Re-Engineering Data Processing Workflow to Automate Abbreviations Audit of Clinical Documentation

In KK Women's and Children's Hospital (KKH), clinical case notes audits are conducted quarterly for compliance of approved acronym usage. Existing process involves the retrieval of mixed hardcopy and electronic case notes for referencing manually to the list of approved abbreviations by clinical coder. Through the use of process re-engineering and excel application, audit coverage can thus be expanded with reduction in human dependency and errors with significant resultant savings in time spent.

Standardized nomenclature for peripheral percutaneous cannulation of the pulmonary artery in extracorporeal membrane oxygenation: Current uptake and recommendations for improvement

The rising application of extracorporeal membrane oxygenation (ECMO) has emphasized the need for consistent and standardized terminology, especially concerning peripheral percutaneous cannulation of the pulmonary artery (PPC-PA). The Extracorporeal Life Support Organization (ELSO) Nomenclature Task Force produced the ELSO Maastricht Treaty for extracorporeal life support (ECLS) Nomenclature to address this challenge. However, adherence to nomenclature recommendations has been poor in publications describing PPC-PA. We aim to describe common nomenclature errors and provide a user-guide for abbreviations that can be used by authors, reviewers, and journal staff to ensure properadherence to standardized nomenclature in publications describing PPC-PA.

Outpatient psychiatric service utilization during the Covid-19 pandemic

Background

Results

Conclusions

Consensus International Council for Commonality in Blood Banking Automation-International Society for Cell & Gene Therapy statement on standard nomenclature abbreviations for the tissue of origin of mesenchymal stromal cells

The Cellular Therapy Coding and Labeling Advisory Group of the International Council for Commonality in Blood Banking Automation and the International Society for Cell & Gene Therapy mesenchymal stromal cell (MSC) committee are providing specific recommendations on abbreviating tissue sources of culture-adapted MSCs. These recommendations include using abbreviations based on the ISBT 128 terminology model that specifies standard class names to distinguish cell types and tissue sources for culture-adapted MSCs. Thus, MSCs from bone marrow are MSC(M), MSCs from cord blood are MSC(CB), MSCs from adipose tissue are MSC(AT) and MSCs from Wharton's jelly are MSC(WJ). Additional recommendations include using these abbreviations through the full spectrum of pre-clinical, translational and clinical research for the development of culture-adapted MSC products. This does not apply to basic research focused on investigating the developmental origins, identity or functionalities of endogenous progenitor cells in different tissues. These recommendations will serve to harmonize nomenclature in describing research and development surrounding culture-adapted MSCs, many of which are destined for clinical and/or commercial translation. These recommendations will also serve to align research and development efforts on culture-adapted MSCs with other cell therapy products.

[Evaluation of the Automatic Full Form Retrieval Method from Abbreviation Using Word2vec for Terminology Expansion]

PURPOSES

The purposes of this study were to automatically extract full forms from abbreviations by using Word2vec for terminology expansion and determine the optimal parameters that ensure the highest accuracy.

METHODS

Approximately 300000 English abstracts on "image diagnosis" were collected using PubMed from January 1994 to December 2018. As preprocessing, all uppercase letters in the collected data were converted to lowercase letters, and symbols were deleted. In addition, compound word recognition was performed using RadLex published by the Radiological Society of North America and the abbreviation collection published by the Japanese Society  of  Radiological  Technology.  Next,  distributed  representations  were  generated  by  two  algorithms, continuous bag-of-words (CBOW) and Skip-gram, by using the following parameters: iteration numbers (3-85) and dimensions of word vectors (50-1000). Abbreviations were input to the generated distributed representations, and full forms with the highest cosine similarities with the abbreviations were identified. Then, the rates of the correct answers were calculated by comparing the predicted full forms to 214 gold standards extracted from the abbreviation collection.

RESULTS

The highest correct answer rate was 74.3% by Skip-gram, 200 dimensions and 10 iterations. This rate was higher in Skip-gram than in CBOW for all the tested conditions.

CONCLUSION

The accuracy of extracting the full forms by Word2vec is 74.3%, and this result contributes to the consistency of a terminology and the efficiency of terminology expansion.

Using Genetic Algorithms in a Large Nationally Representative American Sample to Abbreviate the Multidimensional Experiential Avoidance Questionnaire

Genetic algorithms (GAs) are robust machine learning approaches for abbreviating a large set of variables into a shorter subset that maximally captures the variance in the original data. We employed a GA-based method to shorten the 62-item Multidimensional Experiential Avoidance Questionnaire (MEAQ) by half without much loss of information. Experiential avoidance or the tendency to avoid negative internal experiences is a key target of many psychological interventions and its measurement is an important issue in psychology. The 62-item MEAQ has been shown to have good psychometric properties, but its length may limit its use in most practical settings. The recently validated 15-item brief version (BEAQ) is one short alternative, but it reduces the multidimensional scale to a single dimension. We sought to shorten the 62-item MEAQ by half while maintaining fidelity to its six dimensions. In a large nationally representative sample of Americans (N = 7884; 52% female; Age: M = 47.9, SD = 16), we employed a GA method of scale abbreviation implemented in the R package, GAabbreviate. The GA-derived short form, MEAQ-30 with five items per subscale, performed virtually identically to the original 62-item MEAQ in terms of inter-subscales correlations, factor structure, factor correlations, and zero-order correlations and unique latent associations of the six subscales with other measures of mental distress, wellbeing and personal strivings. The two measures also showed similar distributions of means across American census regions. The MEAQ-30 provides a multidimensional assessment of experiential avoidance whilst minimizing participant burden. The study adds to the emerging literature on the utility of machine learning methods in psychometrics.

Shorthand notation for lipid structures derived from mass spectrometry

There is a need for a standardized, practical annotation for structures of lipid species derived from mass spectrometric approaches; i.e., for high-throughput data obtained from instruments operating in either high- or low-resolution modes. This proposal is based on common, officially accepted terms and builds upon the LIPID MAPS terminology. It aims to add defined levels of information below the LIPID MAPS nomenclature, as detailed chemical structures, including stereochemistry, are usually not automatically provided by mass spectrometric analysis. To this end, rules for lipid species annotation were developed that reflect the structural information derived from the analysis. For example, commonly used head group-specific analysis of glycerophospholipids (GP) by low-resolution instruments is neither capable of differentiating the fatty acids linked to the glycerol backbone nor able to define their bond type (ester, alkyl-, or alk-1-enyl-ether). This and other missing structural information is covered by the proposed shorthand notation presented here. Beyond GPs, we provide shorthand notation for fatty acids/acyls (FA), glycerolipids (GL), sphingolipids (SP), and sterols (ST). In summary, this defined shorthand nomenclature provides a standard methodology for reporting lipid species from mass spectrometric analysis and for constructing databases.