bluuebunny/crossref_metadata_2025_split huggingface dataset:
DNA methylation analysis of tumor suppressor genes in liquid biopsy components of early stage NSCLC: a promising tool for early detection
Authors: Markou Α. , Londra D. , Tserpeli V. , Kollias Ι. , Tsaroucha E. , Vamvakaris I. , Potaris K. , Pateras I. , Kotsakis Α. , Georgoulias V. , Lianidou Ε. 
Published: May 2022

Abstract
Purpose
Circulating tumor cells (CTCs) and circulating tumor DNA (ctDNA) analysis represents a liquid biopsy approach for real-time monitoring of tumor evolution. DNA methylation is considered to be an early event in the process of cancer development and progression. The aim of the present study was to evaluate whether detection of DNA methylation of selected tumor suppressor genes in CTC and matched ctDNA provides prognostic information in early stage NSCLC.

Experimental design
The methylation status of five selected gene promoters (APC, RASSFIA1, FOXA1, SLFN11, SHOX2) was examined by highly specific and sensitive real-time methylation specific PCR assays in: (a) a training group of 35 primary tumors and their corresponding adjacent non-cancerous tissues of early stage NSCLC patients, (b) a validation group of 22 primary tumor tissues (FFPEs) and 42 peripheral blood samples of early stage NSCLC patients. gDNA was isolated from FFPEs, CTCs (size-based enriched by Parsortix; Angle and plasma, and (c) a control group of healthy blood donors (n = 12).

Results
All five gene promoters tested were highly methylated in the training group; methylation of SHOX2 promoter in primary tumors was associated with unfavorable outcome. RASSFIA and APC were found methylated in plasma-cfDNA samples at 14.3% and 11.9%, respectively, whereas in the corresponding CTCs SLFN11 and APC promoters were methylated in 7.1%. The incidence of relapses was higher in patients with a) promoter methylation of APC and SLFN11 in plasma-cfDNA (P = 0.037 and P = 0.042 respectively) and b) at least one detected methylated gene promoter in CTC or plasma-cfDNA (P = 0.015).

Conclusions
DNA methylation of these five gene promoters was significantly lower in CTCs and plasma-cfDNA than in the primary tumors. Combination of DNA methylation analysis in CTC and plasma-cfDNA was associated with worse DFI of NSCLC patients. Additional studies are required to validate our findings in a large cohort of early stage NSCLC patients.
Considerations for artificial intelligence clinical impact in oncologic imaging: an AI4HI position paper
Authors: Marti-Bonmati Luis , Koh Dow-Mu , Riklund Katrine , Bobowicz Maciej , Roussakis Yiannis , Vilanova Joan C. , Fütterer Jurgen J. , Rimola Jordi , Mallol Pedro , Ribas Gloria , Miguel Ana , Tsiknakis Manolis , Lekadir Karim , Tsakou Gianna 
Published: May 2022

AbstractTo achieve clinical impact in daily oncological practice, emerging AI-based cancer imaging research needs to have clearly defined medical focus, AI methods, and outcomes to be estimated. AI-supported cancer imaging should predict major relevant clinical endpoints, aiming to extract associations and draw inferences in a fair, robust, and trustworthy way. AI-assisted solutions as medical devices, developed using multicenter heterogeneous datasets, should be targeted to have an impact on the clinical care pathway. When designing an AI-based research study in oncologic imaging, ensuring clinical impact in AI solutions requires careful consideration of key aspects, including target population selection, sample size definition, standards, and common data elements utilization, balanced dataset splitting, appropriate validation methodology, adequate ground truth, and careful selection of clinical endpoints. Endpoints may be pathology hallmarks, disease behavior, treatment response, or patient prognosis. Ensuring ethical, safety, and privacy considerations are also mandatory before clinical validation is performed. The Artificial Intelligence for Health Imaging (AI4HI) Clinical Working Group has discussed and present in this paper some indicative Machine Learning (ML) enabled decision-support solutions currently under research in the AI4HI projects, as well as the main considerations and requirements that AI solutions should have from a clinical perspective, which can be adopted into clinical practice. If effectively designed, implemented, and validated, cancer imaging AI-supported tools will have the potential to revolutionize the field of precision medicine in oncology.
Diabetic foot infections: how to investigate more efficiently? A retrospective study in a quaternary university center
Authors: Ibrahim Aisin , Berkache Moncef , Morency-Potvin Philippe , Juneau Daniel , Koenig Martial , Bourduas Karine , Freire Véronique 
Published: May 2022

Abstract
Background
Diabetic foot infections are frequent and associated with substantial morbidity and substantial cost to the healthcare system. Up to 34% of diabetic patients will develop an ulcer potentially leading to osteomyelitis. Imaging plays a crucial role in the diagnostic process. Imaging modalities to investigate the diabetic foot infection are many and imaging prescription habits remain heterogeneous across physicians. We aimed to improve the appropriateness of imaging examination requested, and performed, for diabetic foot osteomyelitis and we aimed to reduce the overall imaging-related cost.

Methods
Local committee was created to develop an algorithm for suspected diabetic foot osteomyelitis. Best practices were defined by the local algorithm. The algorithm was shared with our physicians. Pre- and post-intervention analysis was conducted retrospectively. All adult diabetic patients with suspected foot osteomyelitis were included. Adherence to best practices was measured. Statistical analysis with Chi-Square and two tailed unpaired t-test was performed.

Results
Pre-intervention cohort had 223 patients (mean age: 63; 168 men). Adherence to best practice was 43%. Scintigraphy (48%) preferred over MRI (44%) and performed simultaneously in 15 patients. Post-intervention cohort had 73 patients (mean age: 66; 62 men). Adherence to best practice was 78%, improved by 35% (p < 0.001). MRI (51%) preferred over scintigraphy (23%) and performed simultaneously in three patients. Scintigraphy examinations decreased by 25% (p < 0.001). MRI examinations increased by 7% (p = 0.32). Hospital imaging related fees decreased by 22% per patient (p = 0.002).

Conclusion
Interval improvement in adequate adherence while reducing unnecessary examinations for patients and decreasing costs for the healthcare system was observed.
Existence and multiplicity of nontrivial solutions for poly-Laplacian systems on finite graphs
Authors: Zhang Xuechen , Zhang Xingyong , Xie Junping , Yu Xiaoli 
Published: May 2022

AbstractIn this paper, we investigate the existence and multiplicity of nontrivial solutions for poly-Laplacian system on a finite graph $G=(V, E)$
G
=
(
V
,
E
)
, which is a generalization of the Yamabe equation on a finite graph. When the nonlinear term F satisfies the super-$(p, q)$
(
p
,
q
)
-linear growth condition, by using the mountain pass theorem we obtain that the system has at least one nontrivial solution, and by using the symmetric mountain pass theorem, we obtain that the system has at least dim W nontrivial solutions, where W is the working space of the poly-Laplacian system. We also obtain the corresponding result for the poly-Laplacian equation. In some sense, our results improve some results in (Grigor’yan et al. in J. Differ. Equ. 261(9):4924–4943, 2016).
Novel Chloroflexi genomes from the deepest ocean reveal metabolic strategies for the adaptation to deep-sea habitats
Authors: Liu Rulong , Wei Xing , Song Weizhi , Wang Li , Cao Junwei , Wu Jiaxin , Thomas Torsten , Jin Tao , Wang Zixuan , Wei Wenxia , Wei Yuli , Zhai Haofeng , Yao Cheng , Shen Ziyi , Du Jiangtao , Fang Jiasong 
Published: May 2022

AbstractBackgroundThe deep sea harbors the majority of the microbial biomass in the ocean and is a key site for organic matter (OM) remineralization and storage in the biosphere. Microbial metabolism in the deep ocean is greatly controlled by the generally depleted but periodically fluctuating supply of OM. Currently, little is known about metabolic potentials of dominant deep-sea microbes to cope with the variable OM inputs, especially for those living in the hadal trenches—the deepest part of the ocean.ResultsIn this study, we report the first extensive examination of the metabolic potentials of hadal sedimentChloroflexi, a dominant phylum in hadal trenches and the global deep ocean. In total, 62 metagenome-assembled-genomes (MAGs) were reconstructed from nine metagenomic datasets derived from sediments of the Mariana Trench. These MAGs represent six novel species, four novel genera, one novel family, and one novel order within the classesAnaerolineaeandDehalococcoidia. Fragment recruitment showed that these MAGs are globally distributed in deep-sea waters and surface sediments, and transcriptomic analysis indicated their in situ activities. Metabolic reconstruction showed that hadalChlorofleximainly had a heterotrophic lifestyle, with the potential to degrade a wide range of organic carbon, sulfur, and halogenated compounds. Our results revealed for the first time that hadalChloroflexiharbor pathways for the complete hydrolytic or oxidative degradation of various recalcitrant OM, including aromatic compounds (e.g., benzoate), polyaromatic hydrocarbons (e.g., fluorene), polychlorobiphenyl (e.g., 4-chlorobiphenyl), and organochlorine compounds (e.g., chloroalkanes, chlorocyclohexane). Moreover, these organisms showed the potential to synthesize energy storage compounds (e.g., trehalose) and had regulatory modules to respond to changes in nutrient conditions. These metabolic traits suggest thatChlorofleximay follow a “feast-or-famine” metabolic strategy, i.e., preferentially consume labile OM and store the energy intracellularly under OM-rich conditions, and utilize the stored energy or degrade recalcitrant OM for survival under OM-limited condition.ConclusionThis study expands the current knowledge on metabolic strategies in deep-oceanChlorolfexiand highlights their significance in deep-sea carbon, sulfur, and halogen cycles. The metabolic plasticity likely providesChloroflexiwith advantages for survival under variable and heterogenic OM inputs in the deep ocean.
Impact of pharmacist services on economic, clinical, and humanistic outcome (ECHO) of South Asian patients: a systematic review
Authors: Shrestha Sunil , Shrestha Rajeev , Ahmed Ali , Sapkota Binaya , Khatiwada Asmita Priyadarshini , Christopher Christina Malini , Thapa Parbati , KC Bhuvan , Blebil Ali Qais , Khanal Saval , Paudyal Vibhu 
Published: May 2022

Abstract
Background
Pharmacists in high-income countries routinely provide efficient pharmacy or pharmaceutical care services that are known to improve clinical, economic, and humanistic outcomes (ECHO) of patients. However, pharmacy services in low- and middle-income countries, mainly South Asia, are still evolving and limited to providing traditional pharmacy services such as dispensing prescription medicines. This systematic review aims to assess and evaluate the impact of pharmacists’ services on the ECHO of patients in South Asian countries.

Methods
We searched PubMed/Medline, Scopus, EMBASE, CINAHL, and Cochrane Library for relevant articles published from inception to 20th September 2021. Original studies (only randomised controlled trials) conducted in South Asian countries (published only in the English language) and investigating the economic, clinical (therapeutic and medication safety), and humanistic impact (health-related quality of life) of pharmacists’ services, from both hospital and community settings, were included.

Results
The electronic search yielded 430 studies, of which 20 relevant ones were included in this review. Most studies were conducted in India (9/20), followed by Pakistan (6/20), Nepal (4/20) and Sri Lanka (1/20). One study showed a low risk of bias (RoB), 12 studies showed some concern, and seven studies showed a high RoB. Follow-up duration ranged from 2 to 36 months. Therapeutic outcomes such as HbA1c value and blood pressure (systolic blood pressure and diastolic blood pressure) studied in fourteen studies were found to be reduced. Seventeen studies reported humanistic outcomes such as medication adherence, knowledge and health-related quality of life, which were found to be improved. One study reported safety and economic outcomes each. Most interventions delivered by the pharmacists were related to education and counselling of patients including disease monitoring, treatment optimisation, medication adherence, diet, nutrition, and lifestyle.

Conclusion
This systematic review suggests that pharmacists have essential roles in improving patients’ ECHO in South Asian countries via patient education and counselling; however, further rigorous studies with appropriate study design with proper randomisation of intervention and control groups are anticipated.
Jejunogastric intussusception after pancreaticoduodenectomy: a case report
Authors: Yogo Konosuke , Sando Masanori , Kobayashi Ryutaro , Yano Genta , Ohara Noriaki , Kawai Kiyotaka , Takagi Kenji , Kawai Satoru , Kamiya Satoaki 
Published: May 2022

Abstract
Background
Jejunogastric intussusception (JGI) is a rare, but potentially fatal complication that can occur following gastric surgery, and the reported incidence of JGI is as low as 0.1%. Early diagnosis and treatment are critical for JGI to prevent major complications such as bowel necrosis and death. Although emergency surgery is the standard treatment, endoscopic reduction has also been reported to be effective in JGI patients without bowel necrosis. Several early recurrent cases treated with surgical or endoscopic reduction have been reported. We report an extremely rare case of JGI after pancreaticoduodenectomy (PD) using Child’s procedure that was successfully treated with surgical reduction and fixation.

Case presentation
An 81-year-old man who had undergone PD using Child’s procedure 3 years ago presented to our hospital with epigastric pain and nausea. His vital signs were stable, and abdominal examination revealed mild tenderness with a palpable mass in the mid-epigastrium. Abdominal computed tomography (CT) and gastroscopy revealed a JGI of the efferent loop, and exploratory laparotomy was immediately performed. During the operation, the efferent loop showed no adhesions and was intussuscepted through the gastrojejunostomy into the gastric lumen. An incision in the anterior wall of the stomach revealed no evidence of ischemia of the intussusceptum. The efferent loop was reduced using Hutchinson’s maneuver and fixed to the afferent loop to prevent a recurrence. The postoperative course was uneventful, and there was no sign of recurrence 12 months postoperatively.

Conclusions
JGI after PD is an extremely rare, but has severe complications. Surgery might be the optimal treatment for JGI in terms of preventing recurrence, even in cases without bowel necrosis.
Tone of language, financial disclosure, and earnings management: a textual analysis of form 20-F
Authors: Li Shuangyan , Wang Guangrui , Luo Yongli 
Published: May 2022

AbstractThis study investigates the relationship between the tone of financial disclosures and managers’ earnings management behavior using Form 20-F filings of Chinese firms listed in the U.S. during 2002–2014. The results show that the proportion of positive, uncertain, or modal words used in financial disclosures is positively related to corporate earnings management, implying that managers attempt to conceal earnings management behavior by manipulating the tone of their financial reports. In addition, robustness tests are conducted using an alternative proxy for earnings management that considers the effects of the financial crisis and separately examines the information and non-information technology industries. The results suggest that the tone used in financial disclosures has informative value, and textual analysis can be an effective tool for identifying earnings management.
Digital finance and renewable energy consumption: evidence from China
Authors: Yu Minli , Tsai Fu-Sheng , Jin Hui , Zhang Hejie 
Published: May 2022

AbstractWhile digital finance and renewable energy consumption (REC) are two timely issues, it remains unclear whether the former affects the latter, especially in developing economies. This paper examines the impact of digital finance on China’s REC between 2011 and 2018 and explores the underlying mechanisms. Results show that digital finance, along with its coverage breadth and usage depth, significantly improved REC in China and that digital finance in the area of credit has had the most significant impact. Additionally, the results show that loan scale and income level are the main mediation variables, through which digital finance affects REC. The findings also suggest that economic growth and technological progress have increased REC in China, while carbon dioxide emissions have had no meaningful effect on this consumption. The results further indicate that policymakers must pay close attention to the role of digital finance when formulating policies on REC. To promote REC and environmental sustainability, developing economies like China should strengthen the breadth and depth of digital finance development, focus on the influence channels of digital finance, and promote economic growth and technological progress.
Autopsy findings in COVID-19 infection-related death: a systematic review
Authors: Sofizan Nik Muhammad Faiz Bin Nik , Rahman Ahmad Faiz Bin Abd , Soon Lai Poh , Ly Chng Kay , Abdullah Nor Zamzila Bt. 
Published: May 2022

Abstract
Introduction
Coronavirus-19 disease (COVID-19) has been declared as pandemic by the World Health Organization (WHO) in March 2020. As of 28 November 2021, there were more than 260 million cases and nearly 5.2 million deaths caused by COVID-19. The most affected system by COVID-19 infection was the respiratory system although several other studies suggested multi-organ involvement with pathophysiology that was not clearly understood. Autopsy findings were beneficial to researchers to determine the mechanism behind these organ failures. The objective of this review was to summarize the autopsy findings related to COVID-19 death.

Method
Online literature search was conducted via online databases such as Scopus, PubMed and Google Scholar. The keywords inputted during the search were “post-mortem”, “autopsy” and “COVID-19” in title, abstract and keywords. The inclusion criteria were the topic related with the title of this review, published in 2020–2021, have full text available and in English language. Any articles that were not related, duplicated studies, review articles including systematic review and meta-analysis and in other languages were excluded.

Results
A total of 20 articles were included in this review. The articles reviewed were mostly case reports and case series while others were case-control and cohort study ranging from one to 348 cases. Majority were originated from the United States of America (USA).

Conclusion
The most frequent system described in autopsy findings in COVID-19 death was the respiratory system, with the most common histological finding of diffuse alveolar damage (DAD). Majority of the findings of other organs were related to chronic diseases.
Imaging diagnosis and management of primary spinal hydatid disease: a case series
Authors: Singh Neha , Anand Tushar , Singh Deepak Kumar 
Published: May 2022

Abstract
Background
Primary spinal hydatid disease (HD) is uncommon disease with significant morbidity. The diagnosis of this entity is not simple, unless the patient comes from an endemic area or has a history of HD elsewhere. Only few case reports and case series of this entity are available in the published literature. We report a series of three cases of primary spinal HD who had characteristic MR appearance and were managed successfully.

Case presentation
We report a series of 3 cases, two presenting with paraparesis and one with right lower limb weakness and hesitancy of micturition. MRI demonstrated multiloculated cystic lesion involving thoracic spine in two patients and lumbar spine in third patient. All the three patients were showing intraspinal extension with compression of neural structures. MRI features were characteristic of hydatid disease. All the three patients were managed surgically with gross total excision of the cysts followed by albendazole chemotherapy. Histopathology was consistent with hydatid cyst. Patients with dorsal spine disease showed improvement in motor weakness, but third one with lumbar spinal disease had to use foot splint for walking. None of the patient showed features of recurrence on follow-up.

Conclusion
Radiologist should be familiar with the typical and atypical manifestations of the disease and should keep it in the differential diagnosis of cystic spinal lesions. Radical surgical excision along with postoperative adjuvant albendazole chemotherapy is the mainstay of treatment.
Analysis of codon usage patterns in open reading frame 4 of hepatitis E viruses
Authors: Shafat Zoya , Ahmed Anwar , Parvez Mohammad K. , Parveen Shama 
Published: May 2022

Abstract
Background
Hepatitis E virus (HEV) is a member of the family Hepeviridae and causes acute HEV infections resulting in thousands of deaths worldwide. The zoonotic nature of HEV in addition to its tendency from human to human transmission has led scientists across the globe to work on its different aspects. HEV also accounts for about 30% mortality rates in case of pregnant women. The genome of HEV is organized into three open reading frames (ORFs): ORF1 ORF2 and ORF3. A reading frame encoded protein ORF4 has recently been discovered which is exclusive to GT 1 isolates of HEV. The ORF4 is suggested to play crucial role in pregnancy-associated pathology and enhanced replication. Though studies have documented the ORF4’s importance, the genetic features of ORF4 protein genes in terms of compositional patterns have not been elucidated. As codon usage performs critical role in establishment of the host–pathogen relationship, therefore, the present study reports the codon usage analysis (based on nucleotide sequences of HEV ORF4 available in the public database) in three hosts along with the factors influencing the codon usage patterns of the protein genes of ORF4 of HEV.

Results
The nucleotide composition analysis indicated that ORF4 protein genes showed overrepresentation of C nucleotide and while A nucleotide was the least-represented, with random distribution of G and T(U) nucleotides. The relative synonymous codon usage (RSCU) analysis revealed biasness toward C/G-ended codons (over U/A) in all three natural HEV-hosts (human, rat and ferret). It was observed that all the ORF4 genes were richly endowed with GC content. Further, our results showed the occurrence of both coincidence and antagonistic codon usage patterns among HEV-hosts. The findings further emphasized that both mutational and selection forces influenced the codon usage patterns of ORF4 protein genes.

Conclusions
To the best of our knowledge, this is first bioinformatics study evaluating codon usage patterns in HEV ORF4 protein genes. The findings from this study are expected to increase our understanding toward significant factors involved in evolutionary changes of ORF4.