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PubMed1983

Quantitative reviewing: the literature review as scientific inquiry.

The literature review process is conceptualized as a form of scientific inquiry that involves methodological requirements and inferences similar to those employed in primary research. Five stages of quantitative reviewing that parallel stages in primary investigation are identified and briefly described. They include problem formation, data collection, data evaluation, analysis and interpretation, and reporting the results. The first two stages provide information and guidelines relevant to reviewers' employing traditional narrative procedures or conducting reviews of qualitative research literature. The final three stages relate specifically to the methodology of quantitative reviewing. The argument is made that quantitative reviewing procedures represent a paradigm shift that can assist researchers and clinicians in occupational therapy to establish a scientific data base that will serve to guide theory development and validate clinical practice.

Data Collection↗

PubMed1978

LATCH at the Washington Hospital Center, 1967-1975.

Immediate access to needed information is essential if medical personnel are to provide quality health care. At the Washington Hospital Center, Literature Attached to Charts, LATCH, was created in 1967 to provide the required information quickly. As a collection of a few relevant articles attached to the patient's chart, it supplies current literature on some aspect of the patient's illness. Following an account of the program's inception, an analysis of 1,935 LATCH requests for the years 1968--1975 reveals that new physicians, that is, interns and first-year residents, requested LATCHes most often. Requests in areas of internal medicine were the most common. The data also show that the program has been well received by its users. LATCH has affected the medical library in several ways. The program has been partially responsible for increases in staff, in the number of journal subscriptions, and in the number of literature searches requested. The program has also brought about greater access to the collection via the card catalog. An important effect has been the tremendous development of professional expertise in the staff preparing the LATCH.

Humans↗

PubMed2003

Toward a functional annotation of the human genome using artificial transcription factors.

We have developed a novel, high-throughput approach to collecting randomly perturbed gene-expression profiles from the human genome.A human 293 cell library that stably expresses randomly chosen zinc-finger transcription factors was constructed, and the expression profile of each cell line was obtained using cDNA microarray technology.Gene expression profiles from a total of 132 cell lines were collected and analyzed by (1) a simple clustering method based on expression-profile similarity, and (2) the shortest-path analysis method. These analyses identified a number of gene groups, and further investigation revealed that the genes that were grouped together had close biological relationships. The artificial transcription factor-based random genome perturbation method thus provides a novel functional genomic tool for annotation and classification of genes in the human genome and those of many other organisms.

Antigens, Neoplasm↗

PubMed2004

Neutron tomography developments and applications.

Neutron radiography has been in use as a nondestructive testing technique for the past 50 years. The neutrons' unique ability to image certain elements and isotopes that are either completely undetectable or poorly detected by other NDI methods makes neutron radiography an important tool for the NDI community. Neutron radiography like other imaging techniques takes a number of different forms (i.e., film, radioscopic, transfer methods, tomography, etc.) This paper will describe the neutron tomography system developed at the University of California, Davis McClellan Nuclear Radiation Center (UC Davis/MNRC), and the applications for both research and commercial uses. The neutron radiography system at the UC Davis/MNRC has been under development for 4 years. The initial system was developed to find very low concentrations of hydrogen (i.e., <200 ppm). In order to achieve these low detection levels, it was necessary to perform both pre- and post-processing of the tomographs. The pre-processing steps include corrections for spatial resolution and random noise effects. Images are corrected for systematic noise errors and beam hardening. From these data the attenuation coefficient is calculated. The post-processing steps include alignment of the collected images, determining the center of mass, and, finally, using the filtered back-projection routine from the Donner Algorithms Library to obtain the final images. Since its initial development, the tomography system has been used very successfully to find low levels of hydrogen in a metal matrix. Further uses of the system have been to verify the exact placement, in three dimensions, of "O-rings" in large metal valve bodies, and to map the location and extent of veins in porous and high-density rocks of various different kinds. These examples show that neutron tomography is becoming a needed inspection technique for the 21st century.

Journal Article↗

PubMed1986

Standards for academic visual science libraries. Association of Visual Science Librarians.

These standards are a revised and updated version of the Guidelines and Standards for Visual Science Libraries Serving Optometric Institutions, a paper first issued by the Association of Visual Science Librarians (AVSL) in 1976. Their purpose is to provide minimum standards as an aid to accreditation bodies and to institutions initiating library service. In this revision, the Standards and Guidelines have been separated physically so that current information can be updated more frequently and easily. The Standards are a qualitative statement about the minimum levels of staff, collections, and services that should be expected from visual science libraries; the Guidelines contain suggested lists of journals and other quantitative data subject to frequent change. The Guidelines are available separately from the AVSL.

Architecture↗

PubMed2004

Getting more from IR-microscopy of resin-bound libraries.

A linear pixel-array detector was employed to create spatially resolved multi-layered IR-images of a large collection of polymer beads supporting carbonyl and nitrile monomers. The feasibility of creating multi-layered IR-images with nitrile IR-band separation of 4 cm(-1) was demonstrated, an important issue when considering that many monomers used to develop combinatorial libraries are structurally analogous and therefore occupy very similar positions in the IR-spectrum. Strategies for obtaining high quality spectral data from both imaging and mapping IR-microscopes without compromising on sample area, analysis time, or spatial resolution are also described.

Combinatorial Chemistry Techniques↗

PubMed2002

[Acquisition of a large collection of medical theses defended in Paris from 1798 to 1860].

The Library of the Institute and Museum of the History of Science of Florence has recently enriched its special Collections with the acquisition of a set of medical theses, theses presented and defended in Paris between 1798 and 1860. This extraordinary collection, some 10,000 items, documents the development of the medical sciences in nineteenth century France and Europe.

Academic Dissertations as Topic↗

PubMedDate not supplied

Preparing librarians to meet the challenges of today's health care environment.

OBJECTIVE: Refine the understanding of the desirable skills for health sciences librarians as a basis for developing a training program model that reflects the fundamental changes in health care delivery and information technology. DESIGN: A four-step needs assessment process: focus groups developed lists of desirable skills; the research team organized candidate skills into a taxonomy; a survey of a random sample of librarians and library users assessed perception of importance of individual skills; and the research team framed, as a unifying hypothesis, a training model. SURVEY METHODS: The survey was distributed to random samples of 150 librarians, stratified by type of library, and 150 library users, stratified by type of use. A non-randomized sample was obtained by mounting the survey on a World Wide Web server. The survey instrument included 96 distinct skills organized into 13 categories. Respondents rated the importance of each skill on a Likert scale and provided a separate ranking by identifying the ten most important skills for the profession. RESULTS: Among the participants, 51% of librarians and 36% of library users responded to the survey. All categories of skills were rated above the midpoint of priority on the Likert scale. All groups rated personality characteristics and skills as most important, with an understanding of the health sciences, education, and research being rated comparably to technical skills. CONCLUSIONS: Health sciences librarians need a new educational model that provides them with broad-based tools to discover new roles and new resources for acquiring individual skills as the need arises. A unifying training model would involve trainees in developing their learning plan in a way that promotes proactive inquiry and self-directed learning, and it would rotate the trainees through projects to provide skills and an understanding of end-user work processes.

Curriculum↗

PubMedDate not supplied

Ascaris suum: cDNA microarray analysis of 4th stage larvae (L4) during self-cure from the intestine.

There is spontaneous cure of a large portion of Ascaris suum 4th-stage larvae (L4) from the jejunum of infected pigs between 14 and 21 days after inoculation (DAI). Those L4 that remain in the jejunum continue to develop while those that have moved to the ileum are eventually expelled from the intestines. Although increases in intestinal mucosal mast cells and changes in local host immunity are coincidental with spontaneous cure, the population of L4 that continue to develop in the jejunum may counteract host protective mechanisms by the differential production of factors related to parasitism. To this end, a cDNA library was constructed from L4 isolated from pig jejunum at 21 DAI, and 93% of 1920 original clones containing a single amplicon in the range 400-1500 bp were verified by gel electrophoresis and printed onto glass slides for microarray analysis. Fluorescent probes were prepared from total RNA isolated from: (1) 3rd stage-larvae from lung at 7 DAI, (L3); (2) L4 from jejunum at 14 DAI (L4-14-J); (3) L4 from jejunum at 21 DAI (L4-21-J); (4) L4 from ileum at 21 DAI (L4-21-I, and; (5) adults (L5). Cy3-labeled L3, L4-14-J, L4-21-I and L5 cDNA, and Cy5-labeled L4-21-J cDNA were simultaneously used to screen the printed arrays containing the L4-21-J-derived cDNA library. Several clones showed consistent differential gene expression over two separate experiments and were grouped into 3 distinct transcription patterns. The data showed that sequences from muscle actin and myosin, ribosomal protein L11, glyceraldehyde-3-phosphate dehydrogenase and the flavoprotein subunit of succinate dehydrogenase were highly expressed in L4-21-J, but not in L4-21-I; as were a collection of un-annotated genes derived from a worm body wall-hypodermis library, and a testes germinal zone tissue library. These results suggest that only actively developing A. suum L4 are destined to parasitize the host and successfully neutralize host protective responses.

Animals↗

PubMed1999

Mapping the literature of diagnostic medical sonography.

Diagnostic medical sonography has been evolving as a recognized allied health occupation since the early 1970s, but no bibliometric studies of the literature of the field have been published. This study, part of the Medical Library Association Nursing and Allied Health Resources Section's Project for Mapping the Literature of Allied Health, attempted to identify the core journals in diagnostic medical sonography and determine how well these journals are indexed by MEDLINE, EMBASE/Excerpta Medica, and the Cumulative Index to Nursing and Allied Health Literature (CINAHL). Citation analysis was done using the three journals listed for the field by the Brandon/Hill list. Characteristics of two of these three journals affected the results to the extent that more data should be gathered to reach conclusions about the literature of diagnostic medical sonography as a whole. Results of the analysis do suggest that the literature of echocardiography, which is a special area of diagnostic medical sonography, is indexed much more completely by MEDLINE and EMBASE/Excerpta Medica than by CINAHL. Suggestions are made for librarians making collection development decisions in this area of allied health.

Abstracting and Indexing↗

PubMed1991

Hepatitis E virus (HEV): the novel agent responsible for enterically transmitted non-A, non-B hepatitis.

A normally endemic form of viral hepatitis is the cause of major epidemic outbreaks in developing countries. This disease has a global distribution and has been referred to as water-borne, epidemic or enterically transmitted non-A, non-B hepatitis (ET-NANBH). Although the fecal-oral route of transmission predominates, person-to-person routes of exposure were also suggested in some epidemiologic studies. The disease has been documented as having an extremely high mortality in pregnant women (approximately 20%). Sporadic cases of ET-NANBH, as well as imported travel exposures, have been reported in developed countries. Molecular cloning was hampered by the lack of a tissue culture system for virus propagation, however, an available animal model and a newly developed non-specific amplification procedure were used to clone and identify an exogenous cDNA (ET1.1) from a Burma-isolate infected animal. Molecular clones were also identified by immunoscreening of a cDNA library made from a fecal specimen collected from a Mexican outbreak of ET-NANBH. The isolation and sequencing of a set of overlapping cDNA clones had led to the recognition that this form of hepatitis is caused by a virus unlike any of the other viral hepatitis agents. The molecular characterization of HEV will lead to important pathobiologic insights and hasten the development of potentially useful diagnostic and therapeutic products for ET-NANBH.

Cloning, Molecular↗

PubMed1981

[Documentation in developing countries and related technological issues].

While bibliographical referencing and indexing services have risen to a high level of efficiency-thanks to computers and other technical innovations-the same cannot be said for documentation in the form of texts and charts. However early an order is placed, it can take weeks for the final stage of the process to be completed. If even in developed countries the process can be slow and costly, in developing countries it is affected by the same socioeconomic conditions that impede the provision of health services. In the latter countries wide variations are apparent in the numbers of libraries, collections and lending library systems, and in the accessibility of books and journals on health. For physicians and nurses at some remote locations the only source of information on discoveries and new ideas may be the advertising supplied to them by traveling medical salesmen. There are grounds for optimism, however. In these countries more and more important books and journals are being published in the health field. In Latin America a number of areas of national interaction have come into view which promise to grow into a true network of biomedical and health information.

Abstracting and Indexing↗

PubMed1983

Bibliographic control of medical illustrations--a case study in the development of a library subsystem: II. Project implementation.

This second part of a two-part paper describes how the University of California, San Francisco (UCSF) Library implemented a bibliographic control system for a medical illustrations collection. Discussed are the staffing of the project, the design of formats and computer programs, further design changes, the input process, quality evaluation of the illustrations, and production and distribution of the control products (printed indexes and microfiche replicas). The report ends with a note on the applicability of the UCSF system to other libraries, and some benefits of the project.

Abstracting and Indexing↗

PubMed2000

EMGLib: the enhanced microbial genomes library (update 2000).

As the number of complete microbial genomes publicly available is still growing, the problem of annotation quality in these very large sequences remains unsolved. Indeed, the number of annotations associated with complete genomes is usually lower than those of the shorter entries encountered in the repository collections. Moreover, classical sequence database management systems have difficulties in handling entries of such size. In this context, the Enhanced Microbial Genomes Library (EMGLib) was developed to try to alleviate these problems. This library contains all the complete genomes from prokaryotes (bacteria and archaea) already sequenced and the yeast genome in GenBank format. The annotations are improved by the introduction of data on codon usage, gene orientation on the chromosome and gene families. It is possible to access EMGLib through two database systems set up on WWW servers: the PBIL server at http://pbil.univ-lyon1.fr/emglib.html and the MICADO server at http://locus.jouy.inra.fr/micado

Base Sequence↗

PubMed2000

The Research Funding Service: a model for expanded library services.

Traditionally, libraries have provided a modest amount of information about grants and funding opportunities to researchers in need of research funding. Ten years ago, the University of Washington (UW) Health Sciences Libraries and Information Center joined in a cooperative effort with the School of Medicine to develop a complete, library-based grant and funding service for health sciences researchers called the Research Funding Service. The library provided space, access to the library collection, equipment, and electronic resources, and the School of Medicine funded staff and operations. The range of services now includes individual consultation appointments, an extensive Web site, classes on funding database searching and writing grant applications, a discussion series that frequently hosts guest speakers, a monthly newsletter with funding opportunities of interest to the six health sciences schools, extensive files on funding sources, and referral services.

Libraries, Medical↗

PubMed1993

USDA's Plant Genome Research Program.

Biotechnology will provide U.S. farmers with another green revolution. The United States Department of Agriculture has put together the Plant Genome Research Program as a coordinated multi-agency effort within the department to help develop the "new agriculture." The Cooperative State Research Service is managing the program's competitive research grants. Research topics include high- and low-resolution chromosomal maps; the isolation and transfer of economically important genes; and new technology developments. The Agricultural Research Service is the lead agency for the Plant Genome Research Program and coordinates data collection and information management resources for the program. Five species groups are collaborating in the database development effort for the program by defining the user needs for their species and collecting and evaluating their species data for the database. A central database for the Plant Genome Research Program is under development at the National Agricultural Library (NAL) and ultimately will contain data for as many as seventy-one different plant species. NAL will provide user access via Internet, dial-up modem, and, at a later date, a CD-ROM product.

Chromosome Mapping↗

PubMed1997

2006 expressed-sequence tags derived from human chromosome 7-enriched cDNA libraries.

The establishment and mapping of gene-specific DNA sequences greatly complement the ongoing efforts to map and sequence all human chromosomes. To facilitate our studies of human chromosome 7, we have generated and analyzed 2006 expressed-sequence tags (ESTs) derived from a collection of direct selection cDNA libraries that are highly enriched for human chromosome 7 gene sequences. Similarity searches indicate that approximately two-thirds of the ESTs are not represented by sequences in the public databases, including those in dbEST. In addition, a large fraction (68%) of the ESTs do not have redundant or overlapping sequences within our collection. Human DNA-specific sequence-tagged sites (STSs) have been developed from 190 of the ESTs. Remarkably, 180 (96%) of these STSs map to chromosome 7, demonstrating the robustness of chromosome enrichment in constructing the direct selection cDNA libraries. Thus far, 140 of these EST-specific STSs have been assigned unequivocally to YAC contigs that are distributed across the chromosome. Together, these studies provide > 2000 ESTs highly enriched for chromosome 7 gene sequences, 180 new chromosome 7 STSs corresponding to ESTs, and a definitive demonstration of the ability to enrich for chromosome-specific cDNAs by direct selection. Furthermore, the libraries, sequence data, and mapping information will contribute to the construction of a chromosome 7 transcript map.

Brain↗

PubMed2025

NRG-P0074 Viral Sample RU1 from Unclassified Mosigvirus Genomic Characterization and Host Range Analysis.

BACKGROUND: Machine learning models for phage-host range prediction and design require comprehensive training data on phage genomes and host ranges to predict phage-host interactions effectively. MATERIALS AND METHODS: This study characterizes phage sample NRG-P0074 viral sample RU1 from unclassified Mosigvirus, originally isolated by the Betty Kutter. The complete genome of NRG-P0074 was sequenced, annotated, and analyzed using various bioinformatic tools. Host range analysis was conducted using the Escherichia coli Reference (ECOR) Library and nine Escherichia coli (E. coli) K12 strains (Keio Knockout Collection) with single nonessential gene deletions. RESULTS: The genome of NRG-P0074 spans 168,357 base pairs with a guanine-cytosine (GC) content of 37.5%. NRG-P0074 exhibited permissiveness in 15.28% of the ECOR isolates and all 9 Keio knockout strains. Comparative genomic analysis revealed that NRG-P0074 is closely related to E. coli phage a20. Its genome is comprised of 270 coding sequences, 153 known genes, 16 terminators, 3 ribosomal-binding sites, 0 tRNAs, and 117 hypothetical proteins. CONCLUSIONS: This research provides valuable data for developing machine learning models to predict phage-host interactions, aiding the development of targeted phage therapies against antibiotic-resistant bacteria.

ECOR Library↗