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Announcing ROSALIND v3.15

We’re thrilled to announce the added capabilities in our latest ROSALIND update to v3.15, including expanded COVID-19 support and resources, as well as significant enhancements to our Pathway interpretation engine.

What's new in the COVID-19 Community?

The SARS-CoV-2 genome is available for new experiments and to support the work within the COVID-19 Community Space. Much of our focus these past few months has been to further facilitate the analysis and discovery into the viral gene expression of SARS-CoV-2. Many of the recent NCBI public data submissions with SARS-CoV-2 samples and COVID-19 patients have already been processed and added to the Community Space.

ROSALIND Pathways has added a new Virology category and collection of Knowledge Bases to enhance COVID-19 research. New entries include Pathogen-Host Interactome (P-HIPSTer) and GEO Virus Perturbations. Insights from the new Virology Collection can be added to all existing experiments by simply adding a new filter, or comparison.

Learn more about the COVID-19 Community at this link: https://www.onramp.bio/blog/coronavirus

 

Enhanced Pathway Interpretation

Pathway interpretation has been upgraded now with over 50 Knowledge Bases and up-to-date versions of every database available. New categories intelligently group and organize each Knowledge Base into categories that streamline exploration and focus research, including:  Pathways, MSigDB Pathway Collection, Oncology & Immunology, Transcription & Regulation, Diseases, Drugs, Virology, Ontology Collection, Cell Types & Tissues and Protein Collection. Additionally, the Ontology Collection now features Advanced Pruning (Elim) to eliminate largely redundant terms.

Some of the Knowledge Bases now available include:
  • Pathways: WikiPathways, BioPlanet, Reactome, Panther, BIOCYC, Pathway Interaction Database, and the Small Molecule Pathway Database
  • MSigDB Pathway Collection: Hallmark, Chemical and Genetic Perturbations,  MSigDB-Reactome, MSigDB-BioCarta, MSigDB-Protein Interaction Database
  • Oncology & Immunology (MSigDB): Cancer Gene Neighborhoods, Cancer Modules, Oncogenic Signatures, Immunological Signatures, COSMIC
  • Transcription & Regulation: MSigDB-Transcription Factor Targets, JASPAR-Transcription Factor Targets, TRRUST-Transcriptional Regulatory Networks, miRNA Targets, miRNA Target Interactions, miRNA Target Predictions, and Chromosome Location
  • Diseases: ClinVar, PheWeb, GWAS, DisGeNet, Jensen Diseases
  • Drugs: FDA Approved Drugs (DSigDB), Kinase Inhibitors (DSigDB), BROAD Connectivity Map (DSigDB), Computational Drug Signatures (DSigDB), Guide to Pharmacology, Drug-Gene Interaction Database, Drug Matrix - Toxicogenomics Gene Signatures
  • Virology: P-Hipster - Pathogen-Host Interactome, GEO - Virus Perturbations (Up & Down)
  • Ontology Collection: Human Phenotype Ontology, Biological Processes, Molecular Functions and Cellular, Molecular Functions and Cellular Component, GO Molecular Function (MSigDB), GO Biological Processes (MSigDB), and GO Cellular Component (MSigDB) - Note that Advanced Pruning is now available (p-Elim) to eliminate largely redundant terms in Gene Ontology
  • Cell Types & Tissues: Human Cell Atlas
  • Protein Collection: Protein-Protein Interactions, Interpro, Pfam, SMART, GENE3D, and Prosite

For new users, you can choose the right plans for your team from our online catalog (https://rosalind.onramp.bio/store/catalog), sign up for a Scientist Trial or learn more about Enterprise Subscription Plans by contacting us here: https://www.onramp.bio/contact-us

 

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