bluuebunny/crossref_metadata_2025_split huggingface dataset:
Analysis of the Differential Expression and Prognostic Relationship of DEGs in AML based on TCGA Database
Authors: Zhang Hang , Li Qian , Li Lan , Gao Yue , Rong Rong , Sun Kai , Yu Zhengmin , Ji Xinyu , Liu Xiaowen , Han Lei , Zhang Hengdong , Zhu Baoli , Yu Tingting , XU MING 
Published: December 2020

Abstract
Background: Acute myeloid leukemia (AML) is a common and lethal hematological malignant hyperplastic disease originating from hematopoietic stem cells. The purpose of this study is to obtain the key AML survival-related differentially expressed gene. Methods: RNA sequencing (RNA-Seq) data and clinical information of patients were downloaded from the TCGA-LAML database. We focused the intersectional genes of survival-related DEGs, cytogenetics risk related-DEGs, and the top 10 pathways of both up- and down-regulated of Normalization Enrichment Score (NES). Multivariate Cox regression analyses were performed to analyze the independent factors for AML. The Kaplan–Meier and Nomogram analyses were plotted to predict and compare survival of AML patients. The validation of DEGs were performed by a clinical follow-up investigation.Results: 151 RNA-Seq samples for 60,488 genes and 200 clinical samples were selected from the TCGA-database. After filtering with the conditions about survival-related DEGs, cytogenetics-risk associated, and predicted in top 10 pathways, IGHM was the only remaining gene. Cox analysis showed that IGHM expression and age displayed were intendent factors to the patients’ survival (P<0.05). Higher IGHM expression was identified in poor survival group (P<0.05), with 68%, 43%, and 30% in 1, 3, and 5-year survival investigation. GSEA analysis revealed that IGHM were mainly enriched in the immune response. In Chinese population, IGHM displayed its significance not in the childhood AML patients but in adult ones. Conclusion: High expression of IHGM gene is an independent risky factor for the survival of patients with AML, which can be an important molecular marker for AML prognosis.
A Four-Immune Gene Prognostic Risk Model for Colorectal Adenocarcinoma Based on the TCGA and ImmPort Data Sets
Authors: Xu Boyang , Peng Ziqi , An Yue , Yao Xue , Sun Mingjun 
Published: December 2020

Abstract
Background: As one of the hot spots in oncology field, immune research provides new ideas for the diagnosis and treatment of tumors. Different histological types of colorectal cancer are different. Adenocarcinoma, as the type with the highest proportion, has a high research value. This study aims to build an immune gene prognostic risk model for colorectal adenocarcinoma to improve the diagnosis and prognosis prediction of colorectal adenocarcinoma.Methods: The differentially expressed immune genes could be obtained from the gene expression data downloaded from The Cancer Genome Atlas (TCGA) and the immune gene data downloaded from the ImmPort Database. Univariate COX and multivariate COX analyses were used to construct the immune gene prognostic risk model of and the clinical application potential of this model. The correlation between the model and the immune cells infiltration and the influence of each immune cell on the survival were analyzed.Results: 5975 differentially expressed genes were obtained, and 497 differentially expressed immune genes were selected by combining the information of immune genes. Among them, 36 immune genes were associated with prognosis, and 4 immune genes (THRB, IL1RL2, LGR6, LTB4R2) were included in the prognostic risk model of immune genes. Patients with higher Risk Score had shorter survival. Compared with gender, age and pathological stage, the model has better prediction potential. In addition, the model was correlated with Macrophages M0, Macrophages M1, T cells follicular helper and NK cells activated. Among them, T cells follicular helper and Macrophages M0 were related to the survival of patients.Conclusion: We developed a prognostic risk model containing four immune genes, THRB, IL1RL2, LGR6 and LTB4R2, which accurately described the prognosis of the patient, and affected the survival of patients by influencing the infiltration of Macrophages M0 and T cells follicular helper.
Observation of the Long-Period Monotonic Seismic Waves of the November 11, 2018, Mayotte event by the Iranian Broadband Seismic Stations
Authors: Sadeghi Hossein , Suzuki Sadaomi 
Published: December 2020

Abstract
On November 11, 2018, an event generating long-lasting, monotonic long-period surface waves was observed by seismographs around the world. This event occurred at around 09:30 (UTC) east of the Mayotte Island, east Africa. This event is unusual due to the absence of body waves in the seismograms and people’s lack of sense. The purpose of this study is to investigate this unusual event using the waveforms recorded by the Iranian National Broadband Seismic Network. The network consisted of 26 stations in operation on November 11, 2018. The stations are located from 4542 km to 5772 km north-northeast of the event’s epicentre. The arrival of monochromatic long-period signals is visible around 10 UTC in the recordings of all the stations and lasts for more than 30 minutes. Frequency analysis of the seismograms shows a clear peak at 0.064 Hz (15.6 sec/cycle). The maximum amplitude of the transverse components is less than a half of the radial components. This is in agreement with the theoretical radiation pattern of Rayleigh and Love waves at a frequency of 0.06 Hz from a vertical Compensated Linear Vector Dipole (CLVD) source mechanism. The average apparent phase velocities are calculated as 3.31 km/s and 2.97 km/s, in the transverse and radial directions, corresponding respectively to the Love and Rayleigh waves in the range of 0.05 to 0.07 Hz. The surface wave magnitude of Ms 5.07 ± 0.22 was estimated. Just before the monochromatic signal, there is some dispersion in the surface waves. This observation may suggest a regular earthquake that triggered the strange Mayotte event.
The prevalence and distribution of human papillomavirus among 10,910 Chinese Han women
Authors: Guo Chunlei , Du Hui , Belinson Jerome L , Wang Chun , Huang Xia , Qu Xinfeng , Wu Ruifang 
Published: December 2020

Abstract
ObjectiveTo assess the prevalence and distribution of HPV genotypes among Chinese Han women, and to explore the risk of high-grade cervical lesions associated with individual hr-HPV genotypes.MethodsGenotyping and histopathology data from the Chinese Multi-Center Screening Trial (CHIMUST) and its pilot screening trial, from 6 regions across mainland China, were re-analyzed. The data from physician (direct) collected samples from 10910 Chinese Han women (ages 30-69) were used to determine the prevalence and distribution of hr-HPV and to explore the risk association between hr-HPV genotypes and precancerous lesions.Results9.1% of the study population tested hr-HPV positive. The prevalence varied regionally rom the lowest in Guangdong (6.3%) to the highest in Inner Mongolia (12.9%). The most prevalent genotypes found were HPV-52 (21.5%), HPV-16 (19.2%), HPV-58 (15.0%), HPV-39 (8.9%), and HPV-51 (8.2%). The overall odds ratios for CIN2+ and CIN3+ for the presence of HPV-16 was 59.7 (95% CI 39.9-89.3) and, 92.0 (95%CI 54.5- 155.3), respectively and remained the highest odds ratio for CIN3+ in all 6 regions.ConclusionGeographical variation exists in the prevalence and distribution of hr-HPV in mainland China. HPV-16/52/58 were the most prevalent genotypes, and HPV-16 had the highest risk for high-grade cervical lesions.
The DUBs Family in Populus: Identification, Characterization, Evolution and Expression Patterns
Authors: Zheng Wenqing , Du Liang 
Published: December 2020

Abstract
Background: The deubiquitinases (DUB) family are a class of enzymes that regulate the stability or reverse the ubiquitination modification of many proteins in the cell, participating in cell cycle regulation, cell division and differentiation, various physiological activities such as DNA damage repair, growth and development, and response to stress. However, little is known about these genes in the woody plants. Results: In the present study, 88 DUB genes were identified in woody model plant Populus trichocarpa, including 44 PtrUBP, 3 PtrUCH, 23 PtrOTU, 4 PtrMJD, and 14 PtrJAMM with similar domains. According to the phylogenetic analysis, the 44 PtrUBP genes were classified into 14 subfamily, three PtrUCHs were classified into two groups, 23 PtrOTUs had six groups, four PtrMJDs had two groups, and 14 PtrJAMMs had six groups. The structure and motif analysis indicated that the same subfamily had similar genome structure and motif distribution characteristics. Ks/Ka analysis showed that the segmental duplication events played a major role in the expansion of Populus DUB genes. Synteny analysis of Populus DUB genes and four other species provided deep perception into the evolutionary traits of DUB genes. Expression profiles derived from transcriptome data exhibited distinct expression patterns of DUB genes in various tissues. Based on the result of promoter cis-regulatory elements analysis, we selected 16 representative PtrUBP genes to test their response to different hormonal treatments. The results showed that most of PtrUBPs were upregulated in the ABA, SA, and MeJA treatments, implying that their potential roles in abiotic stress response in Populus. Conclusion: The results in this study broaden our understanding of the DUB gene family in plants, and the analysis of the structure, conserved elements, and expression patterns of the DUBs provide a solid foundation for exploring their specific functions in Populus as well as indicate potential role of PtrUBP gene in abiotic stress.
A Machine Learning Platform for the Discovery of Materials
Authors: Belle Carl , Aksakalli Vural , Russo Salvy 
Published: December 2020

Abstract
For photovoltaic materials, properties such as band gap E g are critical indicators of the material's suitability to perform a desired function. Calculating E g is often performed using Density Function Theory ( DFT ) methods, although more accurate calculation are performed using methods such as the GW approximation. DFT software often used to compute electronic properties includes applications such as VASP , CRYSTAL, CASTEP or Quantum Expresso . Depending on the unit cell size and symmetry of the material, these calculations can be computationally expensive. In this study, we present a new machine learning platform for the accurate prediction of properties such as E g of a wide range of materials.
Oral Status of Elderly Patients In&nbsp;Long Stay Centers:&nbsp;A Systematic Review
Authors: Roca Juan Antonio Ruiz , Fuentes Dora Martín , Beneyto Yolanda Martínez , Sanchez Ricardo E. Oñate 
Published: December 2020

Abstract
Background

Elderly patients who spend long periods hospitalized or those who are in a situation of institutionalization represent a risk group in this regard, as many of them suffer a degree of dependence and need help to perform the basic tasks of personal care. It is therefore important to learn more of the oral health status of this group of patients in order to make a proper assessment of the situation and to develop protocols for its management. The purpose of the study was to conduct a systematic review to ascertain the oral health status of elderly patients admitted to institutions or hospitalized for a long period of time.
Methods

a systematic review of the literature published in two different databases (PubMed, Embase and Cochrane Library) was carried out, with 12 different combinations of keywords based on the following selection criteria: studies published in the last 5 years, in English and/or Spanish and/or Portuguese, with samples of ≥ 30 patients, performed in patients older than 65 years, admitted to any type of institution and/or hospital center for at least 7 days and in which the state of hard and/or soft tissues of the oral cavity were evaluated in some way. The selected articles were subjected to a thorough analysis.
Results

The search strategy covered 1,014 articles: 689 from Pubmed and 325 from Cochrane Library. After applying the eligibility criteria, five articles were selected for our review. The level of evidence of the articles was3, a sample of 773 patients most of them were women with an average age older than 70 years old.
Conclusions

the oral health of patients aged more than 65 is worse than that of the rest population. Long hospital stays or being institutionalized in a residence makes this group susceptible to a worsening of their oral health status. It is necessary to develop protocols for the oral health care of these patients, accompanied by training programs for the personnel responsible.
Antimicrobial resistance profile and multidrug resistance patterns of&nbsp;Streptococcus pneumoniae&nbsp;isolates from patients suspected of pneumococcal infections in Ethiopia
Authors: SHAREW BEKELE , Moges Feleke , Yismaw Gizachew , Abebe Wondiwossen , Fentaw Surafal , Vestrheim Didrik , Tessema Belay 
Published: December 2020

Abstract
Background
Streptococcus pneumoniae is one of the leading causes of bacterial meningitis and pneumonia in elderly people and children. Antimicrobial-resistant strains of Streptococcus pneumoniae have been detected in all parts of the world and have become one of the greatest challenges to global public health today. The aim of this study is, therefore, to assess the antimicrobial resistance profiles and multidrug resistance patterns of S. pneumoniae isolates from patients suspected of pneumococcal infections in Ethiopia.
Methods
A hospital-based prospective study was conducted from 2018 to 2019 at Addis Ababa and Amhara region referral hospitals. Antimicrobial resistance tests were performed on 57 isolates of S. pneumoniae that were collected from pediatric and adult patients. Samples (cerebrospinal fluid, blood, sputum, eye discharge, ear discharge, and pleural and peritoneal fluids) from all collection sites were initially cultured on 5% sheep blood agar plates and incubated overnight at 370C in a 5% CO2 atmosphere. S. pneumoniae was identified and confirmed by typical colony morphology, alpha-hemolysis, Gram staining, optochin susceptibility, and bile solubility test. Drug resistance testing was performed using the E-test method according to recommendations of the Clinical and Laboratory Standards Institute.
Results
Of the 57 isolates, 17.5% were fully resistant to penicillin. The corresponding value for both cefotaxime and ceftriaxone was 1.8%. Resistance rates to erythromycin, clindamycin, tetracycline, chloramphenicol and trimethoprim-sulfamethoxazole were 59.6%, 17.5%, 38.6%, 17.5% and 24.6%, respectively. Multidrug resistance (MDR) was seen in 33.3% isolates. The most common pattern was co-resistance to penicillin, erythromycin, clindamycin, and tetracycline.
Conclusions
Most bacterial isolates were susceptible to Ceftriaxone and Cefotaxime. Penicillin has been used as a drug of choice for treating S. pneumoniae infection. However, antimicrobial resistance including multidrug resistance was observed to several commonly used antibiotics including penicillin. Hence, it is important to periodically monitor the antibiotic resistance patterns to choose empirical treatments for better management of pneumococcal infection.
Prednis-OH NO! – A Case of Anaphylaxis Induced by Prednisone
Authors: Chapman Nicholas , Caddell Taylor , Geringer Rage , Hicks Greg 
Published: December 2020

Abstract
Background:

Anaphylaxis is a potentially life-threatening condition caused by the sudden release of inflammatory mediators into the systemic circulation. Among this condition’s etiologies, corticosteroid-induced anaphylaxis, despite being uncommon, should receive due consideration given the frequency of steroid use in various settings. Any patient that presents with shortness of breath, wheezing, hypotension, urticaria, or other characteristic signs of anaphylaxis following the administration of steroids should be promptly evaluated. Because of the potentially fatal nature of anaphylaxis, clinicians must be familiar with the presentation, diagnosis, and management of the reaction.
Case Report:

The primary objective of this case report is to discuss an example of such a reaction in a 21-year-old female with a past medical history of anxiety, depression, and alcoholism who presented with anaphylaxis following prednisone use, as well as the proposed pathophysiology and management thereafter. She was managed with intravenous epinephrine and diphenhydramine with complete resolution of her symptoms. She was subsequently discharged with an EpiPen, cetirizine, and advised to establish care with an allergist for follow up and additional allergy testing. To complete this case report, we performed a review of current primary literature on the subject.
Conclusions:

Though uncertain, many potential mechanisms of sensitization to corticosteroids were identified, including haptenization, preservatives, excipients, and conjugated esters. Various means exist to aid in diagnosis, such as skin testing, immunoCAP assays, lymphocyte transformation tests, basophil activation tests, and graded drug challenges, though these tests are associated with a high false negative rate. Accurate identification of the causative agent is crucial in facilitating avoidance or rapid desensitization prior to future corticosteroid use.
Association between genetic variants in metabolic syndrome-related genes and risk of obstructive sleep apnea among a Chinese population
Authors: Cao Yuanyuan , Li Nanfang , Zhu Qing , Wu Ting , Cai Xintian , Aierken Xiayire , Ahmat Ayguzal , Liu Shasha 
Published: December 2020

Abstract
Background

Despite the strong epidemiological association between Metabolic syndrome (MetS) and obstructive sleep apnea (OSA), the causal mechanism between the two remains not fully elucidated. We conducted a case-control study to evaluate the genetic association of twelve metabolic syndrome-related genes with OSA in Chinese subjects.
Methods

Targeted capture sequencing for twelve metabolic syndrome-related genes (EDN1, APOE, LEP, LEPR, IRS1, UCP1, ADIPOQ, PEMT, PPARG, SLC2A4, FABP2 and ADRA2A) were performed in 100 subjects including 50 patients with severe OSA and 50 non-OSA individuals. Possible associations between genetic variants and the risk of OSA were determined by logistic regression analyses.
Results

From the multiple genes studied, only the rs12486170 variant in PPARG gene was associated with OSA risk after adjusting for potential confounding factors. The PPARG rs12486170 AG/GG genotype was found to decrease the risk for OSA [dominant model: adjusted odds ratio (AOR) = 0.211, 95% confidence interval (CI) = 0.055-0.800, P = 0.022] compared with AA genotype. Moreover, subjects with the rs12486170 AG/GG genotype had a significantly lower apnea-hypopnea index (AHI) (median: 2.50 vs. 50.90 events/h, P = 0.019) and higher lowest oxygen saturation (LSaO2) (median: 87% vs. 75%, P = 0.040) compared with those with the AA genotype.
Conclusions

We identified a novel variant of PPARG in subjects with OSA, and specifically found an association between rs12486170 polymorphisms and OSA risk in a Chinese population.
Association between serum lipid profiles and colorectal adenoma in Chinese population
Authors: Liu Boying , Wen Pingwu , Gu Xiaodong , Ruiqiang Weng , Liu Sudong 
Published: December 2020

Abstract
Background

Dyslipidemia may play an important role in the development of colorectal adenomas. This study aims to investigate the serum lipid profiles in patients with colorectal adenomas and determine correlation between dyslipidemia and colorectal adenomas.
Methods

This retrospective case - control study included 2,960 patients with colorectal adenomas, and 1,263 participants with normal colonoscopy results served as controls. The serum levels of lipids were measured and comparison was made between patients and controls. The association between serum lipid levels, as well as other factors and colorectal adenoma was evaluated by multivariate regression logistic analysis.
Results

The serum levels of total cholesterol (TC), triglyceride (TG), low density lipoprotein cholesterol (LDL-C) and apoliprotein B (ApoB) were significantly elevated in patients with colorectal adenomas compared with controls. The proportions of subjects with high LDL, high TC, high TG or multiple abnormality were significantly larger in adenoma group than the control group. Multivariate analysis suggested that serum levels of TC and TG were in significant associations with risk of both nonadvanced and advanced colorectal adenoma.
Conclusions

Abnormal lipid profiles are associated with the risk of colorectal adenoma. Elevated serum TC and TG were correlated with the occurrence of adenoma, thus may serve as practical markers for classifying risk of colorectal adenoma.
Covid-19 only with gastrointestinal (GI) symptoms: case report of a 14-year-old patient&nbsp;
Authors: Goshayeshi Ladan , Milani Nasrin , Bergquist Robert , Sadrzadeh Sayyed Majid , Rajabzadeh Farnood , Hoseini Benyamin 
Published: December 2020

Abstract
Coronavirus Disease 2019 (Covid-19) is expanding worldwide. Although it seems to be a purely respiratory disease, occasional reports of lesions in other organs have been published. We report here an asymptomatic child Covid-19 patient with the main symptom of abdominal pain distension and without any respiratory symptoms. A 14-year-old male patient with main complaints of fever, malaise, anorexia, and severe abdominal pain was admitted to a hospital in Mashhad, Iran. Laparotomy revealed distension of the small intestine and an adhesive ileo-caecal band that had produced ileum herniation without free fluid in the abdomen. Chest X-ray and high-resolution computed tomography of the lungs showed bilateral, diffuse, peripheral dense areas of ground-glass appearance. A nasopharyngeal swab for Covid-19 diagnosis, ordered due to lymphopenia together with these diffuse lung infiltrations, showed a positive result. This led to drug treatment with lopinavir/ritonavir, hydroxychloroquine, ribavirin/oseltamivir and meropenem. The patient was febrile and developed tachycardia on the third day accompanied with a respiratory rate of 44/min. At this point, tracheal intubation was done but the patient died after 3 hours due to cardiac arrest. The case report brings forth the hypothesis that the gastrointestinal manifestation may be untypical symptoms of Covid-19 infection, and highlights the importance for the diagnosis to be based on combined laboratory-based data and scanning imagery.