Single Cell Gene Expression
Gene Expression: RNA-seq
A complete guide to RNA-seq data analysis
NanoString: Gene, miRNA & Protein Expression
A complete guide to NanoString nCounter data analysis and collaboration
Gene Regulation & Anti-Sense: Small RNA-seq
Small RNA-seq data analysis designed for the biologist
Histone Mark & Transcription Factor: ChIP-seq
Comprehensive ChIP-seq data analysis
Chromatin Accessibility: ATAC-Seq
Sharing & Collaboration
Accelerate teamwork by connecting experts and datasets anywhere in the world
Knowledge Graph and Search
ROSALIND DxM uniquely empowers rapid, ongoing in-silico and in-vitro analysis against the latest viral variants
Developed in collaboration with the National Institutes of Health RADx Tech Initiative and the National Institute of Biomedical Imaging and Bioengineering
Supports PCR, LAMP, FISH, Antigen and CRISPR assays
Integrates BioBank sample management and wet-lab verification, including optimized sample selection based on mutation, incident or clinical trial
Explore the impact of nucleotide, amino acid, and protein changes
International sequence data enabled by GISAID
ROSALIND DxM enables a consistent, repeatable process to test any diagnostic test against viral variants
Bioinformatic pipelines and melting temperature algorithms developed and tuned in collaboration with the FDA
Updates daily with global sequence data for all tracked diagnostic incidents
Provides actionable data to refine the development of diagnostic tests
Facilitates multi-site collaboration with secure data sharing
Streamline regulatory submissions and requests for variant validation
Setup new diagnostic tests and review detailed incident reports within minutes
Supports PCR, Antigen, LAMP, FISH and CRISPR-based diagnostic tests
Enables secure entry and encryption of assay parameters such as primer sequences, oligos and guide RNAs
Integration of the Open COVID-19 primers and probes enables immediate exploration of incidents with these public tests
Detailed readme and configuration files streamline test setup and modification
The Incident Table summarizes all incident mismatch events using consistent severity scoring and dynamic filters to focus on the most significant variants of concern
Incidents are ranked by severity and frequency
The severity score evaluates multiple factors, including number of nucleotide changes, any insertions or deletions, change in melting temperature as well as incident frequency and ranges from 0 (low) to 5 (high)
A 30, 60 and 90-day view shows incident frequency as a percentage and count
Adjust severity and frequency sliders to filter and focus on incidents of interest
Toggle geographic regions to explore coverage and incident events based on geographic sequence variations
Rapidly sort results by clicking any column or dragging to resize and reorder columns
Click on any incident to open incident details for trends and strain level insights.
Incident Detail summarizes trended frequency data with severity metrics and the lineage evolution
Visualize and explore trends with the interactive plot while recording status changes, investigating severity and ultimately requesting wet-lab verification
Displays the estimated change in melting temperature between the primer and incident sequences
Depending on security parameters, displays incident strain mapping and mismatches to the diagnostic test
Integration with the RADx BioBank or other private sample and sequence repositories enables targeted sample and pool-based variant verification
Investigate mismatch incidents from in silico analyses and verify directly in the wetlab
Record results in triplicate with tracked audit trails
Two-step approval and verification for results
The graph-accelerated genome browser uniquely empowers instant visualization and deep exploration of any mutation or diagnostic test
Rapidly inspect primer regions and the frequency of viral mutations to identify risks and potential areas of greater stability
Adjust reference parameters to focus timeframe and geography
Enter any mutation, amino acid change, lineage, clade or geography on the comparison track to study the rapid viral evolution
Display user-entered or public tests and rapidly navigate to areas of interest
Jump to any viral gene and zoom in/out to introspect key trends and mutations
"We understood right from the start that diagnostic manufacturers and agencies needed an intuitive platform where they could define their tests and immediately detect potential issues against all available sequence data."
ROSALIND DxM provides an intuitive user interface that does not require specialist training in bioinformatics
ROSALIND DxM is continuously updated with the latest strain sequences and performs queries against diagnostic reagents daily to identify potential risks
Whenever an incident of potential impact to test reagents is identified, ROSALIND DxM automatically alerts key stakeholders as defined by the administrator
Dashboards allow for high-level assessment of all risk incidents for a given set of reagents and then drill into incidents to understand them in detail and learn how to design around them
Company administrators control who has access to information on test reagents within DxM
Built-in pipelines are tuned to utilize industry standard, widely published bioinformatics tools. For more information, review the ROSALIND specifications and method section
Every communication and data transfer on ROSALIND is encrypted and secured. Multiple layers of data protection ensure availability
What types of diagnostic tests are covered by the SARS-CoV-2 DxM Portal?
The DxM Portal supports most nucleic-acid and antigen based tests for SARS-CoV-2, including PCR, LAMP, FISH, Antigen and CRISPR tests.
What is required to set up the DxM to monitor my primer/probe sequence?
Simply sign up for a DxM subscription and upload key details of your assay. The DxM will then begin automatically monitoring for incidents that may impact the performance of your assay.
How will I know if the DxM identifies an issue with my assay/reagents?
The DxM is an automated monitoring system. When a new risk is identified, it generates an automated text and/or email alert to notify all stakeholders that are defined by the assay manufacturer. The DxM also provides access to reports and dashboards summarizing potential issues.
Who is notified when a potential issue with my reagents is identified?
Diagnostic manufacturers control who has access to information and alerts about their tests. Information will only be shared with those designated by the manufacturer and any associated agreements.
How does the DxM Portal evaluate the risk that primer/probe annealing will be impacted by a variant (or collection of variants)?
The DxM performs daily queries of primer/probe sequences against our growing database of variants and calculates the change in predicted annealing temperature between the perfect match and variant sequences.
What if wet lab testing shows that a predicted risk does NOT actually impact the performance of the assay?
The DxM enables diagnostic manufacturers to add information on wet-lab testing to augment the assessment of risks. If a risk is identified in silico and shown to be a non-issue via wet lab testing, users can enter this information and it will be reflected in DxM reports and dashboards.
How do I know that proprietary details of my assay will not be divulged to other parties?
ROSALIND’s cloud infrastructure conforms to multiple industry standards to ensure data privacy and security including FAIR and HIPAA. A central design principle for the DxM is the ability for assay manufacturers to control who has access to information about their assay.
How do I get access to the SARS-CoV-2 DxM?
You may purchase a subscription directly from ROSALIND to gain access to the DxM.
Schedule a briefing with our team to learn how DxM can help manage risks associated with COVID variants