Code Mapping Research Articles

\u201cY no qued\xf3 nada, nada de la casa, todo sali\xf3 volando\u201d (And there was nothing left, nothing of the house, everything flew away): a critical medical ecological perspective on the lived experience of hurricane Mar\xeda in Puerto Rico

BackgroundEcological disasters create dramatic changes as man-made and natural ecosystems adapt to their effects. In 2017, Hurricanes Irma and María devastated Puerto Rico. Public focus after such traumatic ecological events often neglects pre-existing community dynamics, heterogeneity of lived experience, and complexity of decision-making in the disaster context. We intended to better understand the lived experience of this ecological trauma in communities across ecosystems in Puerto Rico and among those displaced to Florida.MethodWe used the Critical Medical Ecological (CME) framework to assess the relative contribution of ecological dimensions on lived experience across community levels and time. We used qualitative methods with emic coding and etic mapping of salient constructs to the ecological model. In total, 96 people participated in 23 discussion encounters. Two people coded interviews in Spanish using Dedoose. We identified common themes in sequential order mapped to elements of the CME to approximate the participants’ temporal experience.ResultsCodes applied to the period of the hurricane’s landfall, traverse, and exit were markedly distinct from the other two periods (before and after) examined in this study: the experience of the hurricane’s strike was highly personal and, at this level, reflected a mix of sociocultural, biological, and abiotic factors. After the hurricanes, social and community factors re-emerged while new risks and conditions arose that were biological (e.g., leptospirosis, no food or water) or abiotic (e.g., unusable roads/bridges, structures destroyed), but created ongoing stressors and social needs for communities. As we found, the dynamics of the social and household landscape sometimes involved the decision to leave Puerto Rico altogether, or forced people to continually face and adapt to the ongoing collapse in basic services that were only slowly and differentially restored.ConclusionLived experience across each stage of the hurricanes differed substantially from one another. Communities disrupted by ecological disaster are also frequently entangled within global economic and political histories and dependencies that could preclude recovery. Island nations are especially vulnerable to both climate-induced ecological change and political-economic exploitation. The ongoing health effect of the hurricane remains palpable in many communities of Puerto Rico and among the diaspora in Florida.

Molecular design, molecular docking and ADMET study of cyclic sulfonamide derivatives as SARS-CoV-2 inhibitors

Severe acute respiratory syndrome coronavirus type 2 (SARS-CoV-2) continues to spread globally with more than 172 million confirmed cases and 3.57 million deaths. Cyclic sulfonamide derivative is identified as a successful compound and showed anti-SARS-CoV-2 activity. In this study, the structure and activity relationships of 35 cyclic sulfonamide compound inhibitors are investigated by using three-dimensional quantitative structure-activity relationship (3D-QSAR) and holographic quantitative structure-activity relationship (HQSAR). Two models with good statistical parameters and reliable predictive ability are obtained from the same training set, including Topomer CoMFA (= 0.623,= 0.938,= 0.893) model and HQSAR (= 0.704,= 0.958,) model. The established models not only have good stability, but also show good external prediction ability for the test set. The contour and color code maps of the models provide a lot of useful information for determining the structural requirements which might affect the activity; this information paves the way for the design of four novel cyclic sulfonamide compounds, and predictes their pIC50 values. We explore the interaction between the newly designed molecule and SARS-CoV-2 3CLpro by molecular docking. The docking results show that GLU166, GLN192, ALA194, and VAL186 may be the potential active residues of the SARS-CoV-2 inhibitor evaluated in this study. Finally, the oral bioavailability and toxicity of the newly designed cyclic sulfonamide compounds are evaluated and the results show that the four newly designed cyclic sulfonamide compounds have major ADMET properties and can be used as reliable inhibitors against COVID-19. These results may provide useful insights for the design of effective SARS-CoV-2 inhibitors.

New Quantum and LCD Codes over Finite Fields of Even Characteristic

For an integer m ≥ 1, we study cyclic codes of length l over a commutative non-chain ring F2m + uF2m , where u2 = u . With a new Gray map and Euclidean dual-containing cyclic codes, we provide many new and superior codes to the best-known quantum error-correcting codes. Also, we characterise LCD codes of length l with respect to their generator polynomials and prove that F2m − image of an LCD code of length l is an LCD code of length 2l . Finally, we provide several optimal LCD codes from the Gray images of LCD codes over F2m + uF2m .

MP53-08 A QUALITATIVE ASSESSMENT OF DRIVERS, BARRIERS, AND VALUE IN ROBOTIC-ASSISTED LOWER URINARY TRACT RECONSTRUCTION

You have accessJournal of UrologyTrauma/Reconstruction/Diversion: Ureter (including Pyeloplasty) and Bladder Reconstruction (including fistula), Augmentation, Substitution, Diversion II (MP53)1 Sep 2021MP53-08 A QUALITATIVE ASSESSMENT OF DRIVERS, BARRIERS, AND VALUE IN ROBOTIC-ASSISTED LOWER URINARY TRACT RECONSTRUCTION Katerina Lembrikova, George Aninwene, Peyton Tebon, Matthew Becker, Allen Siapno, Justine Yamashiro, Erika Wood, and Renea Sturm Katerina LembrikovaKaterina Lembrikova More articles by this author , George AninweneGeorge Aninwene More articles by this author , Peyton TebonPeyton Tebon More articles by this author , Matthew BeckerMatthew Becker More articles by this author , Allen SiapnoAllen Siapno More articles by this author , Justine YamashiroJustine Yamashiro More articles by this author , Erika WoodErika Wood More articles by this author , and Renea SturmRenea Sturm More articles by this author View All Author Informationhttps://doi.org/10.1097/JU.0000000000002083.08AboutPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail Abstract INTRODUCTION AND OBJECTIVE: Despite randomized controlled trials (RCTs) demonstrating feasibility and short-term oncologic non-inferiority of robotic radical cystectomy and urinary diversion, its superiority over the open approach has not been definitively demonstrated. The aims of this study are to identify factors influencing transition to robotic surgery and value requirements for adoption in lower urinary tract reconstruction (LUTR). METHODS: Over 300 stakeholders including physicians, administrators, and industry representatives were identified by LinkedIn, social media, references, and publications. Each was contacted with a request to participate in a structured interview including targeted questions and open-ended discussion. Interviews were conducted virtually and evaluated by a bioengineer, business professional, and urologist via a modified framework method. An initial review of interview notes identified main themes, followed by additional reviews for mapping of codes and stances across stakeholders. RESULTS: 29 urologists (17 academic, 12 non-academic), 25 device representatives, 22 administrators, 10 patients, 10 researchers, and 6 referring physicians were interviewed (n=102). Factors influencing robotic use in LUTR are illustrated (Table). Interviewees reported median procedures to achieve competence and maintain skill were 25 total (IQR 20,30) and 15 per year (10,20), respectively. Complications and readmissions were identified as the most important value requirements. When considering adoption of novel technology for LUTR, the median minimum required decrease in complications and readmissions from a patient perspective was 5% (IQR 1,5) and 1% (1,1) and for urologists was 3% (1, 15) and 8% (1,19), respectively. CONCLUSIONS: There are a range of drivers and barriers to robotics use in LUTR that may not be fully captured by RCTs. Yet, the desired end goals of decreased complications and readmissions resonated across stakeholders. Novel offerings should focus on technical aspects of the procedure that directly affect post-operative recovery beyond improvements provided by Enhanced Recovery After Surgery protocol utilization. Additionally, the perceived learning curve for robotic LUTR must be addressed to increase uptake in this space. Source of Funding: NSF Innovation Corps: #2045366 © 2021 by American Urological Association Education and Research, Inc.FiguresReferencesRelatedDetails Volume 206Issue Supplement 3September 2021Page: e941-e941 Advertisement Copyright & Permissions© 2021 by American Urological Association Education and Research, Inc.MetricsAuthor Information Katerina Lembrikova More articles by this author George Aninwene More articles by this author Peyton Tebon More articles by this author Matthew Becker More articles by this author Allen Siapno More articles by this author Justine Yamashiro More articles by this author Erika Wood More articles by this author Renea Sturm More articles by this author Expand All Advertisement Loading ...

Socially shared metacognition in a project-based learning environment: A comparative case study

Despite an increase in research on social regulation of learning, studies on socially shared metacognition are still scarce. This has led to a lack of understanding concerning how groups co-construct metacognitive knowledge, skills, and experiences. In this comparative case study, we qualitatively analyzed video recordings from the meetings of six groups of pharmacy graduate students. For this, we developed a coding scheme that characterized the metacognitive processes of small groups in a project-based learning environment. Using log data collected from a collaboration app, we distinguished which groups rated themselves the highest and lowest overall for metacognitive experiences and then examined differences in the socially shared metacognition processes between these groups. We were able to map 100 strategy codes into four categories with various subcategories representing the cognitive and metacognitive processes used by both groups. We also found that the two groups did not differ on the proportions of different modes of regulation but did differ qualitatively, with the high self-rated group's strategy enactment being more deliberate, targeted, and cohesive than that of the lower self-rated group. Our findings expand understanding of socially shared metacognitive strategies, which has implications for those who aim to improve collaboration by promoting appropriate group-level processes. • Socially shared metacognition was qualitatively analyzed and compared in groups. • Code mapping showed four types of sequential cognitive and metacognitive processes. • The high self-rated group used more deliberate and targeted strategies. • The high self-rated group utilized a “more regulated other.” • The “more regulated other” helped the group navigate group-level regulation.

Logical Observation Identifiers Names and Codes (LOINC®) Applied to Microbiology: A National Laboratory Mapping Experience in Taiwan.

Background and Objective: Logical Observation Identifiers Names and Codes (LOINC) is a universal standard for identifying laboratory tests and clinical observations. It facilitates a smooth information exchange between hospitals, locally and internationally. Although it offers immense benefits for patient care, LOINC coding is complex, resource-intensive, and requires substantial domain expertise. Our objective was to provide training and evaluate the performance of LOINC mapping of 20 pathogens from 53 hospitals participating in the National Notifiable Disease Surveillance System (NNDSS). Methods: Complete mapping codes for 20 pathogens (nine bacteria and 11 viruses) were requested from all participating hospitals to review between January 2014 and December 2016. Participating hospitals mapped those pathogens to LOINC terminology, utilizing the Regenstrief LOINC mapping assistant (RELMA) and reported to the NNDSS, beginning in January 2014. The mapping problems were identified by expert panels that classified frequently asked questionnaires (FAQs) into seven LOINC categories. Finally, proper and meaningful suggestions were provided based on the error pattern in the FAQs. A general meeting was organized if the error pattern proved to be difficult to resolve. If the experts did not conclude the local issue’s error pattern, a request was sent to the LOINC committee for resolution. Results: A total of 53 hospitals participated in our study. Of these, 26 (49.05%) used homegrown and 27 (50.95%) used outsourced LOINC mapping. Hospitals who participated in 2015 had a greater improvement in LOINC mapping than those of 2016 (26.5% vs. 3.9%). Most FAQs were related to notification principles (47%), LOINC system (42%), and LOINC property (26%) in 2014, 2015, and 2016, respectively. Conclusions: The findings of our study show that multiple stage approaches improved LOINC mapping by up to 26.5%.

Optimization of Spreading Code Using Modified Differential Evolution for Wireless Communication

Spread spectrum linked to optimization techniques play a very important role in today’s world. Optimization gives the best one among all the solutions and the spread spectrum is used to minimize distortion, hence optimized spreading code is very important in wireless communication. This study shows a comparison of two recent modified techniques of differential evolution (DE) with the help of engineering design problems and application of that modified DE, considering the better one, in wireless communication to optimize logistic map based spreading code. A comparative study of properties of both optimized and non-optimized spreading code is also discussed in this paper. The performance of the optimized spreading code is also evaluated with the help of bit error rate (BER) by applying it in static and dynamic direct sequence spread spectrum system (DSSS). The performance of the proposed technique (optimized dynamic logistic map code based DSSS) displays better results than non-optimized spreading code and orthogonal spreading code considering BER. Static optimization is improved by 40% than non-optimized static, dynamic optimization is improved by 70% than static optimization but orthogonal is showing 33% improvement comparing to static optimization and dynamic optimization is improved by 56% than orthogonal one. Therefore, the proposed method can be efficiently applied in the wireless communication system.

Nurses' Perspectives of the Need for Physical Therapy Services During an Acute Postpartum Stay: A Focus Group

Hypothesis/Purpose: Complications in the postpartum period can include pain, urinary incontinence, diastasis recti abdominis, and pelvic floor injury. Physical therapists are in a unique position to address these concerns during the acute postpartum stay. However, there is a lack of consensus regarding the role of physical therapy (PT) in this patient population. Mother-Baby (MB) nurses work closely with postpartum mothers; therefore, the purpose of this study was to gain nurses' perspectives of their knowledge of and need for PT in the acute postpartum setting. Subjects: Nine MB nurses and 1 newly graduated nurse with MB experience from 2 hospitals near Winchester, Virginia, participated. Materials/Methods: Contact was made with nurse managers to arrange a time for the focus group. A demographic questionnaire was distributed prior to the session. A student moderator led the semistructured interview with preselected open-ended questions. The focus groups were audio/video recorded and transcribed. Transcriptions were used for theme coding and concept map development. Results: Five participants were present for each focus group. Four main themes and 1 subtheme emerged. These included lack of understanding of PT scope of practice with a subtheme of special circumstances, limited time, role overlap, and appropriate timing of PT. Lack of understanding of PT scope of practice was the overarching theme. Conclusion: MB nurses demonstrated a limited understanding of the PT scope of practice and their potential role postpartum. Further education and interdisciplinary collaboration may be beneficial to enhance postpartum care in the United States.

What is the diagnostic value of the Centers for Disease Control and Prevention criteria for surgical site infection in fracture-related infection?

BackgroundFracture-related infection (FRI) remains one of the most challenging complications in orthopaedic trauma surgery. An early diagnosis is of paramount importance to guide treatment. The primary aim of this study was to compare the Centers for Disease Control and Prevention (CDC) criteria for the diagnosis of organ/space surgical site infection (SSI) to the recently developed diagnostic criteria of the FRI consensus definition in operatively treated fracture patients. MethodsThis international multicenter retrospective cohort study evaluated 257 patients with 261 infections after operative fracture treatment. All patients included in this study were considered to have an FRI and treated accordingly (‘intention to treat’). The minimum follow-up was one year. Infections were scored according to the CDC criteria for organ/space SSI and the diagnostic criteria of the FRI consensus definition. ResultsOverall, 130 (49.8%) FRIs were captured when applying the CDC criteria for organ/space SSI, whereas 258 (98.9%) FRIs were captured when applying the FRI consensus criteria. Patients could not be classified as having an infection according to the CDC criteria mainly due to a lack of symptoms within 90 days after the surgical procedure (n = 96; 36.8%) and due to the fact that the surgery was performed at an anatomical localization not listed in the National Healthcare Safety Network (NHSN) operative procedure code mapping (n = 37; 14.2%). ConclusionThis study confirms the importance of standardization with respect to the diagnosis of FRI. The results endorse the recently developed FRI consensus definition. When applying these diagnostic criteria, 98.9% of the infections that occured after operative fracture treatment could be captured. The CDC criteria for organ/space SSI captured less than half of the patients with an FRI requiring treatment, and seemed to have less diagnostic value in this patient population.

Tactics Overview for Implementing High-Performance Computing on Embedded Platforms

Future space missions will rely on novel high-performance computing to support advanced intelligent on-board algorithms with substantial workloads that mandates firm real-time and power constraints requirements. Consequently, these advanced algorithms require significantly faster processing beyond the conventional space-grade central processing unit capabilities. Moreover, they require careful selection of the target embedded platform from a diverse set of available architectures along with several implementation tactics to map the algorithms to the target architecture to fully unlock its capabilities. In this paper, we present a study of different architectures and embedded computing platforms for the satellite on-board computers. Moreover, we present a comprehensive overview of recent implementation tactics such as source code mapping and transformations. Additionally, we highlight some optimization techniques such as partitioning and co-designing using hardware accelerators. Finally, we discuss several implementation analysis methodologies to derive optimized code implementations. The top ranked YOLO-v3, as a deep learning based object detection algorithm, is selected as a case study model to be optimized using OpenVINO toolkit. The experimental results show an improvement ratios up to 73%, 41%, and 34% in terms of frames per second, CPU utilization, and cache memory, respectively. The study presented in this paper aims to guide the researchers in the field of high performance embedded computing in terms of different hardware architectures along with several implementation tactics.

RETRACTED ARTICLE: The abnormal precipitation in rainy season based on genetic algorithm and the security of big data in network

In this paper, cloudsim cloud simulation tool is studied, and its running environment is reasonably configured. Taking the platform as the background, the improved genetic algorithm proposed in this paper is used for simulation experiment that is to optimize the genetic algorithm through simulated annealing behavior. Through the simulation experiment of the improved genetic algorithm, it can be known that the genetic algorithm designed in this paper can satisfy multiple customers one by one and has a certain improvement effect on cloud service quality. In this paper, the problem of rainfall anomaly in city D is studied. The results show that the rainfall anomaly of city D is related to solar activity, 500hPa height field in winter and SST in the Central South Pacific from June to August of the previous year. It is found that there is almost no rainfall during the high solar activity years, while there is frequent rainfall near the low solar activity years. Finally, according to the homomorphic encryption mechanism, this paper studies the protection of data confidentiality in computer network security and the multistorage technology of big data. In this research scheme, by adding a certain number of virtual objects to two different computing information dummies, we successfully protect the data such as the number of items owned by the data owner, the content of the items owned, and the item objects called by the user. In addition, this paper uses bilinear mapping and RS coding technology to create related protocols to solve some problems, such as infinite verification of big data integrity, error data recovery, and protection of data owner’s computing resources. Through the design of solutions to the above problems, this paper successfully completed the protection of big data resources and network security based on cloud computing environment.

Assessing the Uniformity of Uveitis Clinical Concepts and Associated ICD-10 Codes Across Health Care Systems Sharing the Same Electronic Health Records System

Big data studies may allow for the aggregation of patients with rare diseases such as uveitis to answer important clinical questions. Standardization of uveitis-related variables will be necessary, including the International Statistical Classification of Diseases and Related Health Problems, Tenth Revision (ICD-10) codes used to identify patients of interest. There are currently limited data on the uniformity of diagnosis mapping to ICD-10 codes for uveitis diagnoses among different health systems. To assess the degree of uniformity in mapping of uveitis clinical concepts to ICD-10 codes across health care systems using the same electronic health record (EHR) system. This multicenter survey study was conducted between September 14 and October 9, 2020, at 5 academic health care systems that use the Epic EHR. Researchers from the University of Washington, Harvard University, Stanford University, Yale University, and the University of California, San Francisco queried 54 uveitis-related diagnostic terms and recorded the associated ICD-10 codes. The degree of uniformity for uveitis clinical concepts and associated ICD-10 codes. Fifty-four uveitis-related diagnostic terms were queried within the Epic EHR at 5 different health care systems. There was perfect agreement among all 5 centers for 52 of the 54 diagnostic terms. Two diagnostic terms had differences in ICD-10 coding: juvenile idiopathic arthritis associated chronic uveitis and intermediate uveitis. Intermediate uveitis was associated with codes H20.1x (ICD-10 description: chronic iridocyclitis) or H20.9 (ICD-10 description: unspecified iridocyclitis) in 3 centers while being associated with code H30.2x (ICD-10 description: posterior cyclitis) at the 2 remaining centers. The discrepancies appear to be related to a recent update in diagnostic mapping in the Epic EHR. This study suggests that ICD-10 code mapping to uveitis diagnostic terminology appears to be highly uniform at different centers with the Epic EHR. However, temporal changes in diagnosis mapping to ICD-10 codes and a lack of 1-to-1 mapping of diagnosis to ICD-10 code add additional sources of complexity to the interpretation of big data studies in uveitis.

Electron energy distributions in the extended gas nebulae associated with high-z AGN: Maxwell–Boltzmann versus κ distributions

ABSTRACT Emission line observations together with photoionization models provide important information about the ionization mechanisms, densities, temperatures, and metallicities in active galactic nuclei (AGN)-ionized gas. Photoionization models usually assume Maxwell–Boltzmann (M–B) electron energy distributions (EED), but it has been suggested that using κ distributions may be more appropriate and could potentially solve the discrepancies in temperatures and abundances found in HII regions and planetary nebulae. We consider the impact of the presence of κ distributions in photoionized nebulae associated with AGN and study how this might affect spectral modelling and abundance analyses for such regions. Using the photoionization code MAPPINGS 1e, we compute models adopting M–B and κ distributions of electron energies and compare the behaviour of emission line ratios for different values of κ, gas metallicity, density, ionization parameter, and SED slope. We find that the choice of EED can have a large impact on some UV and optical emission lines emitted by photoionized nebulae associated with AGN, and that the impact of adopting a κ distribution is strongly dependent on gas metallicity and ionization parameter. We compile a sample of line ratios for 143 type 2 AGN and compare our models against the observed line ratios. We find that for 98 objects, κ distributions provide a better fit to the observed line ratios than M–B distributions. In addition, we find that adopting κ-distributed electron energies results in significant changes in the inferred gas metallicity and ionization parameter in a significant fraction of objects.

Selective image encryption method based on dynamic DNA coding and new chaotic map

In order to improve the various security indicators and encryption and decryption speeds of dynamic DNA coding in the field of image encryption, a selective image encryption method based on new chaotic map and dynamic DNA coding is proposed. In this paper, we first constructed a one-dimensional chaotic map with higher Lyapunov exponent and better dynamic behavior, and then improved the local graph structure algorithm to make it better to select the image region, and use the constructed chaotic map generates pseudo-random sequences to dynamically encode and manipulate the selected area of DNA, and finally generate a complete encrypted image. Experimental results show that compared with the existing methods, the proposed algorithm has a sufficiently large key space, better statistics and differential characteristics, and can resist common attacks such as chosen plaintext attacks, noise attacks, and differential attacks. Therefore, the algorithm has higher security, and significantly improves the encryption and decryption speed of dynamic DNA coding in the field of image encryption, which has a broad application prospect in the field of image encryption.

Survival outcomes with the use of immunotherapy (IO) in patients (pts) with metastatic non-small cell lung cancer (mNSCLC) at a large hybrid cancer institute.

e21192 Background: Landmark trials have shown increased survival in pts who receive IO for NSCLC as compared to chemotherapy (chemo). Median overall survival (mOS) ranged from 17-26 months (mo); however, mOS in several published “real-world” retrospective studies are lower, ranging from 8-12 mo, with about 4-5 months on IO treatment. We sought to define mOS of pts with mNSCLC who received IO as monotherapy or in combination with chemo as first line therapy at Levine Cancer Institute. Methods: We retrospectively reviewed 315 adult pts with mNSCLC without driver mutations diagnosed between 2016 and 2019. The Kaplan-Meier method was used to estimate and compare OS between IO and IO + chemo. Univariate and multivariate Cox models were used to evaluate risk factors (RF) for OS. RFs considered included age, sex, race, smoking status, histology, first-line treatment type, and metastatic (mets) sites. Results: Baseline pt characteristics were: 40% female, 77% white, 20% Black, 34% current smokers and 60% former smokers. Median age was 69 years (45-88) in pts receiving IO alone and 63 years (28-84) in pts receiving IO + chemo. Tumor characteristics were: 76% adenocarcinoma and 17% squamous cell carcinoma. PD-L1 TPS distribution was: 39% for 0%, 22% for 1-49%, and 39% for ≥50%. Distribution of mets was 10% adrenal, 40% bone, 30% brain, 14% liver, 31% lung. mOS for pts receiving IO and IO + chemo as first line therapy was 17 and 14.8 mos, respectively (P = .209). Median duration of IO received was 4.25 months (0 to 43.6). mOS as stratified by PD-L1 TPS was 14.5 mos for PD-L1 0%, 13.3 mos for PD-L1 1-49%, and 19.5 mos for PD-L1 ≥50% (P = .163). OS was significantly different between IO and IO + chemo after adjusting for age. No OS differences were seen between white and Black or between all pts vs pts with brain mets (brain-specific interventions not reviewed). The table summarizes significant findings only (P < 0.05). Conclusions: Pts with mNSCLC treated first-line with IO either alone or with chemo at Levine Cancer Institute lived longer than those in similar published “real-world” cohorts. Median OS was highest in patients with PD-L1 TPS ≥50%, although not statistically significant. While not unusual to identify worse outcomes in those with bone and liver mets, interestingly brain metastasis was not associated with worse survival. In this cohort, when adjusted for age, IO alone trends toward improved survival. Although there was no OS difference based on race, further investigation will seek to uncover any other disparities contributing to outcomes, such as insurance status and zip code mapping. To our knowledge, this provides the largest analysis of this patient population outside of a clinical trial.[Table: see text]

Deep-learning-based automated terminology mapping in OMOP-CDM.

Accessing medical data from multiple institutions is difficult owing to the interinstitutional diversity of vocabularies. Standardization schemes, such as the common data model, have been proposed as solutions to this problem, but such schemes require expensive human supervision. This study aims to construct a trainable system that can automate the process of semantic interinstitutional code mapping. To automate mapping between source and target codes, we compute the embedding-based semantic similarity between corresponding descriptive sentences. We also implement a systematic approach for preparing training data for similarity computation. Experimental results are compared to traditional word-based mappings. The proposed model is compared against the state-of-the-art automated matching system, which is called Usagi, of the Observational Medical Outcomes Partnership common data model. By incorporating multiple negative training samples per positive sample, our semantic matching method significantly outperforms Usagi. Its matching accuracy is at least 10% greater than that of Usagi, and this trend is consistent across various top-k measurements. The proposed deep learning-based mapping approach outperforms previous simple word-level matching algorithms because it can account for contextual and semantic information. Additionally, we demonstrate that the manner in which negative training samples are selected significantly affects the overall performance of the system. Incorporating the semantics of code descriptions more significantly increases matching accuracy compared to traditional text co-occurrence-based approaches. The negative training sample collection methodology is also an important component of the proposed trainable system that can be adopted in both present and future related systems.

Application of Reaction Path Search Calculations to Potential Energy Surface Fits.

There has been significant progress in recent years in the use of machine learning techniques to model high-dimensional reactive potential energy surfaces using large-scale data obtained from ab initio electronic structure calculations. In these methods, the strategy used to gather data becomes a key issue as the molecular size increases. In this work, we examine the applicability of the reaction path search algorithm implemented in the Global Reaction Route Mapping (GRRM) code as a data-gathering approach. The electronic energies and gradients sampled by using the GRRM calculation are directly used in potential energy surface fitting to a permutationally invariant polynomial function. This simple approach was applied to the HNS and HCNO reaction systems, and we found that the fitted potential energy surfaces reasonably reproduce the features of the electronic structure calculations used in the GRRM calculations. This suggests that the GRRM sampling scheme can be used to construct an initial potential energy surface.

Structural investigation of tetrahydropteridin analogues as selective PLK1 inhibitors for treating cancer through combined QSAR techniques, molecular docking, and molecular dynamics simulations

The forced expression of Polo-like kinase 1 (PLK1) was found to be carcinogenic, making PLK1 an attractive drug target for the treatment of tumor diseases. Drugs that can simultaneously inhibit BRD4 and PLK1 protein overexpression have more ideal therapeutic effects for treating cancer and have been widely favored. This present research aims to systemically explore the interaction mechanism of novel dual DBR4/PLK1 inhibitor BI-2536 scaffold-based derivatives as selective PLK1 inhibitors using 3D/2D-QSAR, molecular docking, molecular dynamics (MD) simulations. The performance and predictive capabilities of the generative QSAR models were evaluated through internal and external verification techniques. The topomer CoMFA and HQSAR models were showed suitable reliabilities (q2 = 0.625, 0.697) and predictive abilities (rpred2 = 0.916, 0.877, respectively) for training and test set of selective PLK1 inhibitors. The SAR of the PLK1 inhibitors was summarized by the information provided by electrostatic field, hydrophobic field, and atomic color code map, which was verified by the molecular docking model. Through the search of the R-group in the topomer search module and the combination of the higher activity contributing groups in the existing molecules, 12 new compounds with theoretically high anti-PLK1 protein activity were obtained, which showed appropriate docking score, suitable ADMET, and drug-likeness properties. The molecular docking modeling verified by MD reveals significant amino acid residues (Cys67, Cys133/134/, Arg136, Phe183) at the active site of PLK1. These theoretical results are possibly beneficial to the rational design of new potent selective PLK1 inhibitors or dual BRD4/PLK1 inhibitors with enhanced effects to treat cancer.

THE HAUSDORFF DIMENSION OF THE REGION OF MULTIPLICITY ONE OF OVERLAPPING ITERATED FUNCTION SYSTEMS ON THE INTERVAL

We consider iterated function systems on the unit interval generated by two contractive similarity transformations with the same similarity ratio. When the ratio is greater than or equal to $1/2$, the limit set is the interval itself and the code map is not one-to-one. We study the set of points of the limit set having unique addresses. We obtain a formula for the Hausdorff dimension of the set when the similarity ratio belongs to certain intervals by applying the concept of graph directed Markov system.

Health outcomes coding trends in the US Food and Drug Administration's Sentinel System during transition to International Classification of Diseases-10 coding system: A brief review.

Background and purposeThe transition from International Classification of Diseases, 9th revision, clinical modification (ICD‐9‐CM) to ICD‐10‐CM poses a challenge to epidemiologic studies that use diagnostic codes to identify health outcomes and covariates. We evaluated coding trends in health outcomes in the US Food and Drug Administration's Sentinel System during the transition.MethodsWe reviewed all health outcomes coding trends reports on the Sentinel website through November 30, 2019 and analyzed trends in incidence and prevalence across the ICD‐9‐CM and ICD‐10‐CM eras by visual inspection.ResultsWe identified 78 unique health outcomes (22 acute, 32 chronic, and 24 acute or chronic) and 140 time‐series graphs of incidence and prevalence. The reports also included code lists and code mapping methods used. Of the 140 graphs reviewed, 81 (57.9%) showed consistent trends across the ICD‐9‐CM and ICD‐10‐CM eras, while 51 (36.4%) and 8 (5.7%) graphs showed inconsistent and uncertain trends, respectively. Chronic HOIs and acute/chronic HOIs had higher proportions of consistent trends in prevalence definitions (83.9% and 78.3%, respectively) than acute HOIs (28.6%). For incidence, 55.6% of acute HOIs showed consistent trends, while 41.2% of chronic HOIs and 39.3% of acute/chronic HOIs showed consistency.ConclusionsResearchers using ICD‐10‐CM algorithms obtained by standardized mappings from ICD‐9‐CM algorithms should assess the mapping performance before use. The Sentinel reports provide a valuable resource for researchers who need to develop and assess mapping strategies. The reports could benefit from additional information about the algorithm selection process and additional details on monthly incidence and prevalence rates.Key points We reviewed health outcomes coding trends reports on the US FDA Sentinel website through November 30, 2019 and analyzed trends in incidence and prevalence across the International Classification of Diseases, 9th revision, Clinical Modification (ICD‐9‐CM) and ICD‐10‐CM eras by code mapping method and the type of health outcomes of interest (acute, chronic, acute or chronic).More than a third of the 140 time‐series graphs of incidence and prevalence of health outcomes showed inconsistent or uncertain trends. Consistency in trends varied by code mapping method, type of health outcomes of interest, and whether the measurement was incidence or prevalence.Studies using ICD‐9‐CM‐based algorithms mapped to ICD‐10‐CM codes need to assess the performance of the mappings and conduct manual refinement of the algorithms as needed before using them.