
Repurposing Hub Assay Results Viewer
The Repurposing Hub Data Portal was developed as the go-to place to view and access data from screening campaigns that use the Broad Institute Repurposing Hub open-access collection. Results will be submitted by collaborators working directly with the Broad Institute’s Center for the Development of Therapeutics. These data can be sorted and filtered by the Repurposing Hub characteristics; target, clinical phase, disease area, and MOA as well as the assay descriptors for; assay format, assay method, detection method, and gene symbol. The combination of these two data resources creates a dynamic tool that allows researchers to mine all Hub collaborators’ data and enable access to data for more advanced analyses.
For additional details, please see belowD-Score Significance
Screening assay results are calculated using a Pipeline Pilot implementation of a procedure developed by Paul Clemons and his research group [PMID:24464433]. This specific implementation was developed by Paul Clemons, Joshua Bittker, Karen Emmith, and Joshua Sacher. Screening assay results report the D-score, which is a dimensionless z-score-like measure of significance, based on the effect size, and normalized by appropriately weighted variance contributions across replicates.
BARD Ontology
BioAssay Research Database [PMID:25477388] Ontology – Developed as part of the public repository of the NIH Molecular Libraries Program, the ontology is a curated, consistent vocabulary that includes a standard representation and common language for organizing bioassays and their results. This curation enables systematic, cross-assay analysis of datasets regardless of the identity of the contributing center or individual data submitter. BARD uses a controlled vocabulary specifically developed to describe assay protocols.
How to Use
The Repurposing Assay Results Viewer will display D-Score results for all Repurposing Hub compounds as presented in a heat map grid format using the Morpheus visualization tool developed by Joshua Gould at the Broad Institute.
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Assays
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Selecting Assays
Assays are listed by name along the top of the visualization. Clicking an assay will highlight the column of data underneath for the entire height of the grid. To select multiple assays you can hold Shift or Control while left-clicking an assay name.
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Sorting Assays
The rows directly underneath the assay names represent assay properties, the values of which can be used to sort and group assays. Clicking on an assay property will apply a sort according to the values in the selected row. Holding Shift or Control while left-clicking an assay property name will select additional assay properties by which to sort.
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Filtering Assays
Selecting properties from the drop-down menu(s) in the Assay Filters panel will filter out any assays that do not match the chosen parameters. There is no limit on the number of filter values that can be selected.
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Selecting Assays
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Compounds
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Sorting Compounds
The two columns to the far right of the grid show the Compound Name and the Broad Compound ID for each compound. Clicking on the header of one of these columns will sort the compound list alphabetically.
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Searching for Compounds
Typing a search string into the text box at the top of the grid next to the “Columns” button and pressing enter will yield a set of matching results for your entry. The up and down arrows to the right of the search box will traverse the grid for matches. Pressing the third button that looks like an arrow with a right angle pointing up will move all matches to the top.
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Filtering Compounds
Compound filters are grouped vertically along the left side of the grid. Selecting a compound property will filter out any compounds that do not match the selected properties. There is no limit to the number of compound filter properties that can be selected.
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Sorting Compounds
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Result Data
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Viewing Results
Moving the mouse cursor over a cell in the grid will show the significance, concentration, compound name, and assay for that data point. Clicking on it will populate a panel to the right side of the window that contains more detailed information. This detailed information includes the compound properties and a hyperlink to the Clue.io repurposing app details page for that compound.
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Exporting Results
Moving the mouse cursor over a cell in the grid will show the significance, concentration, compound name, and assay for that data point. Clicking on it will populate a panel to the right side of the window that contains more detailed information. This detailed information includes the compound properties and a hyperlink to the Clue.io repurposing app details page for that compound.
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Viewing Results
Navigation | |
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D-Score Significance | |
Bard Ontology | |
How to Use |