Mutation Filter in networks

Core, Tox and Metabolomics Comparison Analysis


QIAGEN Ingenuity Pathway Analysis (IPA)

Node Overlay filter


Describes the filter that is used in certain overlay and build tools

How can I share data with others?


How can I share data with others?

IPA Network Generation Algorithm


QIAGEN Ingenuity Pathway Analysis (IPA)

Interpreting Functional Analysis Results


NGS RNA Sequencing


QIAGEN Ingenuity Pathway Analysis (IPA)

How do I add my own custom genes and connections?


QIAGEN Ingenuity Pathway Analysis (IPA) | How do I add my own custom genes and connections?

Upstream Regulators Analysis Tutorial


QIAGEN Ingenuity Pathway Analysis (IPA)

Contact Technical Support


QIAGEN Ingenuity Pathway Analysis (IPA) | How to contact customer support for technical questions on IPA

How can I find research papers on a given topic?


How can I find research papers on a given topic?

Graphical Summary


Summary of key results from an IPA Core Analysis presented as a network

Grow


QIAGEN Ingenuity Pathway Analysis (IPA)

Mechanistic Network Viewer


QIAGEN Ingenuity Pathway Analysis (IPA)

Analysis Results Tutorial 2


Exporting Molecule Lists


QIAGEN Ingenuity Pathway Analysis (IPA)

How to Investigate The Predictions in the Heat Map


QIAGEN Ingenuity Pathway Analysis (IPA)

Filtered and Annotated Datasets


QIAGEN Ingenuity Pathway Analysis (IPA) | How to filter and use a filtered dataset

My file won’t open/upload correctly. What should I do?


My file won’t open/upload correctly. What should I do?

Add Molecules and Relationships


QIAGEN Ingenuity Pathway Analysis (IPA)

List Analysis


Molecules in Path Designer


QIAGEN Ingenuity Pathway Analysis (IPA)

Molecule Types Filter


QIAGEN Ingenuity Pathway Analysis (IPA)

Molecules


QIAGEN Ingenuity Pathway Analysis (IPA)

Exporting References


QIAGEN Ingenuity Pathway Analysis (IPA)

Network Explorer Toolbar


QIAGEN Ingenuity Pathway Analysis (IPA) | Pathway and Network View tool bar

Displaying Info from Gene Ontology


QIAGEN Ingenuity Pathway Analysis (IPA)

Cell Art


QIAGEN Ingenuity Pathway Analysis (IPA) | Description of the Cell Art tool of Path Designer

Line and Relationship Tool


QIAGEN Ingenuity Pathway Analysis (IPA)

View/Edit Preferences


QIAGEN Ingenuity Pathway Analysis (IPA)

Graph Preferences


QIAGEN Ingenuity Pathway Analysis (IPA)

IPA Toolbar Menus


QIAGEN Ingenuity Pathway Analysis (IPA)

Downstream Effect Analysis: Evidence for Effect


More info link for Downstream Effect Analysis Evidence for Effect

IPA Content Updates


IPA Content Updates

IPA Integration Module


Network Toolbar legend


QIAGEN Ingenuity Pathway Analysis (IPA) | Network Toolbar legend

Network Explorer Tool


Networks View

Trim and Keep


My Pathway


QIAGEN Ingenuity Pathway Analysis (IPA)

Molecule Summary


QIAGEN Ingenuity Pathway Analysis (IPA) | Preview of basic information about a molecule

Minimum and maximum expression value representation in IPA


How IPA calculates a minimum and maximum expression value for: 1. Node coloring 2. Histogram (mini bar chart) 3. Isoform overlay coloring

Overlapping Network


QIAGEN Ingenuity Pathway Analysis (IPA) | An overview of Overlapping Networks

Annotations


QIAGEN Ingenuity Pathway Analysis (IPA)

Managing Invitations


QIAGEN Ingenuity Pathway Analysis (IPA)

Filter Preferences


QIAGEN Ingenuity Pathway Analysis (IPA)

Disease or Function View


QIAGEN Ingenuity Pathway Analysis (IPA)

Emailing Interactive Pathways


QIAGEN Ingenuity Pathway Analysis (IPA)

Pathway Report


QIAGEN Ingenuity Pathway Analysis (IPA)

Merged Network


QIAGEN Ingenuity Pathway Analysis (IPA)

Can I do an analysis with a list of genes only?


Can I do an analysis with a list of genes only?

Layout Options


Choose different ways to arrange nodes on a network or a my pathway

Background


Gene Heatmap


QIAGEN Ingenuity Pathway Analysis (IPA) | A heatmap for gene expression available inside Comparison Analysis

Isoforms View


QIAGEN Ingenuity Pathway Analysis (IPA) | Isoform view on Gene Views

Running-IPA-on-Mac


QIAGEN Ingenuity Pathway Analysis (IPA) | This article is about running IPA on a Mac. FAQ, Caches and Version of Mac OS and Java

Exporting Images


QIAGEN Ingenuity Pathway Analysis (IPA)

How Upstream Regulator Analysis Can Help You


IPA on Windows


Running IPA on Windows

Highlight


Obsolete, please see Highlight or Select

Metadata keys used in IPA


Description of the existing metadata keys you can use in IPA to annotate your own datasets

Introduction to IPA Functional Analysis


BioProfiler


QIAGEN Ingenuity Pathway Analysis (IPA) | Advanced Analytics BioProfiler

What are the guidelines for citing IPA in publications?


IPA-Tox Analysis Overview


FAQ - microRNA


FAQs on the miRNA targeting relationships in IPA

Overlapping Canonical Pathways


QIAGEN Ingenuity Pathway Analysis (IPA)

File Format Specification for Uploading Data with Experimental Metadata into IPA


QIAGEN Ingenuity Pathway Analysis (IPA) | Experimental Metadata Specifications

Grow to Diseases and Functions


QIAGEN Ingenuity Pathway Analysis (IPA) | Grow to Diseases and Functions

What kind of data should I have?


What kind of data should I have?

How are networks calculated?


How are networks calculated?

Interpreting the Upstream Regulator Results


Ratio Calculations for Pathways


QIAGEN Ingenuity Pathway Analysis (IPA)

High Resolution IPA Legend


High Resolution Images of IPA Legend

FAQ - Causal Network Analysis


QIAGEN Ingenuity Pathway Analysis (IPA)

Please select one of the sub categories under Uploading and Analyzing Data


A comprehensive set of feature descriptions is available in the sub categories under Uploading and Analyzing Data. Select the topic you are interested in and the list of available articles will appear in this space.

IPA Glossary


QIAGEN Ingenuity Pathway Analysis (IPA)

Visualize Pathways Tutorial


QIAGEN Ingenuity Pathway Analysis (IPA)

Upload and Analyze Example Data Tutorial


QIAGEN Ingenuity Pathway Analysis (IPA)

Core Analysis Setup


Description of how to set up a Core Analysis

Tox Lists


QIAGEN Ingenuity Pathway Analysis (IPA)

How many genes are up or down regulated in a pathway?


QIAGEN Ingenuity Pathway Analysis (IPA) | How many genes are up-or-down-regulated in a pathway?

upload-analyze-your-data-tutorial


QIAGEN Ingenuity Pathway Analysis (IPA)

Advanced Settings


QIAGEN Ingenuity Pathway Analysis (IPA) | Describes the Advanced Settings available to customize a Core Analysis

IsoProfiler


QIAGEN Ingenuity Pathway Analysis (IPA) | IsoProfiler displays and enables filtering on transcripts & isoforms in your RNA-seq dataset(s)

Relationships


QIAGEN Ingenuity Pathway Analysis (IPA)

Formatting Your Dataset


QIAGEN Ingenuity Pathway Analysis (IPA)

Analyzed Dataset


QIAGEN Ingenuity Pathway Analysis (IPA) | How to Overlay Analyses, Datasets, and Lists

Function and Disease


QIAGEN Ingenuity Pathway Analysis (IPA)

FAQ - Analysis Match


QIAGEN Ingenuity Pathway Analysis (IPA)

Regulator Effects


Regulator Effects

Core Analysis Types


Description of the types of Core Analysis types you can run in IPA

Pathway Activity Overlay


QIAGEN Ingenuity Pathway Analysis (IPA) | Pathway Activity Overlay (part of Pathway Activity Analysis performed within a core analysis)

Gene View, Disease or Function View, Chem View


Gene view Disease or Function view Chem view

Connect


QIAGEN Ingenuity Pathway Analysis (IPA)

Identifier and Gene Model Source Versions


QIAGEN Ingenuity Pathway Analysis (IPA) | The versions of the identifier and gene model databases used in IPA currently

Path Explorer


QIAGEN Ingenuity Pathway Analysis (IPA) | Path Explorer

Gene Expression Tutorial 1


QIAGEN Ingenuity Pathway Analysis (IPA) | Walkthrough on how to upload and interpret expression data in IPA with practical examples.

How to Chart Diseases and Functions Comparison Data in Excel


QIAGEN Ingenuity Pathway Analysis (IPA)

Comparison analysis heat map for causal networks


QIAGEN Ingenuity Pathway Analysis (IPA)

Comparison analysis heat map for Diseases and Functions


QIAGEN Ingenuity Pathway Analysis (IPA) | Comparison Analysis heat map for Disease and Functions

Comparison analysis heat map for upstream analysis


QIAGEN Ingenuity Pathway Analysis (IPA) | Comparison analysis heat map for upstream analysis

Comparison analysis heat map for canonical pathways


QIAGEN Ingenuity Pathway Analysis (IPA) | Comparison analysis heat map for canonical pathways

How to Chart Comparison Analysis Using Excel


QIAGEN Ingenuity Pathway Analysis (IPA)

Data Upload workflow


QIAGEN Ingenuity Pathway Analysis (IPA) | Data Upload workflow

Core, Tox and Metabolomic Analyses


QIAGEN Ingenuity Pathway Analysis (IPA)

Show Java Console for IPA


How to show Java Console on PC and Mac

Defining the Reference Set


Visually Relating to my Data


How do I visually relate this to my own data?

IPA Activity Plot


QIAGEN Ingenuity Pathway Analysis (IPA) | Plot of the predicted activity of one entity across >100,000 OmicSoft analyses. Entities include Canonical Pathways, Upstream Regulators / Causal Network master regulators, and Diseases and Functions.

What is IPA and how can it help your research?


QIAGEN Ingenuity Pathway Analysis (IPA) | Brief overview of QIAGEN IPA

Pattern Search


QIAGEN Ingenuity Pathway Analysis (IPA) | How to search the OmicSoft expression collection using a network or pathway gene pattern

Analyzing Metabolomics data in IPA


Summary on how to format, upload, and analyze metabolomics data in IPA

Analyzing phosphoproteomics data in IPA


Summary on how to upload and analyze phosphoproteomics data in IPA

Overlay Analyses, Datasets, and Lists


How to use the Overlay Analyses, Datasets and Lists feature.

IPA Legend


QIAGEN Ingenuity Pathway Analysis (IPA) | Describes the tool bar icons, colors, and more in IPA

Pathway and Network Explorer Toolbar


Phosphorylation Analysis


Core Analysis of a phosphorylation dataset

Specialized Features index


Publication Guidelines


QIAGEN Ingenuity Pathway Analysis (IPA)

Pathway Filtering


QIAGEN Ingenuity Pathway Analysis (IPA) | Description of the filters used in Build tools

Exploring relationships among molecules, diseases, functions, and more


Overview of the ways in which you can visually explore the curated information in IPA

Ingenuity Inferred Networks


QIAGEN Ingenuity Pathway Analysis (IPA) | Description of networks built with machine learning and other techniques

Export All Analysis Results


QIAGEN Ingenuity Pathway Analysis (IPA) | Export All

Canonical Pathways Overview


An Overview of the Canonical Pathways in IPA

My List


My Pathway (Tool)


Reference set array platforms


Reference Set Array platforms in IPA

ChemView


IPA Network Generation Algorithm Whitepaper


QIAGEN Ingenuity Pathway Analysis (IPA) | Whitepaper Link

Inhibited phosphoproteins


Functional Categories Definitions


Canonical Pathways for Comparisons


Upstream Regulator Analysis Evidence for Effect


QIAGEN Ingenuity Pathway Analysis (IPA)

Ingenuity Knowledge Base


QIAGEN Ingenuity Pathway Analysis (IPA)

Right Click Menu


QIAGEN Ingenuity Pathway Analysis (IPA)

Creating and Saving My Lists


Shared With Me


Clustering of miRNA in IPA


What other tools does IPA work with?


What other tools does IPA work with?

Confidence Level Filter - microRNA


Spotfire Integration with IPA


QIAGEN Ingenuity Pathway Analysis (IPA)

Printing


Biomarker Definition


How can Functional Analysis help you


SNP Content


Variant gain loss and ACMG classification


Importing and using variant loss/gain and ACMG classification datasets

FAQ - Statistical Calculation


QIAGEN Ingenuity Pathway Analysis (IPA)

Tox Functions


QIAGEN Ingenuity Pathway Analysis (IPA)

Biomarker Analysis


QIAGEN Ingenuity Pathway Analysis (IPA)

Using the Overlay tool to view and interpret phosphosite-specific changes


Summary of how to use the Overlay tool to view how phosphosites affect the biology of your experiment.

Related-analyses-heatmap


A heatmap displaying signatures created with Analysis Match

Analyzing microRNA (miRNA) expression data


QIAGEN Ingenuity Pathway Analysis (IPA) | Article providing guidance on analyzing miRNA datasets in IPA

Exploring Upstream Regulators Results in a Pathway


QIAGEN Ingenuity Pathway Analysis (IPA)

Drug


QIAGEN Ingenuity Pathway Analysis (IPA)

Analyzing proteomics data


Summary on how to upload and analyze proteomics data in IPA

Analyzing Variant Loss/Gain datasets


QIAGEN Ingenuity Pathway Analysis (IPA) | Summary on how to upload, analyze, and interpret Variant Loss/Gain or ACMG variant data in IPA, with links to videos and more.

Path Designer Workflow Overview


QIAGEN Ingenuity Pathway Analysis (IPA)

Why do cancer-related diseases and functions appear as significant for so many different analyses in IPA?


QIAGEN Ingenuity Pathway Analysis (IPA)

Overlay Subcellular Location


QIAGEN Ingenuity Pathway Analysis (IPA) | How to discover enriched subcellular locations for molecules on networks and pathways

My Pathways


Overview of My Pathways

What species identifiers are accepted for analysis by IPA?


What species identifiers are accepted for analysis by IPA?