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Nuclear Receptor Signaling Atlas
A research resource for the nuclear receptor signaling community
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Release Notes
NURSA 3.4.2 - Feb. 2017
What's new:
  • Transcriptomine updates
    • Introduced Clinical Datasets and Animal & Cell Models in the y-axis
    • Enhancements to the user interface
  • Updated FAQs
Bug Fixes
  • Improvements to Transcriptomine query performance
  • Fixed the diplaying number not getting updated when the slider is adjusted
  • Improved error handling
NURSA 3.4.1
What's new:
  • Dataset updates
    • Added scatterplots for experiments
    • Adjust data points displayed in scatterplot using a fold change slider feature
  • Transcriptomine updates
    • Added additional categories and pathways which can be viewed in scatterplot results
    • Adjust data points displayed in scatterplot using a fold change slider feature
    • Removed fold change parameter and instead use a default fold change range of >2.0 and <30.0
  • Added new ligand detail pages
  • Updated FAQs
Bug Fixes
  • Fixed Transcriptomine API
NURSA 3.3
What’s new:
  • Addition of metabolomics datasets
    • Browse metabolomics datasets on all datasets page
    • View individual metabolomic dataset detail pages
    • View metabolite lists on metabolomics dataset detail pages
  • Addition of pharmacogenomic data from PharmGKB on molecule detail pages
    • View pathways by expanding the Pathways section
    • View drug labels, dosing guidelines, and clinical annotations by expanding the Pharmacogenomics section
  • Updated API, which can be found here, that allows users to retrieve DOI, dataset name, dataset description, and release date by specifying the regulatory molecule
    • If the regulatory molecule is a gene, then the Entrez gene ID must be specified in the request
    • If the regulatory molecule is a small molecule, then the source name, i.e. CAS, PubChem, ChEBI, or IUPHAR, and source ID, i.e. PubChem compound ID, must be specified in the request
NURSA 3.2.2
What’s new:
  • Dataset updates
    • Filter datasets by pathway
    • Filter datasets by biosource
    • Search datasets by DOI, Dataset Name, or Release Date
    • Dataset Citation field now includes contributors and release date from GEO if the original data was deposited in GEO
    • Ability to harvest dataset metadata via the Open Archives Initiative Protocol for Metadata Harvesting (OAI-PMH). The OAI-PMH protocol is defined here.
  • Bug Fixes
    • Fixed 500 error for legacy datasets
  • Updated FAQs
NURSA 3.2.1
What’s new:
  • Transcriptomine updates
    • Query by Pathway & Tissue categories
    • View by Pathway & Tissue categories in scatterplot results
    • Updated tutorial
  • Dataset updates
    • DOI & Release Date displayed in all datasets table
    • All datasets table displays most recently added datasets first
    • Searching by dataset name autosuggests 10 names
    • Able to download a dataset citation using EndNote, Mendeley, Zotero or Papers3
    • Helper text to clarify differences between Dataset Citation and Associated Article fields on dataset detail pages
  • Updated FAQs
NURSA 3.2
What’s new:
  • View Transcriptomine query results as a scatterplot
    • Change y-axis to view by Gene, Experiment, RNA Source, or Species
    • Print graph or download as a PNG or SVG vector image
    • Click and drag over an area of the graph to zoom in
  • Increased maximum number of Transcriptomine query results returned to 1000 data points
Bug fixes:
  • Display data points with null p-values in gene lists
NURSA 3.1.3
What’s new:
  • Updated FAQs
  • Added Release Notes
  • Added Transcriptomine logo
  • Added Transcriptomine tutorial
  • Included the Transcriptomine query parameters on the search results
  • Added the experiment ID to the Transcriptomine search results
  • Added links to full text articles on dataset detail pages
  • Display longer, more descriptive experiment names on dataset detail pages
NURSA 3.1.2
What’s new:
  • Added gene lists to dataset detail pages
  • Added related datasets to dataset detail pages
  • Added Newsletter sign up
  • Deposited DOIs for datasets, NRs, coregs, and ligands with CrossRef
Bug fixes:
  • Removed short bookmarkable URLs for Transcriptomine
  • Clicking modify your query should show query parameters with constructed urls
  • Symbol incorrect for species on Transcriptomine search results
  • Probes missing links on Transcriptomine search results
  • Grammar changes to citation field
  • Add count to too many results modal window
  • Change molecule to regulatory molecule for constructed url
NURSA 3.1.1
What’s new:
  • Updates to overview section of dataset detail pages
  • Ability to download a dataset citation to EndNote on dataset detail pages
  • Added Additional Information section to dataset detail pages
  • Ability to download a dataset citation to EndNote on Transcriptomine fold change modal window
  • Created an EndNote plugin on GitHub: https://github.com/BCM-DLDCC/Ris-builder
  • Created a Transcriptomine API
Bug fixes:
  • Decreased load time of Transcriptomine summary graphs
  • Only show active datasets
  • Updated Transcriptomine FAQs
  • Fixed downloads for too many results
  • Changed Transcriptomine tagline
NURSA 3.1
What’s new:
  • Ported Transcriptomine to NURSA site
  • Implemented constructed URLs for Transcriptomine search results
  • Added Transcriptomine summary graphs which break down the data by regulatory molecule, RNA source and species
  • Added link to UCSC Genome browser on probe IDs in Transcriptomine search results
  • Added link to the data source in Transcriptomine fold change modal window
  • Created dataset detail pages for Transcriptomic datasets
  • Added link to dataset detail page in Transcriptomine fold change modal window
NURSA 3.0
What’s new:
  • Updated look and feel of site to improve usability
  • Updated database
  • Updated tech stack
  • Inclusion of clinical trials, diseases and drugs