bluuebunny/crossref_metadata_2025_split huggingface dataset:
Granulomatosis with polyangiitis (Wegener’s): a clinical case of overdiagnosis of pulmonary tuberculosis
Authors: Laushkina Zh. A. , Pushkareva E. Yu. , Medvedev S. A. , Filimonov P. N. , Yagubkin P. A. 
Published: February 2022

Granulomatosis with polyangiitis (GPA) is a disease characterized by necrotizing granulomatous inflammation of small and medium vessels, mainly in the upper respiratory tract, lungs, and kidneys. Verifying the diagnosis can be difficult due to the variety of clinical presentations, possible multiple organ damage, and atypical course. GPA patients may have nonspecific symptoms characteristic of other bronchopulmonary diseases, which often leads to diagnostic errors. Methods. The article presents an analysis of literature data on the clinical and radiological aspects of lung damage during GPA and clinical observation of a 26-year-old patient who has been under regular follow-up at the TB department for infiltrative tuberculosis without bacterial excretion and received anti-tuberculosis therapy. At the end of the main course of treatment, the patient underwent surgery. Pulmonary tuberculosis was excluded based on histological and bacteriological examinations, but pneumonia with abscesses was diagnosed. Five years after the surgery, infiltrative changes in the operated right lung were detected again during the fluorography. These findings were regarded as tuberculosis. Tuberculosis treatment was carried out with a change in chemotherapy regimens due to the lack of radiological improvement. Results. The patient was referred to the Novosibirsk TB Research Institute. The institute specialists have expressed doubts about the tuberculous etiology because of the long pulmonary disease anamnesis, the previous X-ray findings, and pathological changes in the right lung. These doubts served as the basis to repeat the pathomorphological examination, which led to the diagnosis of granulomatosis with polyangiitis. Conclusion. According to the presented clinical observation, the difficulties of timely verification of the diagnosis have been demonstrated, which is associated with the lack of vigilance among doctors regarding GPA.
Automatic text rubrication using machine learning algorithms
Authors: Челышев Э.А. , Оцоков Ш.А. , Раскатова М.В. 
Published: February 2022

Автоматическая рубрикация текстов с использованием алгоритмов машинного обучения. Рассмотрено решение задачи автоматической рубрикации русскоязычных текстов с использованием алгоритмов машинного обучения на примере корпуса новостных статей как задачи классификации на некоторое число непересекающихся классов. Показан алгоритм подготовки текстовых данных для классификации и его практическая реализация на языке программирования Python. Проведен анализ существующих методов нормализации токенов. Представлены результаты проведенного исследования по построению ряда классификаторов для решения задачи классификации русскоязычных текстов. Обобщающая способность классификаторов оценена по ряду метрик.
The article presents the solution of the problem of automatic rubrication of Russian-language texts using machine learning algorithms on the example of a corpus of news articles. This problem is considered as a classification problem for a certain number of disjoint classes. The algorithm of preparing text data for classification and its practical implementation in the Python programming language is presented. The analysis of existing methods of token normalization is carried out. The results of the research on the construction of a number of classifiers for solving the problem of classification of Russian-language texts are presented. The generalizing ability of classifiers is estimated by a number of metrics.
Estimación espaciotemporal de la recarga potencial en un sistema pseudokárstico tropical
Authors: Patiño-Rojas Sandra M. , Jaramillo Marcela 
Published: February 2022

La estimación de la recarga permite determinar la incidencia de los cambios climáticos en la oferta hídrica y definir las tasas de bombeo adecuadas para que no ocurra sobreexplotación en los acuíferos. En este sentido, se hizo la primera estimación espaciotemporal de la recarga potencial por precipitación en la Dunita de Medellín, un sistema pseudokárstico tropical considerado zona de recarga lejana de los acuíferos aluviales del Valle de Aburrá (Colombia). Actualmente, estos acuíferos son explotados para uso industrial, pero debido al acelerado crecimiento poblacional podrían ser una fuente para el consumo humano en un futuro. Se emplearon dos métodos de balance hídrico, el balance hídrico superficial (surface water balance, SWB) a escala diaria y el de Schosinsky a escala mensual. Además, se evaluaron tres escenarios climáticos diferentes: año seco-El Niño, año húmedo-La Niña y año normal. Se encontró que la recarga se veía fuertemente influenciada por la precipitación y por la textura del suelo. Así, los valores promedios máximos se reportaron para La Niña (1.597 mm/año) y los mínimos para El Niño (813,5 mm/año). Se encontró, además, que el método de Schosinsky subestimó la recarga en un 20 % debido a que esta es un proceso que se da a escala de eventos que solo pueden apreciarse en los registros diarios de precipitación. A pesar de las diferencias, los resultados evidenciaron no solo el potencial de la Dunita de Medellín como zona de recarga de los acuíferos aluviales, sino también la marcada dependencia de la recarga frente a los fenómenos climáticos como el ENOS.
The Analysis of Capacity Increase in Beef Cattle Population in The South Konawe Regency
Authors: Abadi Musram , Nafiu La Ode , Sani La Ode Arsad 
Published: February 2022

This research aimed to determine the maximum potential for increasing the population of beef cattle in the South Konawe Regency Southeast Sulawesi Province based on natural resources and the ability of the head of the farmer family to raise cattle. This research was conducted 5th October to 28th December 2019. Determination of research location was carried out purposely (purposive sampling), with the consideration that South Konawe Regency was a central area for Bali cattle breeding. The data analysis was carried out by analyzing the supporting capacity of forage from pasture land and non-pasture land (rice fields, plantations, forests and moor) as well as the production of agricultural food crop waste (rice, corn, peanuts, green beans, cassava, sweet potatoes and soybeans), using tabular data in the form of data on food crop production and land area. Potential analysis of beef cattle business development in South Konawe Regency using the calculation of the Capacity Increase of Ruminant Population/Kapasitas Peningkatan Populasi Ternak Ruminansia (KPPTR). Based on the results of research in South Konawe Regency, the number can still be increased by 7,478 Animal Units. If the value is converted to adult female-male cows with an age of >2 years, the population addition can be done as many as 7,478 cows. Meanwhile, if converted to female-male heifers with an age of 1-2 years, the population increase can be increased by 14,956 and if converted to female-male calves with an age of >1 year, the population increase can be done up to 28,912.
Selection of Weaning and Adult Weight to Increase Growth of Deutch Democratic Yokohama (DDY) Mice
Authors: Cahyowati Meireni , Baliarti Endang , Sumadi Sumadi 
Published: February 2022

This study aims to determine the increase of the growth of Deutch Democratic Yokohama (DDY) strain mice through a selection program from generation 0 (G0, n = 323 ), generation 1 (G1, n = 367) to generation 2 (G2, n = 386). The variables used for the selected program were weaning weight (WW) and adult weight (AW). For WW, the selection was made on the best 50% WW, and for the AW, the selection was carried out by choosing the best eight males and the best 32 females, using the value of genetic parameters and breeding values. Based on the study, WW increased from G0 to G1 and G1 to G2 of 12,63% and 12,05%, respectively. The increase in AW from G0 to G1 and G1 to G2 was 7,85 % and 17,78%, respectively. The conclusion was that it was possible to increase weaning weight and adult weight by selecting the program.
Evaluation of the Performances and IOFCC of Broilers Fed the Whole, the Skinless, and the Skin of Leubim Fish Waste Meals Based Partial Replacement Feed of Commercial Diets
Authors: Zulfan Zulfan , Daud Muhammad , Fitri Cut Aida , Munthe Wenny Ultaria , Rasyiqah Siti Zharfa 
Published: February 2022

This study aimed to evaluate the performances of broilers fed the commercial diet CP511 (CCP) partially substituted with leubim fish waste meal (LFW) processed into different parts i.e. whole leubim fish waste meal (LFWW), skinless leubim fish meal (LFM‒S), and leubim fish waste skin meal (LFWS), each mixed with yellow corn (YC) and top mix (TM). This research was conducted at the Field Laboratory of Animal Husbandry (LLP), Syiah Kuala University from March 17 to April 21, 2021. This study used 100 DOC broiler chickens strain CP 707 and commercial local fish meal (CFM). The study used a completely randomized design (CRD) consisting of 5 treatments and 4 replications. The treatment was CCP= 100% CP511 (control+) and the CCP replaced with: CFM (control-), LFWW, LFM‒S, and LFWS with the equal amount of 8% each and the addition of 8% YC + 0.5% TM each. The results showed that although statistically no significant differences (P>0.05), the inclusion of LFW meals in the form of LFWW, LFM‒S, or LFWS plus YC + TM each to substitute partially CCP tended to have higher body weight gain (BWG), final body weight (FBW), feed intake, and better feed conversion ratio (FCR), and protein efficiency ratio (PER), while protein intake (PI) significantly increased (P<0.05). The inclusion of LFW-based diets reduced feed cost and increased income over feed & chick cost (IOFCC). The LFW‒S diet did not result in better broiler performances than the LFWW diet. In conclusion, LFW meals processed as a whole, without the skin, and the only skin added with yellow corn and top mix as a partial replacement for the commercial diet increased BWG, FBW, PI, FI, and improved FCR, reduced feed cost, and generated better profit. It was suggested not to dispose of the skin out of the waste since the whole leubim fish waste meal carried out more advantages.
Creating Crosswalks for Knee Outcomes After ACL Reconstruction Between the KOOS and the IKDC-SKF
Authors: Johnson Jessica L. , Boulton Aaron J. , Spindler Kurt P. , Huston Laura J. , Spalding Tim , Asplin Laura , Risberg May Arna , Snyder-Mackler Lynn 
Published: February 2022

Update
This article was updated on May 16, 2022, because of incorrect URLs for the Disclosure of Potential Conflicts of Interest and the appendix on pages 723 and 730, respectively.
An erratum has been published: J Bone Joint Surg Am. 2022 Jul 6;104(13):e60.

Background:
Anterior cruciate ligament (ACL) registries do not all use the same patient-reported outcome measures, limiting comparisons and preventing pooling of data for meta-analysis. Our objective was to create a statistical crosswalk to convert cohort and registry mean Knee Injury and Osteoarthritis Outcome Scores (KOOS) to International Knee Documentation Committee-Subjective Knee Form (IKDC-SKF) scores and vice versa to allow these comparisons.

Methods:
Data from 3 ACL registries were pooled (n = 14,412) and were separated into a training data set (70% of the sample) or a validation data set (30% of the sample). The KOOS and the IKDC-SKF scores were available prior to the operation and at 1, 2, and 5 or 6 years postoperatively. We used equipercentile equating methods to create crosswalks in the training data set and examined accuracy in the validation data set as well as bootstrapping analyses to assess the impact of sample size on accuracy.

Results:
Preliminary analyses suggested that crosswalks could be attempted: large correlations between scores on the 2 measures (r = 0.84 to 0.94), unidimensionality of scores, and subpopulation invariance were deemed sufficient. When comparing actual scores with crosswalked scores in the validation data set, negligible bias was observed at the group level; however, individual score deviations were variable. The crosswalks are successful for the group level only.

Conclusions:
Our crosswalks successfully convert between the KOOS and the IKDC-SKF scores to allow for a group-level comparison of registry and other cohort data.

Clinical Relevance:
These crosswalks allow comparisons among different national ligament registries as well as other research cohorts and studies; they also allow data from different patient-reported outcome measures to be pooled for meta-analysis. These crosswalks have great potential to improve our understanding of recovery after ACL reconstruction and aid in our ongoing efforts to improve outcomes and patient satisfaction, as well as to allow the continued analysis of historical data.
The effects of magnesium concentration in high-magnesium calcite allochems on dolomitization: Insights from high-temperature dolomite synthesis experiments
Authors: Teoh Chia Pei , Laya Juan Carlos , Rose Katharine , Kaczmarek Stephen 
Published: February 2022

ABSTRACT
Selective dolomitization of HMC allochems in Neogene carbonates is a common phenomenon. It has been proposed that the higher magnesium concentrations [Mg] in these allochems promotes dolomitization. To directly investigate the effects of [Mg] (reported as mol% MgCO3) in biogenic HMC on dolomitization, high-temperature (200 °C) dolomitization experiments were conducted. Dolomite reaction rate, stoichiometry, and microstructures were tracked during dolomitization for a variety of biogenic HMC reactants, including Goniolithon, Lithothamnion, Lithophyllum, Corallina officinalis, Heterocentrotus mamillatus, and Mellita quinquiesperforata. Solids were characterized using standard powdered X-ray diffraction (XRD) and scanning electron microscopy (SEM). In general, biogenic HMC reactants are progressively replaced by protodolomite products between 2 and 46 hours. In the experiment using Corallina officinalis, no products were detected by XRD after 46 hours. Initial protodolomite products are subsequently replaced by ordered dolomite as the reactions proceed. Dolomitization rate and protodolomite stoichiometry do not correlate with [Mg] of the biogenic HMC reactants. Dolomitized HMC skeletons reliably retain the original microstructure of the HMC reactants, consistent with the microcrystalline mimetic textures observed in nature. These findings collectively suggest that under the conditions investigated, dolomitization is less affected by the concentration of magnesium in the HMC reactants relative to other known factors, such as temperature, reactant mineralogy, organic content, skeletal texture, and fluid chemistry. These results imply that the observed correlation between coralline red algae abundance and global dolomitization events in the Neogene is not driven by the elevated magnesium concentration of the HMC reactants.
Ecosystem services from coffee agroforestry in Central America:
Estimation using the CAF2021 model
Authors: Oijen Marcel Van , Haggar Jeremy , Barrios Mirna , Büchi Lucie , Cerda Rolando , Cerretelli Stefania , Lopez Erick , Filho Elias de Melo Virginio , Ospina Alejandra 
Published: February 2022

Abstract
The goal of sustainable coffee production requires multiple functions from agroforestry
systems. Many are difficult to quantify and data are lacking, hampering the choice
of shade tree species and agronomic management. Process-based modelling may help quantify
ecosystem services and disservices. We introduce and apply coffee agroforestry model CAF2021
(https://doi.org/10.5281/zenodo.5725277). The model allows for complex systems with up to
three shade tree species. It simulates coffee yield, timber and fruit production by shade trees, soil
loss in erosion, C-sequestration, N-fixation, -emission and -leaching. To calibrate the model, we
used multivariate data from 32 different treatments applied in two long-term coffee agroforestry
experiments in Costa Rica and Nicaragua. Without any further calibration, the model was then
applied to agroforestry systems on 89 farms in Costa Rica and 79 in Guatemala where yields
had been reported previously in farmer interviews. Despite wide variation in environmental and
agronomic conditions, the model explained 36% of yield variation in Costa Rica but only 15% in
Guatemala. Model analysis quantified trade-offs between yield and other ecosystem services as a
function of fertilisation and shading.
Concomitant Surgical Transatrial And Transapical Approach For CRT-D Implantation In A Patient With Severe Chest Burn Skin Injury: Case Report
Authors: Riba Adam , Toth Roland , Rashed Aref , Németh Barnabás , Árvai Ferenc , Lupkovics Géza , Gombócz Karoly , Tahin Tamas 
Published: February 2022

Abstract
Introduction: According to the current clinical guidelines, CRT-D implantation is indicated for patients with history of malignant ventricular arrhythmias, symptomatic heart failure, wide QRS or high-degree AV block. Case presentation: A patient with DCM received a CRT-D with the conventional method but 1 month later skin necrosis was diagnosed above the device. We believed, that the 40 years old burn injury was the reason for the necrosis, resulted from the altered microcirculation of the skin. The complete system was extracted from the patient and we utilized negative pressure wound therapy for the treatment of the remaining tissue. We decided to perform surgical reimplantation of the device using mini thoracotomy: right atrial and right ventricular leads were introduced through the right atrial appendage and the left ventricular lead was inserted transapically. The device was implanted under the less scabby abdominal skin. 6 weeks later there was no sign of other complications and the surgical wounds were healed completely.Conclusions: We successfully applied the combination of trans-atrial and trans-apical lead placement, which has not been reported in the literature yet. It serves as an alternative method, if the standard approach is not feasible.
Effect of pelvic floor muscles exercise by extracorporeal magnetic innervations on the bladder neck and urinary symptoms: a research article
Authors: Long Cheng Yu , Chang Chieh Yu , Wu Ching Hu , Lin Kun Ling , Liu Yi Yin , Lu Zi Xi 
Published: February 2022

Abstract
Background: We aim to investigate the changes of the bladder neck (BN) and urinary symptoms before and after passive pelvic floor exercise by extracorporeal magnetic innervations (ExMI) therapy. Methods: We assessed the BN and urinary symptoms of 20 women with stress urinary incontinence (SUI) by trans-perineal ultrasound and questionnaires before and after the ExMI therapy from January 2011 to February 2021.Results: The urinary frequency and SUI incidences were significantly decreased following the ExMI therapy (McNemar's test; P <0.01). The therapeutic efficacy of SUI was 75%. A significant decrease was noted in the pad test (paired t-test, P <0.05). Nocturia had been improved in a marginally significance (McNemar’s test, P=0.063). Any difference in the pre- versus post-treatment regarding other urinary symptoms was not statistically significant. There was a significant difference in Urinary Distress Inventory (UDI-6) (paired t-test, P < 0.001), yet Incontinence Impact Questionnaire (IIQ-7) showed marginally significant difference (paired t-test, P = 0.066). Three domains of lubrication, orgasm and satisfaction in the female sexual function index (FSFI) showed significant differences (paired t-test, P <0.05), while other sexual symptoms had no significant difference before and after ExMI. Trans-perineal ultrasound found that bladder neck mobility and Q-tip straining angle were not statistically significant (paired t-test, P > 0.05).Conclusion: The ExMI is effective for SUI by strengthening the pelvic floor muscle with treatment efficacy of 75%. However, it has a limited effect on bladder neck mobility, as evidenced by trans-perineal ultrasonography.
Lymphatic-Preserving Treatment Sequencing with Immune Checkpoint Inhibition Unleashes cDC1-Dependent Antitumor Immunity in HNSCC
Authors: Gutkind J. Silvio , Saddawi-Konefka Robert , O'Farrell Aoife , Faraji Farhoud , Clubb Lauren , Allevato Michael , Anang Nana-Ama , Jensen Shawn , Wang Zhiyong , Wu Victoria , Yung Bryan , Msrai Riyam Al , Pietryga Ida Franiak , Molinolo Alfredo , Mesirov Jill , Simon Aaron , Fox Bernard , Bui Jack , Sharabi Andrew , Cohen Ezra , Califano Joseph 
Published: February 2022

Abstract
Despite the promise of immune checkpoint inhibition (ICI), therapeutic responses remain limited. This raises the possibility that standard of care treatments delivered in concert may compromise the tumor response. To address this, we employed tobacco-signature HNSCC murine models in which we mapped tumor-draining lymphatics and developed models for regional lymphablation with surgery or radiation. Remarkably, we found that lymphablation eliminates the tumor ICI response, significantly worsening overall survival and repolarizing the tumor- and peripheral- immune compartments. Mechanistically, within tumor-draining lymphatics, we observed an upregulation of cDC1 cells and IFN-I signaling and show that both are necessary for the ICI response and lost with lymphablation. Ultimately, we provide a mechanistic understanding of how standard oncologic therapies targeting regional lymphatics impact the tumor response to immune- oncology therapy in order to define rational, lymphatic-preserving treatment sequences that mobilize systemic antitumor immunity, achieve optimal tumor responses, control regional metastatic disease, and confer durable antitumor immunity.
Optical Genome Mapping Improves Genetic Diagnosis in Chronic Granulomatous Diseases
Authors: Hui Xiaoying , Yang Jingmin , Wang Wenjie , Zhang Jing , Hou Jia , Ying Wenjing , Sun bijun , Liu Lipin , Liu Danru , Zhou Qinhua , Sun Jinqiao , Wang Xiaochuan 
Published: February 2022

Abstract
Purpose: Chronic granulomatous disease(CGD) is mainly caused by defects in genes encoding subunits of NADPH oxidase complex (CYBB, CYBA, NCF1, NCF2, NCF4), and its chaperone (CYBC1). Next generation sequencing has successfully identified pathogenic variants in 131 clinically confirmed CGD patients in the single center, left 4 cases negative. This study sought to explore new technology to resolve these diagnostic dilemmas at whole genome level. Methods: The clinical data were collected. Optical genome mapping (OGM) was performed to investigate clinically-relevant structural variants greater than 500 bp in size. Targeted long-range PCR followed by next generation sequencing and Sanger sequencing were utilized for confirming breakpoints junctions.Results: OGM find a novel pathogenic copy number variant in NCF2 (1506 bp ~ 1526 bp in length) in P3. The exact downstream breakpoints of this deletion located in a thymine (T) rich region (18 T in reference and 58 T in P3), which remain difficult to detect with current short-read and long-read sequencing. Together with a second pathogenic variant in NCF2 in trans (c.1130_1135del) detected by exome sequencing, P3 was genetically diagnosed. Conclusion: OGM improves genetic diagnostic yield (1/3) in challenging CGD patients. Structural variants in NCF2 and other genes should be considered in undiagnosed CGD disease. Further research in undiagnosed population with OGM is warranted.