bluuebunny/crossref_metadata_2025_split huggingface dataset:
Using Chaos-Game-Representation for Analysing the SARS-CoV-2
Lineages, Newly Emerging Strains and Recombinants
Authors: Thind Amarinder Singh , Sinha Somdatta 
Published: October 2023

Background:
Viruses have high mutation rates, facilitating rapid evolution and the
emergence of new species, subspecies, strains and recombinant forms. Accurate classification of
these forms is crucial for understanding viral evolution and developing therapeutic applications.
Phylogenetic classification is typically performed by analyzing molecular differences at the genomic
and sub-genomic levels. This involves aligning homologous proteins or genes. However,
there is growing interest in developing alignment-free methods for whole-genome comparisons that
are computationally efficient.

Methods:
Here we elaborate on the Chaos Game Representation (CGR) method, based on concepts
of statistical physics and free of sequence alignment assumptions. We adopt the CGR method for
classification of the closely related clades/lineages A and B of the SARS-Corona virus 2019
(SARS-CoV-2), which is one of the fastest evolving viruses.

Results:
Our study shows that the CGR approach can easily yield the SARS-CoV-2 phylogeny
from the available whole genomes of lineage A and lineage B sequences. It also shows an accurate
classification of eight different strains and the newly evolved XBB variant from its parental strains.
Compared to alignment-based methods (Neighbour-Joining and Maximum Likelihood), the CGR
method requires low computational resources, is fast and accurate for long sequences, and, being a
K-mer based approach, allows simultaneous comparison of a large number of closely-related sequences
of different sizes. Further, we developed an R pipeline CGRphylo, available on GitHub,
which integrates the CGR module with various other R packages to create phylogenetic trees and
visualize them.

Conclusion:
Our findings demonstrate the efficacy of the CGR method for accurate classification
and tracking of rapidly evolving viruses, offering valuable insights into the evolution and emergence
of new SARS-CoV-2 strains and recombinants.
Prevention of Contrast-induced Nephropathy in Patients Undergoing
Percutaneous Coronary Intervention
Authors: Pranata Raymond , Wahyudi Dendi Puji 
Published: October 2023

Abstract:
Contrast-induced nephropathy (CIN) or contrast-induced acute kidney injury has
varying definitions, but in general, increased serum creatinine level by ≥ 0.3 mg/dL (26.5
µmol/L) or 1.5x of baseline value or urine output <0.5 mL/kg/h within 1-7 days after contrast
media (CM) administration can be considered as CIN. CIN is one of the most common complications and is associated with increased mortality in patients undergoing percutaneous coronary
intervention (PCI). Thus, risk stratification for CIN should be made and preventive strategies
should be employed in which the intensity of the approach must be tailored to patient’s risk profile. In all patients, adequate hydration is required, nephrotoxic medications should be discontinued, and pre-procedural high-intensity statin is recommended. In patients with an estimated glomerular filtration rate (eGFR) <60 mL/min/1.73 m2, IV hydration should be started 12 hours
pre-procedure up until 12-24 hours after the procedure. Remote ischemic preconditioning may be
performed pre-procedurally. Radial first approach for vascular access is recommended. During
the procedure, low or iso-osmolar CM should be used and its volume should be limited to eGFR
x 3.7. In patients at high risk for CIN, additional contrast-sparing strategies may be applied, such
as using a contrast reduction system, 5 Fr catheter with no sideholes, CM dilution, limiting test
injection, confirming placement using guidewire, use of stent enhancing imaging technology, using metallic/software roadmap to guide PCI, use of IVUS or dextran-based OCT, and coronary
aspiration. A more advanced hydration technique based on central venous pressure, left ventricular end-diastolic pressure, or using furosemide-matched hydration, might be considered.
The Anti-hypoxia Potentials of Trans-sodium Crocetinate in Hypoxiarelated
Diseases: A Review
Authors: Klunko Natalia S. , Achmad Harun , Abdullah Tamara Muayad , Mohammed Sami , Saha Indranil , Salim Khulood Saadoon , Obaid Rasha Fadhel , Romero-Parra Rosario Mireya , Al-Hasnawi Shaker Shanawa , Al-Janabi Wissam Hamid , Farhood Bagher 
Published: October 2023

Abstract:
Crocetin is a kind of apocarotenoid carboxylic acid extracted from saffron (Crocus
sativus L.), which is effective in upregulating tissue oxygenation. However, crocetin is difficult
to solubilize. It was shown that the trans isomer of crocetin is effective in improving oxygen
diffusivity, while its cis isomer appears not to be. Hence, the isolated trans isomer of crocetin or
trans-sodium crocetinate (TSC) can be used instead of crocetin. It is shown that TSC can upregulate
hypoxic tissue oxygenation and be effective in treating some hypoxia-related diseases.
Moreover, experimental and clinical studies have reported no adverse effects following TSC
treatment, even at high doses. The current study will discuss the potential role of TSC in hemorrhagic
shock, ischemia, brain tumor radiotherapy, and others.
Broad-UNet-diff: Diffeomorphic Deformable Medical Image Registration
based on Multi-scale Feature Learning
Authors: Cheng Tianqi , Wang Lei , Wang Yuwei , Guo Xinping , Liu ChunXiang 
Published: October 2023

Introduction:
To propose a medical image registration method with significant performance improvement. The spatial transformation obtained by the traditional deformable image
registration technology is not smooth enough, and the calculation amount is too large to solve the
optimization parameters. The network model proposed based on deep learning medical image
registration technology has some limitations, which cannot guarantee the registration of topological structures, resulting in the loss of spatial features. It makes the model have topological conservation and transform reversibility, has the ability to learn more multi-scale features and complex image structures, and captures finer changes while clearly encoding global correlation.

Method:
Based on the core UNet model, a deformable image registration method with a new
architecture Broad-UNet-diff is proposed. The model is equipped with asymmetric parallel convolution and uses diffeomorphism mapping.

Result:
Compared with the seven classical registration methods under the brain MRI datasets, the
proposed method has significantly improved the registration performance. In particular, compared
with the advanced TransMorph-diff registration method, the Dice score can be improved by 12
%, but only the 1/10 parameters are needed.

Conclusion:
This method confirms its convincing effectiveness and accuracy.
Continuous Critical Respiratory Parameter Measurements Using a Single Low-Cost Relative Humidity Sensor: Evaluation Study
Authors: Vaussenat Fabrice , Bhattacharya Abhiroop , Payette Julie , Benavides-Guerrero Jaime A , Perrotton Alexandre , Gerlein Luis Felipe , Cloutier Sylvain G 
Published: October 2023

Background
Accurate and portable respiratory parameter measurements are critical for properly managing chronic obstructive pulmonary diseases (COPDs) such as asthma or sleep apnea, as well as controlling ventilation for patients in intensive care units, during surgical procedures, or when using a positive airway pressure device for sleep apnea.

Objective
The purpose of this research is to develop a new nonprescription portable measurement device that utilizes relative humidity sensors (RHS) to accurately measure key respiratory parameters at a cost that is approximately 10 times less than the industry standard.

Methods
We present the development, implementation, and assessment of a wearable respiratory measurement device using the commercial Bosch BME280 RHS. In the initial stage, the RHS was connected to the pneumotach (PNT) gold standard device via its external connector to gather breathing metrics. Data collection was facilitated using the Arduino platform with a Bluetooth Low Energy connection, and all measurements were taken in real time without any additional data processing. The device’s efficacy was tested with 7 participants (5 men and 2 women), all in good health. In the subsequent phase, we specifically focused on comparing breathing cycle and respiratory rate measurements and determining the tidal volume by calculating the region between inhalation and exhalation peaks. Each participant's data were recorded over a span of 15 minutes. After the experiment, detailed statistical analysis was conducted using ANOVA and Bland-Altman to examine the accuracy and efficiency of our wearable device compared with the traditional methods.

Results
The perfused air measured with the respiratory monitor enables clinicians to evaluate the absolute value of the tidal volume during ventilation of a patient. In contrast, directly connecting our RHS device to the surgical mask facilitates continuous lung volume monitoring. The results of the 1-way ANOVA showed high P values of .68 for respiratory volume and .89 for respiratory rate, which indicate that the group averages with the PNT standard are equivalent to those with our RHS platform, within the error margins of a typical instrument. Furthermore, analysis utilizing the Bland-Altman statistical method revealed a small bias of 0.03 with limits of agreement (LoAs) of –0.25 and 0.33. The RR bias was 0.018, and the LoAs were –1.89 and 1.89.

Conclusions
Based on the encouraging results, we conclude that our proposed design can be a viable, low-cost wearable medical device for pulmonary parametric measurement to prevent and predict the progression of pulmonary diseases. We believe that this will encourage the research community to investigate the application of RHS for monitoring the pulmonary health of individuals.
Implementing Telemedicine in Clinical Practice in the First Digital Hematology Unit: Feasibility Study
Authors: Santamaria Amparo , Antón Maldonado Cristina , Sánchez-Quiñones Beatriz , Ibarra Vega Nataly , Ayo González Maikel , Gonzalez Cabezas Pedro , Carrasco Moreno Rafael 
Published: October 2023

Background
Currently, there are no telemedicine models that fully integrate all areas of hematology into daily practice.

Objective
The objectives of this feasibility study were to assess the practicality of implementing telemedicine into our clinical practice in the first Digital Hematology Unit and propose an innovative integrative design for clinical practice.

Methods
We designed the Digital Hematology Unit, which is a specific physical space dedicated to carrying out telemedicine and monitoring patients in a holistic way. Also, a satisfaction questionnaire was performed and health care indicators were measured.

Results
In 2021, there were 1331 first visits and 7534 follow-up visits. Of the first visits, 12.2% (n=163) were face-to-face and 87.8% (n=1168) were telematic. For follow-up visits, 29.9% (n=2251) were face-to-face and 70.1% (n=5283) were telematic. The health care management indicators showed that we had a waiting time of less than 4 days and took less than 4 hours to answer interconsultations among specialists. Moreover, patients reported a high level of satisfaction with the services provided.

Conclusions
Our Digital Hematology Unit, as a case of success, serves as an example of how innovative digital solutions can contribute to the quality of care and excellence in health care achieved through a digital transformation process led by hematologists.
Genetic diversity of HIV-1 at the current stage of the epidemic in the Russian Federation: an increase in the prevalence of recombinant forms
Authors: Antonova A. A. , Kuznetsova A. I. , Ozhmegova E. N. , Lebedev A. V. , Kazennova E. V. , Kim K. V. , Tumanov A. S. , Glinkina L. N. , Bobkova M. R. 
Published: October 2023

The aim of the study: assessment of genetic diversity and prevalence of recombinant forms of HIV-1 at the current stage of the epidemic in the Russian Federation.Materials and methods. The study used collections of blood and its components obtained from 3178 HIV-infected patients of federal and regional «Centers for the Prevention and Control of AIDS» in the period from 2011 to 2020. Next, the extraction of proviral DNA or HIV-1 viral RNA was carried out, followed by amplification of the pol gene region and sequencing of the ampli fication products. Then, the obtained nucleotide sequences were analyzed to determine their subtype and the prevalence of recombinant forms of the virus was estimated.Results and discussion. It was found that sub-subtype A6 remains the dominant (82.9%) genetic variant of HIV-1 at the current stage of the epidemic in the Russian Federation. The second most common was subtype B — 7.14%. The share of each of the recombinant forms of HIV-1 — CRF02_AG and CRF03_AB accounted for about 1% of all analyzed samples, CRF63_02A6 — about 3.59%. In addition to circulating recombinant forms of HIV-1, 87 unique recombinants (2.74%) were identified. A significant (p<0.001) increase in the frequency of occurrence of HIV-1 recombinant forms of over time was revealed. The largest proportion of recombinant forms of HIV-1 was detected in the Siberian (35.83%) and Northwestern (15.98%) federal districts, the smallest — in the Volga (1.99%) and Ural (2.36%) federal districts.Conclusion. The results obtained indicate the growing genetic diversity of HIV-1 in the Russian Federation, along with the spread of HIV infection beyond vulnerable groups, as well as an increase in the frequency of occurrence of recombinant forms of HIV-1 over time and their involvement in the epidemic process.
Rare Variant in Metallothionein 1E Increases the Risk of Type 2 Diabetes in a Chinese Population
Authors: Zou Xiantong , Hu Mengdie , Huang Xiuting , Zhou Lingli , Li Meng , Chen Jing , Ma Liping , Gao Xueying , Luo Yingying , Cai Xiaoling , Li Yufeng , Zhou Xianghai , Li Na , Shi Yuanping , Han Xueyao , Ji Linong 
Published: October 2023

OBJECTIVE
To uncover novel targets for the treatment of type 2 diabetes (T2D) by investigating rare variants with large effects in monogenic forms of the disease.

RESEARCH DESIGN AND METHODS
We performed whole-exome sequencing in a family with diabetes. We validated the identified gene using Sanger sequencing in additional families and diabetes- and community-based cohorts. Wild-type and variant gene transgenic mouse models were used to study the gene function.

RESULTS
Our analysis revealed a rare variant of the metallothionein 1E (MT1E) gene, p.C36Y, in a three-generation family with diabetes. This risk allele was associated with T2D or prediabetes in a community-based cohort. MT1E p.C36 carriers had higher HbA1c levels and greater BMI than those carrying the wild-type allele. Mice with forced expression of MT1E p.C36Y demonstrated increased weight gain, elevated postchallenge serum glucose and liver enzyme levels, and hepatic steatosis, similar to the phenotypes observed in human carriers of MT1E p.C36Y. In contrast, mice with forced expression of MT1E p.C36C displayed reduced weight and lower serum glucose and serum triglyceride levels. Forced expression of wild-type and variant MT1E demonstrated differential expression of genes related to lipid metabolism.

CONCLUSIONS
Our results suggest that MT1E could be a promising target for drug development, because forced expression of MT1E p.C36C stabilized glucose metabolism and reduced body weight, whereas MT1E p.C36Y expression had the opposite effect. These findings highlight the importance of considering the impact of rare variants in the development of new T2D treatments.
PERAN PEMERINTAH DESA DALAM PEMBERDAYAAN KELOMPOK TANI DI DESA SUKARAME BARU KECAMATAN KUALUH HULU KABUPATEN LABUHAN BATU UTARA
Authors: Susanti Sani , Sari Putri 
Published: October 2023

Penelitian ini dilatar belakangi dengan permasalahan peran pemerintah desa dalam pembinaan, pelayaan dan pengembangan pada kelompok tani desa Sukarame Baru Kecamatan Kualuh Hulu Kabupaten Labuhan Batu Uatra.Tujuan dalam penelitian ini adalah untuk mengetahui peran pemerintah desa dalam pembinaan, pelayaan dan pengembangan pada kelompok tani desa Sukarame. Jenis penelitian yang digunakan adalah deskriptif dengan pendekatan kuantitatif. Sampel dalam penelitian ini berjumlah sebanyak 88 orang. Pengambilan sampel menggunakan tehnik random sampling. Alat pengumpulan data yang digunakan adalah kuesioner, wawancara dan observasi dilapangan. Hasil penelitian menunjukkan bahwa variabel peran pemerintah desa dalam pemeberdayaan kelompok tani dengan indikator pelaksanaan kebijakan, pelaksanaan program-program dan pembinaan secara keseluruhan berada pada skor rata-rata 295 dengan kriteria yang tergolong tinggi. Kesimpulan dalam penelitian ini adalah Gambaran peran pemerintah desa dalam pemberdayaan kelompok tani menunjukkan bahwa kelompok tani desa Sukarame Baru adalah sebuah kelompok yang dapat dibergunakan dalam memajukan masyarakat desa Sukarame Baru serta adanya peran dari pemerintah desa sehingga mampu memfasilitasi apa saja yang dibutuhkan dalam membina, mengembangkan dan melayani kelompok tani
The use of a combination of Diclofenac and Orphenadrine for analgesia in knee replacement
Authors: Kuzmina M. V. , Shlyk I. V. , Panafidina V. A. , Kozhevin A. A. , Polushin Yu. S. , Krivov V. O. 
Published: October 2023

The objective was to assess the effectiveness and safety of the use of a fixed combination of Diclofenac and Orphenadrine (Neodolpasse) for analgesia in patients who underwent knee replacement.Materials and methods. 40 patients who underwent knee replacement in conditions of combined spinal-conduction analgesia (femoral nerve block) were included into the study. In the main group(n = 20), Neodolpasse (a combination of Diclofenac 75mg and of Orphenadrine 30 mg in 250 ml of solution) was administered intravenously 30 minutes before surgery, and then in the postoperative period 2 times a day for 2 days. In the comparison group (n = 20), Ketoprofen (intravenously,100 mg) was used instead of Neodolpasse 30 minutes before surgery, in the postoperative period, it was continued 2 times a day for 2 days (intravenously, 100 mg). The severity of the pain was assessed with a visual analog scale (VAS) 6, 12, 24 and 48 hours after surgery. The assessment of the restoration of the supporting function of the operated leg and the ability of the patient to perform active movements in the knee joint was carried out after 24 and 48 hours. The possible side effects was assessed throughout the entire period.Results. The median value of VAS after 24 hours in the main group was 2.5 (2;3) points, which was significantly lower in compassion to VAS of the control group 4(3;5) p = 0.006. A more pronounced analgesic effect while using Diclofenac and Orphenadrine persisted for 48 hours, the median value of VAS in the main group after surgery was 2 (2;3), in the control group – 3 (2.8;4) p = 0.021. There were no significant differences in the recovery time of restoration of the supporting ability of the operated leg and knee joint function, in the frequency of Tramadol use in the compared groups. Side effects and complications were not identified. Conclusion. The use of the fixed dose of Neodolpasse as part of multimodal perioperative analgesia in patients, who underwent knee replacement, contributed to a decrease in the severity of pain syndrome in the postoperative period.
Infusion-transfusion therapy and correction of water–electrolyte disorders in simultaneous liver fragment transplantation and kidney retransplantation (clinical case)
Authors: Novikov D. I. , Zaitsev A. Yu. , Kut’ina O. E. , Filin A. V. , Zokoev A. K. , Metelin A. V. , Shchkaturov S. V. , Khalimov M. Ya. 
Published: October 2023

A clinical case of simultaneous surgery in the volume of transplantation of the left lateral sector of the liver and kidney retransplantation from one living related donor to a 10-year-old girl with cirrhosis of the liver and after transplantectomy of the donor kidney is presented. The child born in 2013 was transferred to program hemodialysis in 2015 as a result of the development of end-stage chronic kidney disease (CKD) in the outcome of congenital kidney dysplasia. In October 2022, renal replacement therapy was started as a result of a relapse of end-stage CKD. In January 2023, she suffered purulent cystitis. 02.24.2023 – transplantectomy. 05.05.2023, simultaneous transplantation of the left lateral sector of the liver and kidney allotransplantation from a living related donor were performed. Anesthesiologists faced a serious problem in the form of the selection of adequate infusion therapy, taking into account the combination of two surgical interventions that radically differ in the tactics of anesthesiological support, as well as the correction of water – electrolyte disorders in the complete absence of diuresis throughout the fifteen-hour surgical intervention
Critical illness polyneuromyopathy (literature review)
Authors: Plotnikov G. P. , Chuiko M. R. , Kudryavtsev A. N. , Hadzhiev I. B. , Kovrazhkina E. A. 
Published: October 2023

Neuromuscular disorders are extremely common in critically ill patients; they significantly affect the recovery time and limit the quality of subsequent life. Until now, it is difficult to assess the presence of such disorders in intensive care units. The presented literature analysis of the current state of the issues of epidemiology, pathogenesis and pathophysiology of critical illness polyneuromyopathy (CIPNM) determines the current directions in the diagnosis and treatment of this pathology
بطاقة تقويمية للنمو الجسمي لتلاميذ المرحلة الابتدائية للصفوف (الرابع، الخامس، السادس) في مركز محافظة كركوك
Authors: علي عبدالله احمد , احمد جاسم عبد المنعم 
Published: October 2023

أن مشكلة البحث الحالي تتمحور حول عدم وجود نظام تقويمي على درجة مقبولة يمكن ان يستخدم في التقويم الموضوعي للنمو الجسمي لتلاميذ المدارس الابتدائية في مركز محافظة كركوك بالاضافة الى عدم وجود دليل يمكن الاعتماد عليه في هذه العملية.
تهدف الدراسة إلى:

التوصل الى الوحدات المرشحة عن متغيرات القياسات الجسمية لتلاميذ المدارس الابتدائية للصفوف (الرابعة، الخامسة، السادسة) في محافظة كركوك.
بناء بطاقة تقويمية للنمو الجسمي لتلاميذ المدارس الابتدائية (الرابعة، الخامسة، السادسة).

استخدم الباحثان المنهج الوصفي بالأسلوبين (المسحي والعلاقات الارتباطية المتبادلة)، وحدد مجتمع البحث بالطريقة العمدية من تلاميذ المرحلة الابتدائية ( الذكور) في مركز محافظة كركوك للعام الدراس (2020-2021)، والذي أشتمل على (28) مدرسة للبنين في مركز محافظة كركوك بواقع (5310) تلميذ، وقد اعتمد الباحثان على(23) قياساً جسمياً لتلاميذ الصفوف (الرابع، الخامس، السادس)، وقام الباحثان بجمع البيانات الخام وتمت معالجتها بعدد من الوسائل الإحصائية.
وقد توصل الباحثان إلى:

تم التوصل الى الوحدات المرشحة لتلاميذ المدارس الابتدائية للصفوف ( الرابع، الخامس، السادس) عن متغيرات القياسات الجسمية تم التوصل إلى (9) وحدات تم قبول ستٍ منها فقط في ضوء الشروط الموضوعة لقبول الوحدات وهي: (الوحدة الأولى: سمك الثنايا الجلدية لسمانة الساق، الوحدة الثانية: محيط العضد، الوحدة الثالثة: الطول الكلي للجسم، الوحدة الرابعة: طول العضد، الوحدة الخامسة: طول الجذع مع الراس، الوحدة السادسة: عرض الصدر).

2- تم بناء بطاقة تقويمية للنمو الجسمي لتلاميذ المدارس الابتدائية للصفوف (الرابعة ، الخامسة ، السادسة) من خلال:

تم التوصل إلى وضع الدرجات المعيارية للقياسات الجسمية المرشحة لتلاميذ المدارس الابتدائية (الرابعة والخامسة والسادسة) في محافظة كركوك وفقاً للوحدات المرشحة للمتغيرات.

تم التوصل إلى رسم شكل بياني ( بروفايل ) يمثل الاوساط الحسابية للقياسات الجسمية المرشحة لتلاميذ المدارس الابتدائية للصفوف (الرابعة والخامسة والسادسة) في محافظة كركوك وفقاً للوحدات المرشحة للمتغيرات.