bluuebunny/crossref_metadata_2025_split huggingface dataset:
Posttransplant de novo DSA and NDSA affect GvHD, OS, and DFS after haplo-HSCT in patients without pre-existing HLA antibodies of hematological malignancies
Authors: Wang Lan , Ji Kai , Chen Luyao , Li Ying , Zhu Wenjuan , Yuan Xiaoni , Bao Xiaojing , Wu Xiaojin , He Jun 
Published: December 2022

To examine the production time, type, and MFI of post-transplantation de novo HLA antibodies, and their effects on haplo-HSCT outcomes, we retrospectively included 116 patients who were negative for pre-existing HLA antibodies. In total, 322 serum samples from pre-transplantation to post-transplantation were dynamically tested by Luminex and single-antigen bead reagents. Patients were divided into: HLA antibody persistently negative group (group 1), the de novo HLA antibody transiently positive group (group 2), the de novo HLA antibody non-persistently positive group (group 3), and the de novo HLA antibody persistently positive group (group 4). Group 4 included DSA+non-DSA (NDSA) (group 4a) and NDSA (group 4b) groups. The detection rate of de novo HLA antibodies was 75.9% (88/116). The median MFI for de novo HLA antibodies was 2439 (1033-20162). The incidence of II–IV aGvHD was higher in group 2 than in group 1 (52.6% vs 17.9%, P &lt; 0.01); in group 4a than in group 1 (87.5% vs 17.9%, P &lt; 0.001); and in group 4a than in group 4b (87.5% vs 40.0%, P = 0.001). The DFS (37.5% vs 85.7%, P &lt; 0.01) and OS (37.5% vs 85.7%, P &lt; 0.01) of group 4a were lower than those of group 1. The DFS (48.0% vs 85.7%, P &lt; 0.01) and OS (56.0% vs 85.7%, P = 0.03) of group 4b were lower than those of group 1. Multivariate analysis showed that de novo HLA antibody being transiently positive (HR: 5.30; 95% CI: 1.71–16.42, P = 0.01) and persistently positive (HR: 5.67; 95% CI: 2.00–16.08, P &lt; 0.01) were both associated with a higher incidence of II–IV aGvHD. Persistently positive de novo HLA antibodies were a risk factor for reduced DFS (HR: 6.57; 95% CI: 2.08–20.70, P &lt; 0.01) and OS (HR: 5.51; 95% CI: 1.73–17.53, P &lt; 0.01). DSA and NDSA can be detected since 15 days after haplo-HSCT in patients without pre-existing HLA antibodies, and affect aGvHD, DFS, and OS. Haplo-HSCT patients must be monitored for HLA antibodies changes for appropriate preventive clinical management, and we recommend that 1-month post-transplantation is the best test time point.
Identification of renal ischemia reperfusion injury subtypes and predictive strategies for delayed graft function and graft survival based on neutrophil extracellular trap-related genes
Authors: Wu Jiyue , Zhang Feilong , Zheng Xiang , Zhang Jiandong , Cao Peng , Sun Zejia , Wang Wei 
Published: December 2022

BackgroundIschemia reperfusion injury (IRI) is an inevitable process in renal transplantation, which is closely related to serious postoperative complications such as delayed graft function (DGF), acute rejection and graft failure. Neutrophil extracellular traps (NETs) are extracellular DNA structures decorated with various protein substances released by neutrophils under strong signal stimulation. Recently, NETs have been found to play an important role in the process of IRI. This study aimed to comprehensively analyze the expression landscape of NET-related genes (NRGs) during IRI, identify clusters with different degrees of IRI and construct robust DGF and long-term graft survival predictive strategies.MethodsThe microarray and RNA-seq datasets were obtained from the GEO database. Differentially expressed NRGs (DE-NRGs) were identified by the differential expression analysis, and the NMF algorithm was used to conduct a cluster analysis of IRI samples. Machine learning algorithms were performed to screen DGF-related hub NRGs, and DGF and long-term graft survival predictive strategies were constructed based on these hub NRGs. Finally, we verified the expression of Cxcl1 and its effect on IRI and NETs generation in the mouse IRI model.ResultsThis study revealed two IRI clusters (C1 and C2 clusters) with different molecular features and clinical characteristics. Cluster C1 was characterized by active metabolism, mild inflammation and lower incidence of DGF, while Cluster C2 was inflammation activated subtype with a higher incidence of DGF. Besides, based on DGF-related hub NRGs, we successfully constructed robust DGF and long-term graft survival predictive strategies. The mouse renal IRI model verified that Cxcl1 was significantly upregulated in renal tissues after IRI, and using a CXCL8/CXCL1 inhibitor could significantly improve renal function, alleviate renal tubular necrosis, tissue inflammatory response, and NET formation.ConclusionThis study identified two distinct IRI clusters based on DE-NRGs and constructed robust prediction methods for DGF and graft survival, which can provide references for early prevention and individualized treatment of various postoperative complications after renal transplantation.
Central nervous system tumefactive demyelinating lesions: Risk factors of relapse and follow-up observations
Authors: Li Xinnan , Miao Xiuling , Wang Yaming , Sun Junzhao , Gao Haifeng , Han Jing , Li Yuxin , Wang Qingjun , Sun Chenjing , Liu Jianguo 
Published: December 2022

ObjectiveTo track the clinical outcomes in patients who initially presented with tumefactive demyelinating lesions (TDLs), we summarized the clinical characteristics of various etiologies, and identified possible relapse risk factors for TDLs.MethodsBetween 2001 and 2021, 116 patients initially presented with TDLs in our hospital were retrospectively evaluated. Patients were followed for relapse and clinical outcomes, and grouped according to various etiologies. Demographic information, clinical data, imaging data, and laboratory results of patients were obtained and analyzed. The risk factors of relapse were analyzed by the Log-Rank test and the Cox proportional hazard model in multivariate analysis.ResultDuring a median follow-up period of 72 months, 33 patients were diagnosed with multiple sclerosis (MS), 6 patients with Balo, 6 patients with neuromyelitis optica spectrum disorders (NMOSD), 10 patients with myelin oligodendrocyte glycoprotein antibody-associated demyelination (MOGAD), 1 patient with acute disseminated encephalomyelitis (ADEM), and the remaining 60 patients still have no clear etiology. These individuals with an unknown etiology were categorized independently and placed to the other etiology group. In the other etiology group, 13 patients had recurrent demyelinating phases, while 47 patients did not suffer any more clinical events. Approximately 46.6% of TDLs had relapses which were associated with multiple functional system involvement, first-phase Expanded Disability Status Scale score, lesions morphology, number of lesions, and lesions location (P&lt;0.05). And diffuse infiltrative lesions (P=0.003, HR=6.045, 95%CI:1.860-19.652), multiple lesions (P=0.001, HR=3.262, 95%CI:1.654-6.435) and infratentorial involvement (P=0.006, HR=2.289, 95%CI:1.064-3.853) may be independent risk factors for recurrence. Relapse free survival was assessed to be 36 months.ConclusionsIn clinical practice, around 46.6% of TDLs relapsed, with the MS group showing the highest recurrence rate, and lesions location, diffuse infiltrative lesions, and multiple lesions might be independent risk factors for relapse. Nevertheless, despite extensive diagnostic work and long-term follow-up, the etiology of TDLs in some patients was still unclear. And these patients tend to have monophase course and a low rate of relapse.
The early function of cortisol in liver during Aeromonas hydrophila infection: Dynamics of the transcriptome and accessible chromatin landscapes
Authors: Jiang Hucheng , Sun Mengling , Zhao Yanhua , Liu Guoxing , Zhong Liqiang , Xue Hui , Chen Xiaohui , Zheng You , Wang Minghua 
Published: December 2022

In China, channel catfish (Ictalurus punctatus) is an important aquaculture species; however, haemorrhagic disease (Aeromonas hydrophila induced disease) in these fish has caused tremendous economic loss due to high morbidity and mass mortality in the breeding industry. The role of cortisol in bacterial diseases, particularly in the acute phase, remains unclear. In this study, liver transcriptome (RNA-seq) and chromatin accessibility (ATAC-seq) analyses were employed to investigate the early functional role of cortisol in Aeromonas hydrophila-stimulated responses. Our experiments confirmed that A. hydrophila infection can initially significantly increase serum cortisol levels at 1 h after infection. At this time point, the increased serum cortisol levels can significantly regulate A. hydrophila-regulated genes by affecting both transcriptome and chromatin accessibility. Cross-analysis of RNA-seq and ATAC-seq revealed that a certain gene group (92 target_DEGs) was regulated at an early time point by cortisol. KEGG enrichment analysis revealed that the top three pathways according to target_DEGs were cancer, glutathione metabolism, and the Notch signalling pathway. The protein-protein interaction analysis of target_DEGs revealed that they may be primarily involved in cell proliferation, CD8+ T cell function, glutathione synthesis, and activation of the NF-κB signalling pathway. This suggests that after the emergence of immune stress, the early regulation of cortisol is positive against the immune response. It is possible that in this situation, the animal is attempting to avoid dangerous situations and risks and then cope with the imbalance produced by the stressor to ultimately restore homeostasis. Our results will contribute to future research on fish and provide valuable insight regarding the mechanism of immune regulation by cortisol and the study of bacterial haemorrhagic disease in channel catfish.
Mangrove restoration in Vietnamese Mekong Delta during 2015-2020: Achievements and challenges
Authors: Tinh Pham Hong , MacKenzie Richard A. , Hung Tran Dang , Vinh Truong Van , Ha Hoang Thi , Lam Mai Huong , Hanh Nguyen Thi Hong , Tung Nguyen Xuan , Hai Pham Minh , Huyen Bui Thanh 
Published: December 2022

Mangrove forest in the Mekong Delta plays important roles in protecting coasts from soil erosion and strong waves, supplying seafood, and accumulating carbon. Despite these benefits, mangroves have been and continue to be severely damaged by the impacts of natural and socioeconomic activities. In recent years, large areas of mangrove forest have been restored through planting and other various management actions. In this study, we analyzed high-resolution WorldView-2 images to quantify changes in the mangrove forest in seven coastal provinces (Tien Giang, Ben Tre, Tra Vinh, Soc Trang, Bac Lieu, Ca Mau, and Kien Giang) of the Mekong Delta from 2015 to 2020. Our study is one of the first to analyze mangrove forest change at the commune scale, the smallest official administrative unit in Vietnam, to determine the area of restored mangroves. The potentials and challenges in future mangrove restoration were also assessed by analyzing satellite imagery and field survey data. In the study area, mangrove forest area increased by 11,184 ha (approximately 2,237 ha per year) from 79,593 ha in 2015 to 90,777 ha in 2020. A total area of 16,138 ha (approximately 20.3%) was lost due to mangrove conversion to other land uses, aquaculture activities and coastal erosion, etc., while 27,322 ha (approximately 34.1%) was restored or newly planted during state- and NGO-funded mangrove restoration projects and programs. These results confirmed that mangrove restoration projects and programs have played a significant role in maintaining and increasing mangrove forest cover in Mekong Delta. The results can also assist managers and decision makers in mangrove restoration evaluation, and suggest analyzing WorldView-2 images to monitor mangrove restoration over time in Vietnam.
Filling ecological gaps in Chilean Central Patagonia: Patterns of biodiversity and distribution of sublittoral benthic invertebrates from the Katalalixar National Reserve waters (~48°S)
Authors: Zapata-Hernández Germán , Gorny Matthias , Montiel Américo 
Published: December 2022

Knowledge about the composition, diversity, and geographic distribution of marine species is important for successful conservation planning in the future. The ecological and zoogeographic patterns of benthic communities in Central Patagonia have been scarcely studied, due to the remoteness of the area combined with harsh weather conditions. During the past years, five scientific expeditions were executed in order to study the biodiversity, ecological, and biogeographical patterns of benthic invertebrates in the Katalalixar National Reserve (KNR) waters, Central Patagonia (~48°S). Our analyses comprised images from 26 video transects using a remotely operated vehicle, completed with biological sampling at four stations by means of SCUBA diving, covering a bathymetric range from 10 to 220 m depth. Stations covered the entire longitudinal range of the KNR, from inner channels to the Pacific Ocean. A total of 187 benthic invertebrate taxa were identified as OTUs (operational taxonomic units), with mollusks being the most conspicuous taxonomic group (18.7%), followed by sponges, echinoderms (16.6% each), and arthropods (14.4%). A higher OTU richness (42 to 51 OTUs) was observed in the central and western parts of the KNR waters. Analyses of the β-diversity indicated a similar level of species turnover between shallow, intermediate, and deep strata, as well as an important turnover between different locations. Dissimilitudes in the assemblage structure of invertebrates were explained mainly by changes in substrate types and longitude. Most of the species (49%) found in the KNR waters showed a wide latitudinal distribution range along the Eastern South Pacific Ocean (ESP) and the Chilean Patagonia of fjords and channels (CPFC) (~18°S and ~56°S), whereas 9.4% of the species have a wide distribution range between the CPFC and south of the Antarctic polar front (SAPF) (~42°S and ~65°S). Since only 16.7% of the species identified in the KNR are distributed exclusively in CPFC waters, it may be considered a transition area for marine invertebrates. It is distributed between northern ESP and SAPF. Knowledge of species composition and distribution patterns along spatial and environmental gradients is essential for any sustainable management, monitoring, and future conservation plans to protect the fragile and diverse marine ecosystems of Chilean Patagonia.
Correlation of low fetal fraction of cell-free DNA at the early second-trimester and pregnancy complications related to placental dysfunction in twin pregnancy
Authors: Li Jiaxin , Gu Xunke , Wei Yuan , Tao Yuan , Zhai Bingbing , Peng Chunfang , Huang Quanfei , Deng Tao , Yuan Pengbo 
Published: December 2022

IntroductionThis study aimed to determine the correlation between fetal fraction (FF) of cell-free DNA (cf-DNA) and pregnancy complications related to placental dysfunction in Twin Pregnancy.MethodsThis retrospective cohort study analyzed twin pregnant women who underwent non-invasive prenatal testing (NIPT) at 12+0–26+6 weeks of gestation from April 2017 to April 2021. Low fetal fraction (LFF) was defined individually as less than the 25th, 10th, 5th, and 2.5th percentile among all fetal fractions in the cohort. Primary outcomes included gestational hypertension (GH), preeclampsia (PE), gestational diabetes mellitus (GDM), and small for gestational age (SGA). Logistic regression analysis was used to assess the relationship between LFF and pregnancy complications.ResultsA total of 500 twin pregnancies (male-male twins, 245; female-female twins, 255) were included in this study. In LFF group (FF &lt; 25th percentiles), maternal BMI was significantly higher than FF &gt; 75th percentiles (23.6 kg/m2 vs. 21.3 kg/m2; P &lt; 0.001). The risk of SGA increased gradually from FF &lt; 25th percentiles [adjusted odds ratio (OR), 1.71; 95% confidence interval (CI), 1.07–2.99; P = 0.016] to FF &lt; 2.5th percentiles (adjusted OR, 4.44; 95% CI,1.33–14.82; P &lt; 0.015). In addition, the risks of SGA in both fetuses were higher than the risks of at least one fetus SGA in LFF group. LFF had no correlation with GH, PE, and GDM in twin pregnancy.ConclusionLFF has a strong association with increased risk of SGA in twin pregnancy. Moreover, FF of cf-DNA may provide a new idea for the early screening of diseases related to placental dysfunction in twin pregnancy.
Association between subclinical left ventricular ejection fraction and platelet-to-lymphocyte ratio in patients with peritoneal dialysis
Authors: Duan Yingjie , Peng Zhong , Zhong Shuzhu , Huang Hong , He Zhangxiu 
Published: December 2022

BackgroundReduced left ventricular ejection function (LVEF) was associated with increased mortality in patients with peritoneal dialysis (PD) in Asia and the United States of America. The neutrophil-to-lymphocyte ratio (NLR) and platelet-to-lymphocyte ratio (PLR) were correlated with LVEF in PD. However, little information is available regarding the relationship between monocyte-to-lymphocyte ratio (MLR), left ventricular ejection fraction (LVEF), and the use of NLR, PLR, and MLR in predicting left ventricular systolic dysfunction (LVSD) in patients with PD.MethodsAll 181 patients with PD were enrolled between 2014 and 2021 from the Nephrology Department of the First Affiliated Hospital of the University of South China. Demographic features, clinical characteristics, laboratory values, and echocardiographic parameters were collected.ResultsThe mean age of patients with PD was 47.4 ± 12.6, and 90 (49.7%) of the patients were men. LVEF showed a negative correlation with PLR (r = −0.200, p = 0.007) and MLR (r = −0.146, p = 0.049). The levels of NLR, PLR, and MLR were elevated in patients with PD with LVSD compared with those without (all p &lt; 0.05). PLR (OR 4.331, 95% CI: 1.223, 15.342) and albumin (OR 13.346, 95% CI: 3.928, 45.346) were significantly associated with LVSD patients with PD in the multivariate logistic analysis. For differentiating patients with PD with LVSD, optimal cutoffs of NLR, PLR, MLR, and albumin were 4.5 (sensitivity: 76.7%, specificity: 55.0%, and overall accuracy: 58%), 202.6 (sensitivity: 66.7%, specificity: 69.5%, and overall accuracy: 69%), 0.483 (sensitivity: 53.3%, specificity: 72.8%, and overall accuracy: 30%), and 34.6 (sensitivity: 72.2%), respectively.ConclusionsOur results revealed that PLR was better than NLR, MLR, and albumin in predicting LVSD in PD.
Potential biomarkers for active renal involvement in systemic lupus erythematosus patients
Authors: Xiao Lu , Xiao Wei , Lin Shudian 
Published: December 2022

ObjectiveThis study aimed to identify the key genes related to active renal involvement in patients with systemic lupus erythematosus (SLE).MethodsMicroarray datasets were downloaded from the Gene Expression Omnibus (GEO) database. Differentially expressed genes (DEGs) between SLE patients with active renal involvement and those who did not have active renal involvement were identified by R software. Hub genes were identified using protein–protein interaction networks. The relationships between the expression levels of identified hub genes and SLEDAI were subjected to linear correlation analysis. The diagnostic accuracy of the hub genes was evaluated with the area under the curve of the receiver operating characteristic curve (ROC-AUC). Transcription factors (TFs) were predicted. The expression levels of different hub genes and histopathological patterns were also examined.ResultsA total of 182 DEGs were identified. Enrichment analysis indicated that DEGs were primarily enriched in neutrophil degranulation, neutrophil activation involved in immune response and neutrophil activation. The expression levels of 12 identified hub genes were verified. Ten of the 12 hub genes were positively associated with SLEDAI. The combination model of DEFA4, CTSG, RETN, CEACAM8, TOP2A, LTF, MPO, ELANE, BIRC5, and LCN2 had a certain diagnostic accuracy in detecting renal involvement with high disease activity in SLE patients. The expressions of five predicted TFs were validated by GSE65391 dataset.ConclusionThis work explored the pathogenesis of renal involvement in SLE. These results may guide future experimental research and clinical transformation.
Recurrence risk stratification based on Epstein–Barr virus DNA to identify enlarged retropharyngeal lymph nodes of nasopharyngeal carcinoma: A model-histopathologic correlation study
Authors: Mao Minjie , Wang Xueping , Seeruttun Sharvesh Raj , Chi Peidong , Huang Kewei , Liu Wen , Tan Wencheng 
Published: December 2022

BackgroundAccurate assessment of the nature of enlarged retropharyngeal lymph nodes (RLN) of nasopharyngeal carcinoma (NPC) patients after radiotherapy is related to selecting appropriate treatments and avoiding unnecessary therapy. This study aimed to develop a non-invasive and effective model for predicting the recurrence of RLN (RRLN) in NPC.Materials and methodsThe data of post-radiotherapy NPC patients (N = 76) with abnormal enlargement of RLN who underwent endonasopharyngeal ultrasound-guided fine-needle aspirations (EPUS-FNA) were examined. They were randomly divided into a discovery (n = 53) and validation (n = 23) cohort. Univariate logistic regression was used to assess the association between variables (magnetic resonance imaging characteristics, EBV DNA) and RRLN. Multiple logistic regression was used to construct a prediction model. The accuracy of the model was assessed by discrimination and calibration, and decision curves were used to assess the clinical reliability of the model for the identification of high risk RLNs for possible recurrence.ResultsAbnormal enhancement, minimum axis diameter (MAD) and EBV-DNA were identified as independent risk factors for RRLN and could stratify NPC patients into three risk groups. The probability of RRLN in the low-, medium-, and high-risk groups were 37.5, 82.4, and 100%, respectively. The AUC of the final predictive model was 0.882 (95% CI: 0.782–0.982) in the discovery cohort and 0.926 (95% CI, 0.827–1.000) in the validation cohort, demonstrating good clinical accuracy for predicting the RRLN of NPC patients. The favorable performance of the model was confirmed by the calibration plot and decision curve analysis.ConclusionThe nomogram model constructed in the study could be reliable in predicting the risk of RRLN after radiotherapy for NPC patients.