Category Archives: oa.nlm

Strong Community Response to Free Scholarly Article Access to Fight COVID-19 – SPARC

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“Fighting the global coronavirus pandemic will take a collaborative effort like no other. Immediate, free open access to research results is vital to accelerating the global research community’s progress towards COVID-19 testing, treatments and vaccines.

COVID-19 Open Research Dataset (CORD-19), a free and growing resource with 59,000 scholarly articles related to virus, is a glimmer of hope in the quest for answers. The dataset, hosted by the Allen Institute for AI and developed in partnership with the National Library of Medicine (NLM) and others, enables researchers to apply novel artificial intelligence and machine learning strategies to identify new knowledge to help end the pandemic. The White House Office of Science and Technology Policy kicked off the CORD-19 initiative as it looked for ways to leverage AI and machine learning to address COVID-19….”

Strong Community Response to Free Scholarly Article Access to Fight COVID-19 – SPARC

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“Fighting the global coronavirus pandemic will take a collaborative effort like no other. Immediate, free open access to research results is vital to accelerating the global research community’s progress towards COVID-19 testing, treatments and vaccines.

COVID-19 Open Research Dataset (CORD-19), a free and growing resource with 59,000 scholarly articles related to virus, is a glimmer of hope in the quest for answers. The dataset, hosted by the Allen Institute for AI and developed in partnership with the National Library of Medicine (NLM) and others, enables researchers to apply novel artificial intelligence and machine learning strategies to identify new knowledge to help end the pandemic. The White House Office of Science and Technology Policy kicked off the CORD-19 initiative as it looked for ways to leverage AI and machine learning to address COVID-19….”

NIH to Host Webinar on Sharing, Discovering, and Citing COVID-19 Data and Code in Generalist Repositories on April 24 | Data Science at NIH

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“The National Library of Medicine (NLM) at the National Institutes of Health is hosting a free webinar for researchers to learn how to share, discover, and cite COVID-19 data and code in generalist repositories on April 24 from 2-3:45 p.m. ET.

The biomedical research community’s understanding of the novel coronavirus and the associated coronavirus disease (COVID-19) is rapidly evolving. Open science and the timely sharing of research data have played a critical role in advancing our understanding of COVID-19 and accelerating the pace of discovery.

Researchers will have an opportunity to hear from multiple generalist repositories about the ways each repository is supporting discoverability and reusability of COVID-19 data and associated code. The NLM will also provide an overview of available COVID-19 literature.”

LitCovid – NCBI – NLM – NIH

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“LitCovid is a curated literature hub for tracking up-to-date scientific information about the 2019 novel Coronavirus. It is the most comprehensive resource on the subject, providing a central access to 1121 (and growing) research articles in PubMed. The articles are updated daily and are further categorized by different research topics and geographic locations for improved access….”

LitCovid – NCBI – NLM – NIH

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“LitCovid is a curated literature hub for tracking up-to-date scientific information about the 2019 novel Coronavirus. It is the most comprehensive resource on the subject, providing a central access to 1121 (and growing) research articles in PubMed. The articles are updated daily and are further categorized by different research topics and geographic locations for improved access….”

Keep up with the latest coronavirus research

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“An open-resource literature hub known as LitCovid curates the most comprehensive collection of international research papers so far on the new coronavirus disease COVID-19 (see go.nature.com/3almd5p). Developed with the support of the US National Institutes of Health’s intramural research programme, LitCovid is updated daily with newly published articles. The aim is to provide timely insight from the scientific literature into the biology of the virus and the diagnosis and management of those who have been infected.

LitCovid has a more sophisticated search function than existing resources. It identifies roughly 35% more relevant articles than do conventional keyword-based searches for entries such as ‘COVID-19’ or ‘nCOV’. Furthermore, the articles are categorized by topic — overview, disease mechanism, transmission dynamics, treatment, case report and epidemic forecasting — as well as by geographic location for visualization on a world map…..”

Keep up with the latest coronavirus research

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“An open-resource literature hub known as LitCovid curates the most comprehensive collection of international research papers so far on the new coronavirus disease COVID-19 (see go.nature.com/3almd5p). Developed with the support of the US National Institutes of Health’s intramural research programme, LitCovid is updated daily with newly published articles. The aim is to provide timely insight from the scientific literature into the biology of the virus and the diagnosis and management of those who have been infected.

LitCovid has a more sophisticated search function than existing resources. It identifies roughly 35% more relevant articles than do conventional keyword-based searches for entries such as ‘COVID-19’ or ‘nCOV’. Furthermore, the articles are categorized by topic — overview, disease mechanism, transmission dynamics, treatment, case report and epidemic forecasting — as well as by geographic location for visualization on a world map…..”

Federal Toxmap Shutters, Raising the Ire of Pollution Researchers

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“Fifteen years ago the U.S. National Library of Medicine launched Toxmap, a free, interactive online application that combines pollution data from at least a dozen U.S. government sources. A Toxmap user could pan and zoom across a map of the United States sprinkled with thousands of blue and red dots, with each blue dot representing a factory, coal-fired power plant, or other facility that has released certain toxic chemicals into the environment, and each red dot marking a Superfund program site — “some of the nation’s most contaminated land,” according to the Environmental Protection Agency.

Toxmap allowed users to pull up detailed EPA data for each toxic release site, and to overlay other information, such as mortality statistics, onto those maps. And it’s precisely those capabilities that earned Toxmap a devoted following among researchers, students, activists, and other people keen to identify sources of pollution in their communities.

Those capabilities appear to no longer be available to the public.

Earlier this year, with little explanation, the NLM announced that it would be “retiring” the Toxmap website on Dec. 16, 2019. The library did not respond directly to queries on Monday about what was meant by “retiring,” but by Tuesday morning, the Toxmap website had been taken down and visitors to the former URL were met with a message acknowledging the closure and pointing visitors to other potential sources of information. (An archived version of the old Toxmap landing page is preserved at the Internet Archive.) …”

TOXMAP, Federal Database Allowing Public to Track U.S. Pollution, Shut Down After 15 Years by Trump Administration

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“TOXMAP, an interactive map that allowed public users to pinpoint sources of pollution, was pulled from the internet after 15 years. Hosted by the National Library of Medicine (NLM), the website was beneficial to researchers and advocates.

While most of the information from TOXMAP has been dispersed to other websites, some of the information has disappeared….”

How to add academic journal articles to PubMed: An overview for publishers

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“If you work with journals in the biomedical or life sciences, getting the articles you publish added to PubMed to make them more discoverable is likely one of your top goals. But, you may be wondering how to go about it.

We caught up with PubMed Central (PMC) Program Manager Kathryn Funk to get answers to some of the most common questions that we hear from journal publishers about PubMed and the related literature databases at the National Library of Medicine (NLM), MEDLINE and PMC. Read on to learn more about how the PubMed database works and how to apply to have a journal included in MEDLINE or PMC in order to make its articles searchable via PubMed….”

Dr. Donald Lindberg, 85, Dies; Opened Medical Research to the World – The New York Times

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“Dr. Donald A.B. Lindberg, who as director of the National Library of Medicine — the world’s largest — computerized its vast holdings and made them accessible to researchers around the world, died on Aug. 17 at a hospital in Bethesda, Md. He was 85….

Dr. Lindberg was a leader in medical informatics, the science of using computer technology to improve human health and the delivery of health care services. As the longtime leader of the library, which is part of the National Institutes of Health, he modernized, expanded and transformed a trove of material, some of which dates to the 12th century.

“He changed fundamentally the way biomedical knowledge and health information is collected, organized, and made available for public use — in small villages in Alaska and Mali as well as in laboratories of Nobel prizewinners,” the library’s board of regents said in a resolution when he retired in 2015….”

Dr. Donald Lindberg, 85, Dies; Opened Medical Research to the World – The New York Times

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“Dr. Donald A.B. Lindberg, who as director of the National Library of Medicine — the world’s largest — computerized its vast holdings and made them accessible to researchers around the world, died on Aug. 17 at a hospital in Bethesda, Md. He was 85….

Dr. Lindberg was a leader in medical informatics, the science of using computer technology to improve human health and the delivery of health care services. As the longtime leader of the library, which is part of the National Institutes of Health, he modernized, expanded and transformed a trove of material, some of which dates to the 12th century.

“He changed fundamentally the way biomedical knowledge and health information is collected, organized, and made available for public use — in small villages in Alaska and Mali as well as in laboratories of Nobel prizewinners,” the library’s board of regents said in a resolution when he retired in 2015….”

Dr. Donald Lindberg, 85, Dies; Opened Medical Research to the World – The New York Times

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“Dr. Donald A.B. Lindberg, who as director of the National Library of Medicine — the world’s largest — computerized its vast holdings and made them accessible to researchers around the world, died on Aug. 17 at a hospital in Bethesda, Md. He was 85….

Dr. Lindberg was a leader in medical informatics, the science of using computer technology to improve human health and the delivery of health care services. As the longtime leader of the library, which is part of the National Institutes of Health, he modernized, expanded and transformed a trove of material, some of which dates to the 12th century.

“He changed fundamentally the way biomedical knowledge and health information is collected, organized, and made available for public use — in small villages in Alaska and Mali as well as in laboratories of Nobel prizewinners,” the library’s board of regents said in a resolution when he retired in 2015….”

Publisher Liaison, National Institutes of Health, National Library of Medicine

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“Responsibilities

Serve as a Technical Information Specialist responsible to coordinate the review and selection of materials, develop and maintain related processes, and contribute to policy formulation for a premier biomedical citation database and journal archive.
Interpret and communicate NLM policies to high level publishers’ representatives, organizations, and information centers in the U.S. and worldwide.
Provide technical consultation and support to facilitate the provision of biomedical information through NLM services.
Serves as a technical expert on journal publishing trends and scholarly communication issues .
Independently prepare written correspondence, reports, and news announcements to explain or publicize NLM’s policies for the review, selection, indexing and archiving of biomedical literature.
Coordinate and actively contribute to the meetings of the Literature Selection Technical Review Committee (LSTRC), a U.S. government federal advisory committee responsible for reviewing and recommending journals for inclusion in MEDLINE….”

PubMed Commons to be Discontinued | NCBI Insights

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PubMed Commons has been a valuable experiment in supporting discussion of published scientific literature. The service was first introduced as a pilot project in the fall of 2013 and was reviewed in 2015. Despite low levels of use at that time, NIH decided to extend the effort for another year or two in hopes that participation would increase. Unfortunately, usage has remained minimal, with comments submitted on only 6,000 of the 28 million articles indexed in PubMed. While many worthwhile comments were made through the service during its 4 years of operation, NIH has decided that the low level of participation does not warrant continued investment in the project, particularly given the availability of other commenting venues.