Archive for the ‘NLM Resources’ Category
Health science librarians in the United States are invited to participate in the next offering of the online bioinformatics training course, Fundamentals of Bioinformatics and Searching, sponsored by the National Library of Medicine (NLM), the National Center for Biotechnology Information (NCBI), and the National Network of Libraries of Medicine, NLM Training Center (NTC). This rigorous course provides basic knowledge and skills for librarians interested in helping patrons use online molecular databases and tools from the NCBI. Attending this course will improve your ability to initiate or extend bioinformatics services at your institution. Prior knowledge of molecular biology and genetics is not required. This course is a prerequisite for the face-to-face workshop, Librarian’s Guide to NCBI.
The major goal of this course is to provide an introduction to bioinformatics theory and practice in support of developing and implementing library-based bioinformatics products and services. This material is essential for decision-making and implementation of these programs, particularly instructional and reference services. The course encompasses visualizing bioinformatics end-user practice, places a strong emphasis on hands-on acquisition of NCBI search competencies, and a working molecular biology vocabulary, through self-paced hands-on exercises. This course is offered online (asynchronous) from February 10 – March 21, 2014. The course format includes video lectures, readings, a molecular vocabulary exercise, an NCBI discovery exercise, and other hands-on exercises. The instructor is Diane Rein, Ph.D., MLS, Bioinformatics and Molecular Biology Liaison from the Health Science Library, University at Buffalo.
Due to limited enrollment, interested participants are required to complete an application form. The deadline for completing the application is January 10, 2014; participants will be notified of acceptance on January 22, 2014. The course is offered at no cost to participants. Participants who complete all assignments and the course evaluation by the due dates within the course will receive fifteen hours of MLA CE credit. No partial CE credit is granted. Participants who complete the required coursework and earn full continuing education credit will be eligible to apply to attend the five-day Librarian’s Guide that will be offered in April 2014 if they so choose.
Visit the Fundamentals of Bioinformatics and Searching webpage for more information and to apply. If you have any questions, e-mail the course organizers.
Due to a changing technical and budgetary environment, the NLM Division of Specialized Information Services (SIS) is longer adding, updating or maintaining records in Directory of Health Organizations Online (DIRLINE). DIRLINE was the National Library of Medicine’s online database containing location and descriptive information about a wide variety of information resources including organizations, research resources, projects, and databases concerned with health and biomedicine.
As of October 1st, 2013, and for the following fiscal year, DIRLINE is searchable but the records are marked as “archived.” SIS expects to retire DIRLINE at the end of 2014. These changes do not affect Health Hotlines.
The National Library of Medicine’s WISER for Windows 4.5 is now available. This new version of WISER fully integrates Chemical Hazards Emergency Medical Management (CHEMM) content and updates the Emergency Response Guidebook (ERG) content to 2012.
Here’s a closer look at what’s new in this release:
- Full integration of CHEMM content, which includes:
- New hospital provider and preparedness planner profiles, along with a customized home screen for all WISER profiles
- Acute care guidelines for six known mass casualty agents/agent classes
- The addition of a wealth of CHEMM reference material
- CHEMM Intelligent Syndromes Tool (CHEMM-IST), a new Help Identify tool designed to diagnose the type of chemical exposure after a mass casualty incident
- ERG content is now updated to the 2012 release. This includes the full ERG 2012 tool.
WISER for Windows 4.5 can be downloaded directly from the WISER website.
Look for these exciting additions in the coming months:
- WebWISER 4.5, which includes CHEMM integration, ERG 2012 updates, and more
- WISER for Android 3.1, which adds Help Identify Chemical and protective distance mapping to this popular platform
The National Library of Medicine released several enhancements to Digital Collections, the free online archive of biomedical resources, at the end of September.
New features include:
- Redesigned homepage with informative images highlighting repository content
- Responsive sizing of homepage and search results to better accommodate the wide range of displays
- More consistent, cleaner look and feel across the Web site, including the latest NIH & NLM branding
- New “Refine by” feature on the left which allows users to limit searches to specific facets
In addition to these enhancements, technically inclined readers may be interested to know about these significant changes that improve system performance and flexibility:
- Fresh indexing of metadata and full text for more efficient search & retrieval
- Replacement of the Muradora front-end application with Blacklight, an open-source discovery interface which sits on top of the repository’s Solr index
- Upgrades to all major software components supporting the repository, including the underlying Fedora Commons framework
- New server architecture that better isolates components for improved security
- More powerful hardware providing faster search and presentation responsiveness
In November, Digital Collections reached the milestone of providing access to 10,000 digitized resources. The repository contains over 12 million discrete files. NLM regularly deposits content from its digitization activities, including current projects focused on WWII-era materials and NLM-authored publications. For more information about Digital Collections, see the About Digital Collections page and Help Documentation.
NLM’s Exhibition Program has announced a new traveling banner exhibit, From DNA to Beer: Harnessing Nature in Medicine and Industry, now available for booking! A link to the online exhibition is also available. From DNA to Beer: Harnessing Nature in Medicine and Industry explores some of the processes, problems, and potential inherent in technologies that use microorganisms for health and commercial purposes. Over the past two centuries, scientists, in partnership with industry, have developed techniques using and modifying life forms like yeast, molds, and bacteria, to create a host of new therapies and produce better foods and beverages. The exhibition illustrates the history of this dynamic relationship among microbes, medicine, technology, and industry, which has spanned centuries.
For questions about the traveling exhibit, contact email@example.com. For information on currently available and future NLM traveling exhibits, please visit the Exhibition Program website.
The National Library of Medicine announces the activation of the Emergency Access Initiative (EAI) in support of medical efforts in the Philippines and surrounding areas following the devastating typhoon. The EAI is a collaborative partnership between NLM and participating publishers to provide free access to full-text articles from over 650 biomedical serial titles and over 4,000 reference books and online databases to healthcare professionals and libraries affected by disasters.
The EAI serves as a temporary collection replacement and/or supplement for libraries affected by disasters that need to continue to serve medical staff and affiliated users. It is also intended for medical personnel responding to the specified disaster. EAI is not an open access collection; it is only intended for those affected by the disaster or assisting the affected population. If your library is working with a library or organization involved in relief efforts in the Philippines or other affected areas, please let them know of this service.
NLM thanks the participating publishers for their generous support of this initiative: American Academy of Pediatrics, American Association for the Advancement of Science, American Chemical Society, American College of Physicians, American Medical Association, American Society of Health-Systems Pharmacists, ASM Press, B.C. Decker, BMJ, EBSCOHost, Elsevier, FA Davis, Mary Ann Liebert, Massachusetts Medical Society, McGraw-Hill, Merck Publishing, Oxford University Press, People’s Medical Publishing House, Springer, University of Chicago Press, Wiley, and Wolters Kluwer.
Sample journal titles:
- Accident and emergency nursing
- Annals of internal medicine
- Archives of surgery
- Depression and anxiety
- Disaster medicine and public health preparedness . Environmental toxicology and pharmacology . International journal of cardiology . International journal of infectious diseases . JAMA : the journal of the American Medical Association . Journal of emergency medicine . Journal of traumatic stress . Lancet . New England journal of medicine . Surgery
Sample book titles:
- Merck manual of diagnosis and therapy
- Public health & preventive medicine
- Handbook of critical care
- Human virology
- Infectious diseases: the clinician’s guide to diagnosis, treatment and prevention . AHFS drug information
- Cochrane database of systematic reviews . DynaMed . Essential Evidence Plus
For questions regarding the Emergency Access Initiative, please email firstname.lastname@example.org or call 1-888-346-3656 in the United States, or 301-594-5983 internationally.
November 2013 marks 25 years that the National Center for Biotechnology Information (NCBI) has been providing access to biomedical and genomic information to advance science and health. Established in 1988 as a division of the National Library of Medicine (NLM) at the National Institutes of Health (NIH), NCBI has grown into a leading source for public biomedical databases, software tools for analyzing molecular and genomic data, and research in computational biology. NCBI’s resources rank among the most heavily used government web sites in the United States, with approximately 3 million users every day.
In recognition of NCBI’s achievements, an awards and recognition program was held November 1 on the NIH campus in Bethesda, Maryland. At that event Tony Hey, PhD, Vice President of Microsoft Research, presented NCBI Director David Lipman, MD, with the Jim Gray eScience Award. Named for Jim Gray, a technical fellow for Microsoft Research and an A.M. Turing Award winner who disappeared at sea in 2007, the annual award recognizes researchers who have made outstanding contributions to the field of data-intensive computing and made “science easier for scientists,” according to Microsoft.
Gray was very familiar with the work of NCBI. He was a member of the NLM Board of Regents in 2006 and met a number of times with Dr. Lipman, NCBI Information Engineering Branch Chief Jim Ostell, PhD, and other staff to discuss issues such as organization of and access to biomedical literature and data. His interest in NCBI’s work is evidenced by his final lecture, in January 2007, in which he highlighted the importance of NCBI/NLM biomedical literature databases like PubMed and PubMed Central, genomic databases such as GenBank, and NCBI’s Entrez system for searching across these and many other databases. An edited version of Gray’s lecture can be read in The Fourth Paradigm, available on Microsoft Research’s web site.
The NCBI awards program also featured presentations by Sir Richard Roberts, PhD, chief scientific officer of New England Biolabs, who provided the keynote address, entitled “A personal recollection of GenBank and NCBI.” NLM Director Donald A.B. Lindberg, MD, recounted the planning process that led to the formation of NCBI, and NIH Deputy Director for Intramural Research Michael M. Gottesman, MD, provided introductory remarks for the awards ceremony. Dr. Lipman closed the event by recognizing the dedicated and hard-working staff of NCBI who have enabled the progress that has transpired over the last 25 years.
The National Library of Medicine has released an enhancement to MedlinePlus Connect, NLM’s service for patient portals and electronic health record (EHR) systems. MedlinePlus Connect makes it easy for EHRs to link to targeted information for patients from MedlinePlus, using their existing coding for diagnoses (problem codes), medications, and laboratory test results.
The latest enhancement provides responses to one code system for problems, SNOMED CT, to information from NLM’s Genetics Home Reference (GHR) web site. GHR is the NLM’s web site for consumer information about genetic conditions and the genes or chromosomes related to those conditions.
With this new enhancement, MedlinePlus Connect can respond to requests for information related to SNOMED CT codes with information from MedlinePlus and from GHR. Currently this feature is available only for English SNOMED CT requests.
The National Library of Medicine Library has announced the enhancement of In His Own Words: Martin Cummings and the NLM, a digital edition of selected speeches and articles by the man who served as its director from 1964 to 1983. During his tenure, Dr. Cummings guided NLM into the computer age and significantly broadened its mission. Originally launched in February 2012, In His Own Words now includes Dr. Cummings’ annual Congressional appropriations testimonies, along with commentary provided by Dr. Cummings through interviews with Dr. Cheryl Dee of San Jose State University School of Library and Information Science and Florida State University School of Library and Information Services. These enhancements document Dr. Cummings’s opinion that the testimonies and commentaries together offer the most valuable window into NLM’s program development from the 1960s to the 1980s. Reflecting on his testimonies, and the subsequent question and answer sessions defending them, Dr. Cummings’s commentary provides contextual insight on significant turning points in the Library’s history and the political personalities that influenced them.
Martin Marc Cummings, MD (1920–2011), was a medical educator, physician, scientific administrator and medical librarian. Highly respected in all of these disciplines, he made significant contributions to medical informatics and librarianship. As a whole, In His Own Words represents the NLM’s ongoing commitment to collecting materials related to its institutional history and programmatic impact—as part of the NLM Archives—as well as to digitizing these collections and making them widely available for the benefit of researchers, educators, and students.
PubMed now includes a new relevance sort option! The “Relevance” sort option is available from the “Display Settings” menu under the “Sort by” selections. The relevance sort order for search results is based on an algorithm that analyzes each PubMed citation that includes the search terms. For each search query, “weight” is calculated for citations depending on how many search terms are found and in which fields they are found. In addition, recently-published articles are given a somewhat higher weight for sorting.
Easy access to the relevance sort will also initially be provided under a “New feature” discovery tool:
Users may either choose “Relevance” from the “Display Settings Sort by” menu or click the “Sort by Relevance” link in the New Feature discovery tool. For additional information, please visit the NLM Technical Bulletin.