Content Sources

QIAGEN’s Ingenuity Knowledge Base is updated regularly to include the most up-to-date published information. It includes data from a wide range of published biomedical literature, textbooks, reviews, internally curated knowledge, and a variety of trusted third party sources and databases.

The information is organized into the following categories:

  • Expert Findings
  • ExpertAssist Findings
  • Expert Knowledge
  • Supported Third Party Information

Expert Findings

Expert Findings are experimentally demonstrated Findings that are manually curated and reviewed from the full-text of articles in top journals for accuracy and contextual details. Ph.D. scientists, who follow a strict content extraction protocol to ensure inclusion of contextual details, model these Findings.

  • Findings from ~300 top journals are curated from the full text, including tables and figures
  • Supports computation and answering in-depth biological questions in the relevant context
  • Weekly updates keep information fresh and up-to-date

ExpertAssist Findings

ExpertAssist Findings are manually reviewed, automatically extracted Findings from the abstracts of a broad range of recently published biomedical journals. The extraction protocol is modeled on the same process used by our Expert Findings. Additionally, the information is manually reviewed before import into the Knowledge Base. This means that unlike other automatic approaches, QIAGEN’s Ingenuity ExpertAssist Findings maintain a very high level of quality, have proper synonym resolution, capture both contextual details and broad functional relationships, and are computationally accessible.

  • Weekly updates capture information published from the prior week’s publications
  • Includes Findings from ~3600 journals
  • Supports computation and answering in-depth biological questions in the relevant context

Expert Knowledge

Expert Knowledge content includes knowledge such as signaling and metabolic pathways, drug/target/disease relationships, toxicity lists, and more. An in-house team of experts manually curates this information and updates the models as needed with this information.

Supported Third Party Information

Supported Third Party Information is manually reviewed content from selected sources and databases. This includes findings and annotations from major NCBI databases (EntrezGene, RefSeq, OMIM disease associations), targets and pharmacological relevance of FDA approved and clinical trial drugs, clinical biomarkers, Gene Ontology annotations, a normal gene expression body atlas for over 30 tissues and the NCI-60 panel of cancer cell lines, microRNA-mRNA target databases, GWAS databases, and LIGAND metabolic pathways and reactions. The sources include:

  • Entrez Gene
  • RefSeq
  • OMIM
  • ClinVar
  • GWAS Database
  • Gene Ontology
  • Human Metabolome Database (HMDB)
  • GNF Tissue Expression Body Atlas
  • NCI-60 Cell Line Expression Atlas
  • LIGAND enzyme/substrate reactions
  • BIND, DIP, MINT, MIPS, BIOGRID, INTACT, COGNIA protein-protein interactions (updated)
  • TarBase
  • TargetScan
  • miRecords
  • Mosby’s Drug Consult
  • Goodman & Gilman’s ‘Pharmacological Basis of Therapeutics’
  • DrugBank
  • Hazardous Substance Database (HSDB)
  • Chemical Carcinogenesis Research Information System database (CCRIS)

There is also some specialized content in the Ingenuity Knowledge Base.

There is also some specialized content in QIAGEN’s Ingenuity Knowledge Base. Information on thousands of compounds, including endogenous chemicals, metabolites, FDA-approved drugs and clinical candidates, and exogenous chemicals and toxicants are available. For a list of the types of compounds,  click here. Therapeutically relevant knowledge can be integrated into the application allowing researchers to understand and visualize the biological impact of these compounds. The Knowledge Base features a large collection of information from the molecular toxicology literature describing the pharmacological and toxicological effects of chemicals in vitro and in vivo. For examples of toxicity pathways and lists available, click here.