title: GeneAnalytics: An Integrative Gene Set Analysis Tool for Next Generation Sequencing, RNAseq and Microarray Data.
abstract: Postgenomics data are produced in large volumes by life sciences and clinical applications of novel omics diagnostics and therapeutics for precision medicine. To move from "data-to-knowledge-to-innovation," a crucial missing step in the current era is, however, our limited understanding of biological and clinical contexts associated with data. Prominent among the emerging remedies to this challenge are the gene set enrichment tools. This study reports on GeneAnalytics™ ( geneanalytics.genecards.org ), a comprehensive and easy-to-apply gene set analysis tool for rapid contextualization of expression patterns and functional signatures embedded in the postgenomics Big Data domains, such as Next Generation Sequencing (NGS), RNAseq, and microarray experiments. GeneAnalytics' differentiating features include in-depth evidence-based scoring algorithms, an intuitive user interface and proprietary unified data. GeneAnalytics employs the LifeMap Science's GeneCards suite, including the GeneCards®--the human gene database; the MalaCards-the human diseases database; and the PathCards--the biological pathways database. Expression-based analysis in GeneAnalytics relies on the LifeMap Discovery®--the embryonic development and stem cells database, which includes manually curated expression data for normal and diseased tissues, enabling advanced matching algorithm for gene-tissue association. This assists in evaluating differentiation protocols and discovering biomarkers for tissues and cells. Results are directly linked to gene, disease, or cell "cards" in the GeneCards suite. Future developments aim to enhance the GeneAnalytics algorithm as well as visualizations, employing varied graphical display items. Such attributes make GeneAnalytics a broadly applicable postgenomics data analyses and interpretation tool for translation of data to knowledge-based innovation in various Big Data fields such as precision medicine, ecogenomics, nutrigenomics, pharmacogenomics, vaccinomics, and others yet to emerge on the postgenomics horizon.
authors.affiliation: 1 LifeMap Sciences Ltd. , Tel Aviv, Israel .
authors.forename: Shani
authors.initials: S
authors.lastname: Ben-Ari Fuchs
authors.affiliation: 1 LifeMap Sciences Ltd. , Tel Aviv, Israel .
authors.forename: Iris
authors.initials: I
authors.lastname: Lieder
authors.affiliation: 1 LifeMap Sciences Ltd. , Tel Aviv, Israel .|2 Molecular Genetics, Weizmann Institute of Science , Rehovot, Israel .
authors.forename: Gil
authors.initials: G
authors.lastname: Stelzer
authors.affiliation: 1 LifeMap Sciences Ltd. , Tel Aviv, Israel .
authors.forename: Yaron
authors.initials: Y
authors.lastname: Mazor
authors.affiliation: 3 Institute of Oncology, Sheba Medical Center , Tel Hashomer, Israel .
authors.forename: Ella
authors.initials: E
authors.lastname: Buzhor
authors.affiliation: 1 LifeMap Sciences Ltd. , Tel Aviv, Israel .
authors.forename: Sergey
authors.initials: S
authors.lastname: Kaplan
authors.affiliation: 4 Surgical Department, Sourasky Medical Centre , Tel Aviv, Israel .
authors.forename: Yoel
authors.initials: Y
authors.lastname: Bogoch
authors.affiliation: 1 LifeMap Sciences Ltd. , Tel Aviv, Israel .
authors.forename: Inbar
authors.initials: I
authors.lastname: Plaschkes
authors.affiliation: 2 Molecular Genetics, Weizmann Institute of Science , Rehovot, Israel .
authors.forename: Alina
authors.initials: A
authors.lastname: Shitrit
authors.affiliation: 2 Molecular Genetics, Weizmann Institute of Science , Rehovot, Israel .
authors.forename: Noa
authors.initials: N
authors.lastname: Rappaport
authors.affiliation: 5 LifeMap Sciences, Inc. , Marshfield, Massachusetts, USA .
authors.forename: Asher
authors.initials: A
authors.lastname: Kohn
authors.affiliation: 6 Venividi Solutions LLC , Rockville, Maryland, USA .
authors.forename: Ron
authors.initials: R
authors.lastname: Edgar
authors.affiliation: 1 LifeMap Sciences Ltd. , Tel Aviv, Israel .
authors.forename: Liraz
authors.initials: L
authors.lastname: Shenhav
authors.affiliation: 2 Molecular Genetics, Weizmann Institute of Science , Rehovot, Israel .
authors.forename: Marilyn
authors.initials: M
authors.lastname: Safran
authors.affiliation: 2 Molecular Genetics, Weizmann Institute of Science , Rehovot, Israel .
authors.forename: Doron
authors.initials: D
authors.lastname: Lancet
authors.affiliation: 5 LifeMap Sciences, Inc. , Marshfield, Massachusetts, USA .
authors.forename: Yaron
authors.initials: Y
authors.lastname: Guan-Golan
authors.affiliation: 5 LifeMap Sciences, Inc. , Marshfield, Massachusetts, USA .
authors.forename: David
authors.initials: D
authors.lastname: Warshawsky
authors.affiliation: 7 Bonus BioGroup Ltd., Haifa, Israel .
authors.forename: Ronit
authors.initials: R
authors.lastname: Shtrichman
mesh_terms: D000465:Algorithms; D019295:Computational Biology / Q000379:methods*; D057225:Data Mining; D016208:Databases, Factual; D030541:Databases, Genetic; D053263:Gene Regulatory Networks; D015894:Genome, Human; D059014:High-Throughput Nucleotide Sequencing / Q000706:statistics & numerical data*; D006801:Humans; D053858:Metabolic Networks and Pathways / Q000235:genetics; D046228:Microarray Analysis / Q000706:statistics & numerical data*; D012984:Software