bluuebunny/crossref_metadata_2025_split huggingface dataset:
Kegiatan Kuliah Kerja Nyata Pencegahan Covid Dan Peningkatan Kapasitas Masyarakat Mangkurakyat Garut
Authors: Fitriani Leni , Irawan Muhammad Randy , Jubaedah Dede , Wicaksono Agung , Fajri Mufti Al , Nugraha Muhammad Dimas Maulana , N Novita Fitri , Hidayat Tedi , Surur Yoga Muhammad , Hamdi Wildan Hidayatul , Wafa Adhima Rasyadani 
Published: October 2022

Kuliah Kerja Nyata Institut Teknologi Garut pada tahun 2021 yang dilaksanakan pada masa pandemi Covid-19 ini lebih memfokuskan pada sosialisasi pencegahan Covid-19 dan Edukasi Pandemi untuk desa yang lebih sehat. Salah satu program yang dilakanakan adalah Webinar yang diselingi sosialisasi pencegahan Covid-19 yang di jadikan sebagai prosedur kesehatan yang diterapkan di indonesia dan khususnya oleh desa Mangkurakyat Kabupaten Garut. Pengetahuan pencegahan Covid-19 di desa Mangkurakyat masih minimnya informasi tentang gejala Covid dan banyaknya masyarakat yang kurang percaya akan ada Covid-19. Baik pengetahuannya tentang virus ini dan juga tepat guna pencegahan-pencegahan yang diterapkan. Kegiatan pengabdian kepada masyarakat dan komunitas maya dilaksanakan dengan tujuan untuk meningkatkan desa yang lebih sehat masyarakat dalam pencegahan covid dan pemahaman teknologi informasi yang berguna di masyarakat desa Mangkurakyat sebagai tempat Kuliah Kerja Nyata. Kegiatan dilaksanakan melalui tahapan masukan, peyelesaian masalah, dan keluaran. Kegiatan dilaksanakan bersama pemerintah desa dan berhasil meningkatkan pemahaman pencegahan dan teknologi informasi yang diajarkan guna membantu masyarakat sekitar.
Exploiting the resource-ratio (R*) hypothesis for weed management in legume crops: An example of volunteer Brassica napus in soybean
Authors: Geddes Charles M. , Gulden Robert H. 
Published: October 2022

Poor competitive ability and sensitivity to many herbicides create challenges for weed management in legume production. The resource-ratio (R*) hypothesis may provide insight into how to manipulate the competitive balance between nitrogen (N)-fixing legume crops and non-leguminous weed species. A field study was conducted to test whether the level of soil mineral N affected yield loss of an annual legume crop, soybean [Glycine max (L.) Merr.], in the presence of four different populations of an interfering non-leguminous weed, volunteer canola (Brassica napus L.), compared with a weed-free control. The experiment consisted of banding five rates of urea fertilizer (0–180 kg N ha-1) prior to seeding soybean and volunteer canola, and was repeated in three environments in Manitoba, Canada. Soybean yield remained unaffected by N rate in the absence of volunteer canola. Interference from the volunteer canola populations caused a linear decline in soybean yield by 2.6 kg ha-1 for every 1 kg ha-1 increase in soil mineral N. In the presence of volunteer canola, soybean yield decreased by 17% from the lowest to the highest soil mineral N. In the lowest-N conditions (30 kg residual-N ha-1), soybean yield was greatest (3,350 kg ha-1) and volunteer canola seed production and aboveground biomass were lowest (decline in canola seed production by 19%, 50%, and 74% of the maximum seed production in the 2015i, 2015ii, and 2016 environments, respectively). Therefore, growing legume crops like soybean on fields with lower soil mineral N may reduce interference from unmanaged non-leguminous weeds. As N fertilization intensifies interference of many weed species, tailoring weed management in legume crops around their capacity for N-fixation could provide the crop with a competitive advantage, thereby minimizing the impact of weed interference on legume crop yield.
The diagnostic value of metagenomic next-generation sequencing for identifying Pneumocystis jirovecii infection in non-HIV immunocompromised patients
Authors: Zhao Mengyi , Yue Ruiming , Wu Xiaoxiao , Gao Zhan , He Miao , Pan Lingai 
Published: October 2022

BackgroundPneumocystis jirovecii pneumonia (PJP) remains an important cause of morbidity and mortality in non-HIV immunocompromised patients especially in transplant recipients. But its diagnosis remains challenging due to the insuffificient performance of conventional methods for diagnosing Pneumocystis jirovecii(P. jirovecii) infection. Therefore, the auxiliary diagnostic function of metagenomics next-generation sequencing (mNGS) in clinical practice is worth of exploring.Method34 non-HIV immunocompromised patients who were diagnosed as PJP by clinical manifestations, imaging findings, immune status of the host, and Methenamine silver staining were tested by mNGS from October 2018 to December 2020 in Sichuan Provincial People’s Hospital. The clinical performances of mNGS for P. jirovecii infection diagnosis were also evaluated with genome reads abundance and comparing with other traditional diagnostic methods.ResultsWe diagnosed a total of 34 non-HIV PJP patients by the clinical composite diagnosis. Our data shows that, compared with the clinical microbiological test, the detection rate of mNGS for P. jirovecii in non-HIV infected PJP patients is significantly higher than that of Methenamine silver staining and serum 1-3-β-D-glucan. mNGS can be used as an auxiliary diagnostic tool to help diagnosis. The number of reads mapped to the genome of P. jirovecii and the duration of patients from onset to sampling collection were statistically significant between the two groups (Reads&gt;100 and Reads ≤ 100) (8days vs. 23days, p=0.020). In addition, univariate analysis showed that C-reactive protein (15.8mg/L vs.79.56mg/L, p=0.016), lactate dehydrogenase (696U/l vs. 494U/l, p=0.030) and procalcitonin (0.09ng/ml vs. 0.59ng/ml, p=0.028) was also statistically significant between the two groups.ConclusionsAn effective detection rate was achieved in PJP patients using mNGS testing of bronchoalveolar lavage fluid (BALF) or blood. The study also confirmed that the abundance of reads of P. jirovecii is related to the interval between the onset and sample collection. And the inflammation status during simultaneous mNGS detection might determine the abundance of pathogens. Hence, we conclude that the mNGS strategy could benefit disease diagnosis as well as treatment when complicated clinical infections appeared.
Construction of a B cell-related gene pairs signature for predicting prognosis and immunotherapeutic response in non-small cell lung cancer
Authors: Li Xuanzong , Wang Ruozheng , Wang Shijiang , Wang Linlin , Yu Jinming 
Published: October 2022

BackgroundAccumulating evidence indicates that the B cells play important roles in anti-tumor immunity and shaping tumor development. This study aimed to explore the expression profiles of B cell marker genes and construct a B cell-related gene pairs (BRGPs) signature associated with the prognosis and immunotherapeutic efficiency in non-small cell lung cancer (NSCLC) patients.MethodsB cell-related marker genes in NSCLC were identified using single-cell RNA sequencing data. TCGA and GEO datasets were utilized to identify the prognostic BRGPs based on a novel algorithm of cyclically single pairing along with a 0-or-1 matrix. BRGPs signature was then constructed using Lasso-Cox regression model. Its prognostic value, associated immunogenomic features, putative molecular mechanism and predictive ability to immunotherapy were investigated in NSCLC patients.ResultsThe BRGPs signature was composed of 23 BRGPs including 28 distinct B cell-related genes. This predictive signature demonstrated remarkable power in distinguishing good or poor prognosis and can serve as an independent prognostic factor for NSCLC patients in both training and validation cohorts. Furthermore, BRGPs signature was significantly associated with immune scores, tumor purity, clinicopathological characteristics and various tumor-infiltrating immune cells. Besides, we demonstrated that the tumor mutational burden scores and TIDE scores were positively correlated with the risk score of the model implying immune checkpoint blockade therapy may be more effective in NSCLC patients with high-risk scores.ConclusionsThis novel BRGPs signature can be used to assess the prognosis of NSCLC patients and may be useful in guiding immune checkpoint inhibitor treatment in our clinical practice.
Survival and risk factors among upper tract urothelial carcinoma patients after radical nephroureterectomy in Northeast China
Authors: Gao Jianing , Liu Jingya , Liu Jianyu , Lin Shiyan , Ding Dexin 
Published: October 2022

ObjectiveThe study objective was to investigate the prognostic risk factors related to overall survival (OS), cancer-specific survival (CSS), recurrence-free survival (RFS), and metastasis-free survival (MFS) after radical nephroureterectomy (RNU) for upper tract urothelial carcinoma (UTUC). Patients were then divided into different risk groups (based on their number of prognostic risk factors), and specific postoperative treatment plans were formulated for patients in different risk groups.MethodsWe retrospectively analyzed the data of 401 patients with UTUC who underwent RNU between 2010 and 2020. Univariate and multivariate Cox regression analyses were used to evaluate the associations of clinicopathological variables with prognosis among UTUC patients. Kaplan–Meier survival analysis of patients in different risk groups (based on their number of prognostic risk factors) was conducted.ResultsMultivariate Cox regression analysis showed that sex (being male), LVI, pT stage (&gt;pT2), and lack of postoperative intravesical instillation were independent risk predictors of shorter OS, CSS, RFS, and MFS (all P&lt;0.05). Laparoscopic RNU was also associated with shorter OS, CSS, and MFS, but not with shorter RFS (P=0.068). After risk stratification, the 5-year OS, CSS, RFS, and MFS in the high-risk group were 42.3%, 46.4%, 41%, and 46%, respectively.ConclusionsSex (being male), LVI, pT stage (&gt;pT2), and intravesical instillation were independent predictors of OS, CSS, RFS, and MFS for UTUC. All were risk factors, except for intravesical instillation, which was a protective factor. Additionally, laparoscopic RNU was an independent risk factor for OS, CSS, and MFS. Patients in the high-risk group may benefit greatly from adjuvant or neoadjuvant chemotherapy.
MET-targeted therapies for the treatment of non-small-cell lung cancer: A systematic review and meta-analysis
Authors: Xu Linrui , Wang Faping , Luo Fengming 
Published: October 2022

BackgroundDysregulation of the mesenchymal epithelial transition (MET) pathway contributes to poor clinical outcomes in patients with non-small cell lung cancer (NSCLC). Numerous clinical trials are currently investigating several therapies based on modulation of the MET pathway.ObjectivesThis study aimed to systematically evaluate the activity and safety of MET inhibitors in patients with NSCLC.MethodsWe searched PubMed, Embase, and the Cochrane Library from inception to June 02, 2022. The objective response rate (ORR) and disease control rate (DCR) were extracted as the main outcomes and pooled using the weighted mean proportion with fixed- or random-effects models in cases of significant heterogeneity (I2&gt;50%). Safety analysis was performed based on adverse events reported in all studies.ResultsEleven studies (882 patients) were included in the meta-analysis. The pooled ORR was 28.1% (95% confidence interval [CI], 0.223–0.354), while the pooled DCR was 69.1% (95% CI, 0.631–0.756). ORRs were higher for tepotinib (44.7% [95% CI, 0.365–0.530]) and savolitinib (42.9% [95% CI, 0.311–0.553]) than for other types of MET inhibitors. Patients with NSCLC with exon 14 skipping exhibited higher ORRs (39.3% (95% CI, 0.296–0.522)) and DCRs (77.8% (95% CI, 0.714–0.847)) than those with MET protein overexpression or amplification. Intracranial response rate and intracranial disease control rates were 40.1% (95% CI, 0.289–0.556) and 95.4% (95% CI, 0.892–0.100), respectively. Adverse events were mild (grade 1 to 2) in 87.2% of patients. Common adverse events above grade 3 included lower extremity edema (3.5% [95% CI, 0.027–0.044]), alanine aminotransferase (ALT) elevation (2.4% [95% CI, 0.014–0.033]), and lipase elevation (2.2% [95% CI, 0.016–0.031]).ConclusionMET inhibitors, which exhibited a satisfactory safety profile in the current study, may become a new standard of care for addressing MET dysregulation in patients with advanced or metastatic NSCLC, and even in those with brain metastases, particularly tepotinib, savolitinib and capmatinib. Further randomized trials are required to establish standard predictive biomarkers for MET therapies and to compare the effects of different MET inhibitors in NSCLC with MET dysregulation.
Trends in immune-related adverse events for colorectal cancer: A bibliometric analysis
Authors: Cui Jin , Xiong Ying , Sun Min , Gu Xinyue , Liu Yuting , Zhong Luhui , Hong Xiaohua , Liu Li 
Published: October 2022

PurposeWe used bibliometric methods to assess the global scientific output on the IRAEs for colorectal cancer and to explore the current status and trends in the field over the last three decades.MethodsStudies on immune-related adverse events for colorectal cancer published from 1996 to 2022 were retrieved from the Web of Science. For quantitative and qualitative assessments of publication outputs and author contributions, the R bibliometrix package was used. VOSviewer was used to construct networks based on the co-authorship of countries/institutions/authors, co-citation analysis of journals/references, citation analysis of documents, and co-occurrence of keywords.ResultsA total of 237 relevant articles were included in the final analysis. The number of publications has increased significantly over time. The countries and institutions that contributed most to the field were the USA and the University of Texas MD Anderson Cancer Center. Jefferey Schlom was the most productive author, ranking first in cited authors. The most cited document was Topalian et al. in The New England Journal of Medicine (2012). The journals with the highest number of selected articles and citations were The New England Journal of Medicine and the Journal of Clinical Oncology, respectively. Co-occurrence analysis showed that IRAEs for colorectal cancer were associated with immunotherapy, open-label, chemotherapy, nivolumab, and PD-1. Trend analysis showed that immune checkpoint inhibitors, gut-microbiota, inflammatory-bowel disease, and PD-1has been on the rise in recent years to IRAEs for colorectal cancer.ConclusionOur bibliometric analysis showed that studying IRAEs for colorectal cancer is increasingly a hot topic. The focus of the research had evolved from traditional treatment modalities such as targeted therapy to gut microbiota. Inflammatory bowel disease may be a future research hotspot of IRAEs for colorectal cancer.
Regulation, genomics, and clinical characteristics of cuproptosis regulators in pan-cancer
Authors: Zhou Cankun , Li Chaomei , Zheng Yuhua , Huang Xiaobin 
Published: October 2022

BackgroundCuproptosis, a copper-dependent controlled cell death, is a novel form of cell death that differs from known cell death mechanisms; however, its overall regulation in cancer remains elusive.MethodsMultiple open-source bioinformatic platforms were used to comprehensively elucidate the expression levels, prognostic efficiency, potential biological functions, genomic and epigenetic characteristics, immune microenvironment, and drug sensitivity of cuproptosis regulators (ATP7A, ATP7B, DLAT, DLD, FDX1, GLS, LIAS, LIPT1, MTF1, NLRP3, PDHA1, PDHB, and SLC31A1) in pan-cancer.ResultsCuproptosis-related genes (CRGs) were upregulated in most cancers tested. In KIRC, KIRP, LGG, MESO, and PCPG, most highly expressed CRGs predicted a better prognosis but poorer prognosis in patients with ACC, LIHC, and UCEC. Pathway analysis confirmed that cuproptosis regulators were associated with the metabolism-related pathways. The expression of MTF1, NLRP3, and SLC31A1 was positively related with ImmuneScore, StromalScore, and ESTIMATEScore in almost all types of tumor, whereas ATP7B, DLAT, DLD, LIAS, PDHA1, and PDHB were significantly negatively correlated with the scores. In addition, CRGs were significantly correlated with RNA stemness score, DNA stemness score, microsatellite instability, and tumor mutational burden. The expression of ATP7A, ATP7B, LIAS, and DLAT was significantly positively correlated with the drug sensitivity of Docetaxel. ATP7A, LIAS, and FDX1 were significantly negatively correlated with the drug sensitivity of UNC0638, XMD13−2, YM201636, and KIN001−260.ConclusionsThe altered genomic and clinical characteristics of cuproptosis regulators were comprehensively elucidated, providing a preliminary basis for understanding the functions of cuproptosis in pan-cancer.
Predicting a reduction in intraocular pressure in glaucoma patients in the early period after a trabeculectomy: Development and assessment of a new predictive nomogram
Authors: Wang Ruixue , Li Ning , Tan Yue , Chen Xiaoya 
Published: October 2022

PurposeTo identify the factors associated with a reduction in intraocular pressure (IOP) in the early postoperative period after a trabeculectomy and to develop a predictive nomogram to guide clinical care.MethodsThis study included clinical data on 588 glaucoma patients (N = 588 eyes) who underwent a trabeculectomy in our hospital between January 2016 and December 2021. There were 412 eyes in a training cohort and 176 eyes in a validation cohort. We used logistic regression analysis to evaluate whether these factors were related to a decrease in IOP in the early period postsurgery and established a predictive model by combining features selected in a univariate analysis. We used external validation for evaluation. The standard for IOP reduction was that the IOP decreased to the normal range (10−21 mmHg) 1 month after the trabeculectomy.ResultsAmong the patients in the training cohort, 82.8% met the standard for IOP lowering. There were 11 meaningful differences among the enrolled predictors, but the logistic regression analysis only showed significant differences with anterior chamber angle closed, age, preoperative IOP, axial length, and visual field mean sensitivity (MS). The C-index of the model was 0.910 (95% confidence interval [CI]: 0.869-0.951). The C-index was 0.956 for external validation of the model.ConclusionThis new nomogram can be used to predict whether the IOP will reach the standard in the early stages after a trabeculectomy. The anterior chamber angle closed, age, preoperative IOP, axial length, and visual field MS are independent risk factors.
Molecular subtyping of Blastocystis sp. detected in patients at a large tertiary referral hospital in Lusaka, Zambia
Authors: Munsaka Gilbert , Hayashida Kyoko , Mubemba Benjamin , Simulundu Edgar , Mulunda Namwiinga , Pule Ruth , Sianongo Sandie , Makuluni Marina , Muleya Walter , Changula Katendi , Chitanga Simbarashe , Mutengo Mable 
Published: October 2022

BackgroundBlastocystis sp. is a common enteric eukaryote of humans whose pathogenicity is still debatable. However, a number of reported Blastocystis colonization associated with enteric disease exist. In Zambia, presence of the pathogen has previously been reported in children. However, the molecular epidemiology of Blastocystis colonization remains unclarified in Zambia.Methods and resultsArchived stool samples submitted for routine parasitological diagnosis at Zambia’s largest tertiary referral hospital positive for Blastocystis sp. by microscopic examination were selected for the study. Subtyping of the Blastocystis was done based on polymerase chain reactions (PCR) amplification, sequencing and subsequent phylogenetic analysis of the 18S small subunit (SSU) rDNA gene. Four subtypes, ST1 (allele 4), ST2 (allele 12), ST3 (allele 34, 36, 37, 38, 39) and ST6 (allele 122), were identified by molecular procedures in the study, with some Zambian sequences showing close relationships with those detected in non-human primates and common rats.ConclusionsThe study revealed the circulation of multiple Blastocystis subtypes ST1, 20% (9/45), ST2, 15% (7/45), ST3 24.4% (11/45), and ST6, 2.2% (1/45) in the study population. The close clustering of some Zambian sequences with those detected from animals suggests the possibility of the presence of both anthroponotic and zoonotic transmission cycles in the country. Further studies in animal populations are recommended for a better understanding of the epidemiology of Blastocystis and for implementation of effective evidence-based control strategies.
Genome-wide association studies reveal novel QTLs, QTL-by-environment interactions and their candidate genes for tocopherol content in soybean seed
Authors: Yu Kuanwei , Miao Huanran , Liu Hongliang , Zhou Jinghang , Sui Meinan , Zhan Yuhang , Xia Ning , Zhao Xue , Han Yingpeng 
Published: October 2022

Genome-wide association studies (GWAS) is an efficient method to detect quantitative trait locus (QTL), and has dissected many complex traits in soybean [Glycine max (L.) Merr.]. Although these results have undoubtedly played a far-reaching role in the study of soybean biology, environmental interactions for complex traits in traditional GWAS models are frequently overlooked. Recently, a new GWAS model, 3VmrMLM, was established to identify QTLs and QTL-by-environment interactions (QEIs) for complex traits. In this study, the GLM, MLM, CMLM, FarmCPU, BLINK, and 3VmrMLM models were used to identify QTLs and QEIs for tocopherol (Toc) content in soybean seed, including δ‐Tocotrienol (δ‐Toc) content, γ‐Tocotrienol (γ‐Toc) content, α‐Tocopherol (α‐Toc) content, and total Tocopherol (T-Toc) content. As a result, 101 QTLs were detected by the above methods in single-environment analysis, and 57 QTLs and 13 QEIs were detected by 3VmrMLM in multi-environment analysis. Among these QTLs, some QTLs (Group I) were repeatedly detected three times or by at least two models, and some QTLs (Group II) were repeatedly detected only by 3VmrMLM. In the two Groups, 3VmrMLM was able to correctly detect all known QTLs in group I, while good results were achieved in Group II, for example, 8 novel QTLs were detected in Group II. In addition, comparative genomic analysis revealed that the proportion of Glyma_max specific genes near QEIs was higher, in other words, these QEIs nearby genes are more susceptible to environmental influences. Finally, around the 8 novel QTLs, 11 important candidate genes were identified using haplotype, and validated by RNA-Seq data and qRT-PCR analysis. In summary, we used phenotypic data of Toc content in soybean, and tested the accuracy and reliability of 3VmrMLM, and then revealed novel QTLs, QEIs and candidate genes for these traits. Hence, the 3VmrMLM model has broad prospects and potential for analyzing the genetic structure of complex quantitative traits in soybean.