Author Archives: Dina

NIH Common Data Element (CDE) Repository

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The practice of re-using a research survey or measurement instrument (while respecting copyright and giving proper attribution) – especially a validated one – is a common one that everyone  (especially research funders) can agree makes research more efficient and cost-effective.  For example, anyone familiar with the REDCap electronic data capture tool is likely aware of the REDCap Shared Library that “is a repository for REDCap data collection instruments and forms that can be downloaded and used by researchers at REDCap partner institutions“. Even NIH survey materials like the NIH’s All of US Programs are available for download from there.



Even though a data collection instrument in its entirety often cannot satisfy the unique needs of an original research project, it is still useful to collect the commonly-used individual data elements/variables of an instrument in a consistent and standardized way (that other researchers are also adopting in their own projects) because this makes the data collected for diverse studies more interoperable (i.e. increases the potential for this information to be shared/combined in future research projects).

And “the use of particular standards to enable interoperability of datasets” is an important component of the 2023 NIH Data Management and Sharing Policy, which aligns with the FAIR data principles – see: 

“NIH has issued the Data Management and Sharing (DMS) policy (effective January 25, 2023) to promote the sharing of scientific data. Sharing scientific data accelerates biomedical research discovery, in part, by enabling validation of research results, providing accessibility to high-value datasets, and promoting data reuse for future research studies.“

This brings us to the NIH Common Data Element (CDE) Repository, which is “hosted and maintained by the National Library of Medicine (NLM)”. To encourage the use of Common Data Elements (CDEs) and make it easier for researchers to identify CDEs that might be useful for their research project, NLM has created this searchable repository/catalog that users can freely access online.

Users can search for individual CDEs or multiple CDEs that are curated into Forms. The search can also be limited to NIH-Endorsed CDEs, which are CDEs that have “been reviewed and approved by an expert panel, and meet established criteria”. Furthermore, “NIH-recognized bodies (institutes, research initiatives, etc.) may submit CDEs to the NIH CDE Governance Committee for consideration for endorsement” via the Repository’s homepage – see: 

NIH Common Data Element (CDE) Repository – https://cde.nlm.nih.gov/home

From the NIH CDE Repository User Guide: https://cde.nlm.nih.gov/guides

“The NIH CDE Repository uses the Unified Medical Language System (UMLS) Terminology Service (UTS) Sign on Service which lets you set up an account and sign in using your NIH credentials, your account with a research organization, or a personal account such as Google, Microsoft, or Login.gov.

A user account is not required to browse the NIH CDE Repository, but when you are signed in, you will have expanded access to features. User account holders can create Boards and save CDEs and Forms to them, remember your preferences on all your devices, and if approved, become a curator, and view/manage your organization’s content. Users with NIH credentials can choose to see CDEs of any registration status – including previewing draft CDEs that have not yet been published.”

NLM also offers these CDE training options where you can learn more:

Questions? Ask Us at the MSK Library!

Interactive Tools for Exploring Language Use

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As per the U.S. Census (see: What Languages Do We Speak in the United States?):

“The number of people in the United States who spoke a language other than English at home nearly tripled from 23.1 million (about 1 in 10) in 1980 to 67.8 million (almost 1 in 5) in 2019, according to a recent U.S. Census Bureau report.”

Thanks to some interactive tools developed using data from the U.S. Census Bureau’s American Community Survey, it has never been easier to explore what languages are being spoken in different geographic areas of the United States. Below are some examples of some user-friendly, freely available tools that you may wish to check out.

  1. U.S Census Data Website

Among the various data profiles, tables and maps, tools and visualization options, is the interactive People That Speak English Less Than “Very Well” in the United States Interactive Map that can be queried using state and county information.

This data is available because the U.S. Census asks “about whether a person speaks a language other than English at home, what language he/she speaks, and how well he/she speaks English to create statistics about language and the ability to speak English”.

For example, searching for New York and Nassau County shows where in that area people with Limited English Proficiency (LEP) may live:

      2. Languages Spoken by People who have Limited English Ability
         (Web Map by Urban Observatory by Esri)

This is another tool that “shows the predominant language(s) spoken by people who have limited English speaking ability” using ArcGIS to again visualize the “American Community Survey data from the US Census Bureau by state, county, and tract”. This map allows you to visualize the data about what languages are being spoken by LEP individuals living around a particular street address or place.

For example, searching for “1101 Hempstead Tpke, Uniondale, NY, 11553, USA” returns:

     3. State Immigration Data Profiles

To get a better understanding of where foreign-born individuals are migrating from, their English proficiency and language spoken at home, the Migration Policy Institute also used U.S. Census data to create an interactive migration data hub tool that allows users to explore state immigration data profiles. You can click on the state of interest to view state-level “facts about immigrants to the U.S.”

Questions?  Ask Us at the MSK Library!

 

Updated PubMed Central (PMC) Website

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In October 2024, the National Library of Medicine (NLM) updated the PubMed Central (PMC) website. Apart from the most obvious change – the URL of the PMC homepage is now pmc.ncbi.nlm.nih.gov – most of these important modernization updates are related to the digital accessibility of the PMC website and designed to ensure its reliability and sustainability into the future.

More specifically, from PubMed Central (PMC) Transitions to Updated Website – NCBI Insights:

“The updated website runs on cloud services to ensure the website’s long-term sustainability and reliability. It also incorporates U.S. Web Design System (USWDS) components and design principles to improve PMC’s readability and accessibility, whether you are visiting on a desktop computer, mobile device, or accessing its content using assistive technology.” 

For example, the PMC article display has been tweaked to improve its readability:

See this section of the PMC User Guide to learn more about the key features and functionality available both on the desktop version and mobile version article displays.

To read about the great work NLM is doing to ensure equitable access to its products – see:
The Future of PubMed Central: Publicly Accessible, Digitally Equitable, Universally Valuable – NLM Musings from the Mezzanine

Questions?  Ask Us at the MSK Library!