bluuebunny/crossref_metadata_2025_split huggingface dataset:
An R Package for Data Mining Chili Pepper Fruit Transcriptomes
Authors: Escoto-Sandoval Christian , Flores-Díaz Alan , Reyes-Valdés M. Humberto , Ochoa-Alejo Neftalí , Martinez Octavio 
Published: December 2020

Abstract
Background: Open data sharing is instrumental for the advance of biological sciences. Gene expression is the primary molecular phenotype, usually estimated through RNA-Seq experiments. Large scope interpretation of RNA-Seq results is complicated by the extensive gene expression range, as well as by the diversity of biological sources and experimental treatments. Here we present “Salsa”, an auto-contained R package for extracting useful knowledge about gene expression during the development of chili pepper fruit. Methods and Results: Data from 168 RNA-Seq libraries, comprising more than 3.4 billion reads, were analyzed and curated to represent standardized expression profiles (SEPs) for all genes expressed during fruit development in 12 chili pepper accessions. Accessions have representatives of domesticated varieties, wild ancestors and crosses, covering a broad spectrum of genotypes. Data are organized in a relational way, and functions allow data mining from the level of single genes up to whole genomes, grouping profiles by different criteria. Those include any combination of expression model, accession, protein description and gene ontology (GO) term, among others. Also, GO enrichment analysis can be performed over any set of genes. Conclusions: “Salsa” opens endless possibilities for mining the transcriptome of chili pepper during fruit development.
Stabilization of EGLN3 by USP9X Contributes to Antineoplastic Function in Cholangiocarcinoma
Authors: Chen Weiqian , Song Jingjing , Liu Siyu , Tang Bufu , Shen Lin , Zhu Jinyu , Fang Shiji , Wu Fazong , Zheng Liyun , Qiu Rongfang , Chen Chunmiao , Gao Yang , Tu Jianfei , Zhao Zhongwei , Ji Jiansong 
Published: December 2020

Abstract
Background: Cholangiocarcinoma represents the second most common primary liver malignancy. The incidence rate has constantly increased over the last decades. Cholangiocarcinoma silent nature limits early diagnosis and prevents efficient treatment. Methods: Immunoblotting and immunohistochemistry were used to assess the expression profiling of USP9X and EGLN3 in cholangiocarcinoma patients. ShRNA was used to silence gene expression. Cell apoptosis, cell cycle, CCK8, clone formation, shRNA interference and xenograft mouse model were used to explore biological function of USP9X and EGLN3. The underlying molecular mechanism of USP9X in cholangiocarcinoma was determined by immunoblotting, co-immunoprecipitation and quantitative real time PCR (qPCR).Results: Here we demonstrated that USP9X is downregulated in cholangiocarcinoma which contributes to tumorigenesis. The expression of USP9X in cholangiocarcinoma inhibited cell proliferation and colony formation in vitro as well as xenograft tumorigenicity in vivo. Clinical data demonstrated that expression levels of USP9X were positively correlated with favorable clinical outcomes. Mechanistic investigations further indicated that USP9X was involved in the deubiquitination of EGLN3, a member of 2-oxoglutarate and iron-dependent dioxygenases. USP9X elicited tumor suppressor role by preventing degradation of EGLN3. Importantly, knockdown of EGLN3 impaired USP9X-mediated suppression of proliferation. USP9X positively regulated the expression level of apoptosis pathway genes KIF1Bβ through EGLN3 thus involved in apoptosis of cholangiocarcinoma. Conclusion: These findings help to understand that USP9X alleviates the malignant potential of cholangiocarcinoma through upregulation of EGLN3. Consequently, we provided novel insight into that USP9X is a potential biomarker or serves as a therapeutic or diagnostic target for cholangiocarcinoma.
Interleukin 35&nbsp;Activates Intratumor Neovascularization Via Enhanced Secretion of FGF2 in Hepatocellular Carcinoma Through The Recruitment of Neutrophils, and&nbsp;Blocking it Could Facilitate The Efficacy of The PD-1 Antibody
Authors: Gan Wei , Zhang Mei-Xia , Huang Jin-Long , Zhou Pei-Yun , Zhou Cheng , Liu Gao , Fu Yi-Peng , Sun Bao-Ye , Jing Chu-Yu , Guan Ruo-Yu , Wang Zhu-Tao , Zhou Jian , Fan Jia , Yi Yong , Qiu Shuang-Jian 
Published: December 2020

Abstract
Background: Recently, more and more treatment strategies for Hepatocellular carcinoma (HCC) have emerged, but the therapeutic effect is still not satisfactory. This study is aimed to explore the mechanism of Interleukin 35 (IL-35) in promoting the progression of liver cancer and to explore the application value of IL-35 in the treatment of HCC.Methods: We used clinical tissue microarray (TMA) immunohistochemistry (IHC) to explore the prognostic value of IL-35 expression in patients with HCC. The effect of IL-35 on the function of HCC was explored by functional experiments including wound-healing assay, transwell, cell counting kit-8, cell adhesion assay and endothelial tube formation assay in vitro and mouse xenografts in vivo. And flow cytometry was used to study the effect of IL-35 on infiltrating immune cells in tumor. The molecular mechanism of the function of IL-35 on the progression of HCC was explored by sequencing, ELISA, WB, PCR and other technical means. Finally, through in vivo tumor animal experiments to explore the value of anti-IL-35 antibody and combined with anti-PD-1 antibody in the treatment of liver cancer.Results: High expression of IL-35 in patients with HCC were identified to be associated with poor prognosis. And we have found that IL-35 facilitated tumor progression by affecting neutrophil infiltration, angiogenesis, and CD8+ T-cell infiltration in a mouse model. Additionally, on the one hand C-C motif chemokine ligand 3 (CCL3) has been found to be a key factor mediating the recruitment of neutrophils by IL-35, on the other hand fibroblast growth factor 2 (FGF2) secreting by neutrophil when stimulated by IL-35 was also found to be the core cytokine to promote intratumoral angiogenesis. And IL-35 was also discovered to facilitated the adhesion of tumor to endothelial cells, with neutrophils further enhancing this effect in vitro and vivo. More important, anti-IL-35 antibody was found to be a valid treatment for HCC in xenograft tumor model, and it could give full play to the curative effect of 1:1＞2 when combination therapy with PD-1 antibody.Conclusion: Our data show that the expression of IL-35 in patients with HCC is an important tumor promoting factor. The application of anti-IL-35 antibody and treatment combined anti-IL-35 antibody with anti-PD-1 antibody have potential therapeutic value in the treatment of liver cancer.
Ailanthone Enhances Gastric Cancer Cell Apoptosis Through Inducing DNA Damage and Repressing Base Excision Repair&nbsp;Via Downregulating P23
Authors: Huo Ming-yu , Zhang Chang-hua , Wang Chun-ming , Su Qiao , Li Hua-fu , Li Wu-guo , Wang Xiao-kun , Xiao Xing , Hao Teng-fei , Chen Wei , Zhang Ya-wei , Zhang Hai-yong , Wu Wang , Hu Zhen-ran , Zhao Guang-yin , He Yu-long 
Published: December 2020

Abstract
Background: Chemotherapy plays an irreplaceable role in the treatment of gastric cancer (GC), but currently available chemotherapeutic drugs are not ideal. Medicinal plants are an important direction for new drug discovery. Methods: We combined literature collection, organoid drug screening and PDX verification to search for new, effective drugs. The effect of AIL on the GC cells was investigated by CCK-8 assays, Colony Formation Assay and Cell Viability, Cell migration and invasion assay and PDX mice model. The expression of indicated RNA and proteins were measured by qRT-PCR ,IHC and western blotting. The proteins HSP90 binding to P23 or XRCC1 were identified by Co-IP. Results: Through drug screening of GC organoids, we had determined that ailanthone (AIL) has an anticancer effect on GC cells in vitro and in vivo. We also found that AIL promoted apoptosis of GC cells through flow cytometry analysis and the expression of caspase 3 and H2AX were significantly enhanced by AIL in GC cells and tumor tissues, suggesting that AIL can induce DNA damage and apoptosis of GC cells. Further transcriptome sequencing of the PDX tissue indicated that AIL inhibited the expression of XRCC1 which plays an important role in DNA damage repair, and the results were also confirmed by western blotting. In addition, we found that AIL inhibited the expression of P23 and inhibition of P23 decreased the expression of XRCC1 through western blotting analysis, indicating that AIL can regulate XRCC1 via P23. The results of co-immunoprecipitation showed that AIL can inhibit the binding of P23 and XRCC1 to HSP90 respectively.Conclusion: These findings indicate that AIL can induce DNA damage and apoptosis of GC cells. Meanwhile, AIL can decrease XRCC1 by downregulating P23 to inhibit DNA damage repair. The present study shed light to the new drug isolated from natural medicinal plants for GC therapy.
Effect of Granulocyte Colony Stimulating Factor (GCSF) on Live Birth Rate in Women With Unexplained Infertility After Intrauterine Insemination: a Randomized Clinical Trial
Authors: Aramesh Shahintaj , Kutenaee Maryam Azizi , Najafi Fataneh , Ghaffari Parvin , Taghavi Seyed Abdolvahab 
Published: December 2020

Abstract
Background: to evaluate the effect of granulocyte colony stimulating factor (GCSF) on fertility outcomes in women with unexplained infertility after intra uterine insemination (IUI).Methods: The patients with unexplained infertility were divided into two groups: one group was received GCSF in their IUI cycle and the other group had the routine IUI. Both groups were stimulated by letrozole, metformin and monotropin during the cycle. When at least one follicle was greater than 18mm, 5000 IU hCG intramuscularly was administered for ovulation induction and IUI was performed 34-36 hours later. In intervention group, 300 ug GCSF subcutaneously administrated in two days after IUI. The main outcome measures were biochemical pregnancy, clinical pregnancy, abortion rate and live birth rate.Results: There was no significant difference in demographic and clinical characteristics between the control group and the G-CSF group. Also, no statistically significant difference was identified in the biochemical pregnancy rates (16.3% vs 12.2%), clinical pregnancy rates(16.3% vs 8.2%), abortion rates (0 vs 2.04%) and live birth rates (8.2% vs 14.2%) between the control group and the G-CSF group (P=0.56, P=0.21, p=0.55 and p=0.32 respectively). Conclusion: Systemic administration of a single dose of 300 μg GCSF subcutaneously two days after IUI may slightly improve clinical pregnancy rate and live birth rate in patients with unexplained infertility. Nevertheless, our findings do not support routine use of G-CSF in unexplained infertility women with normal endometrial thickness. IRCT registration number: IRCT20160524028038N4.
The Impact of CKD on the Prognosis of COVID-19: A Protocol for Systematic Review and Meta-analysis
Authors: Liu Ruiqi , Mou Ruiyu , Jin Xinyao , Yang Kang , Chen Junli , Gao Chao , Yang Hongtao , Yang Bo 
Published: December 2020

Abstract
Background: COVID-19 is a serious respiratory disease currently causing a global pandemic. However, few studies have evaluated the prognosis of chronic kidney disease (CKD) patients infected with COVID-19. Given the comorbidities evident in CKD patients, we speculate that they are more likely to be susceptible to COVID-19 infection relative to healthy individuals. However, a systematic study is necessary to confirm the relationship between these two conditions.Methods: The Wanfang, China Science Journal Citation Report (VIP database), EMBASE, CNKI, Web of Science, PubMed, and Cochrane Library databases will be reviewed to identify relevant studies. The PRISMA-P and Cochrane Handbook guidelines were used to prepare a standardized table to extract data from all relevant studies in a uniform manner. Risk and quality assessment analyses will be conducted for all included studies, with Revman 5.3 and Stata 13.0 being used for all data analyses. The primary study outcome is the assessment of whether CKD is a risk factor associated with COVID-19 infection, and to establish whether CKD increases the risk of severe illness in those infected with COVID-19. Secondary outcomes include mortality rates in CKD patients with COVID-19.Results: This study approach will synthesize extant studies into a single systematic review and meta-analysis in order to establish whether or not CKD is a risk factor associated with the development of critical COVID-19 illness, and whether CKD patients are at a higher risk of being infected by COVID-19.Conclusion: These results will provide a basis for the clinical treatment of COVID-19 in those with CKD.Systematic Review registration: CRD42020216330（PRORPERO registration number）
The Effect of Esophageal Stethoscope Insertion on the Cuff Pressure: a Prospective Observational Study
Authors: Chang Jee-Eun , Lee Jung-Man , Lee Jiwon , Hwang Jin-Young , Kim Tae Kyong , Kim Hyerim , Won Dongwook , Oh Yoomin , Min Seong-Won 
Published: December 2020

Abstract
Background: High cuff pressure can induce ischemic injury to the trachea. An esophageal stethoscope can increase the cuff pressure. The purpose of this study was to evaluate the effect of an esophageal stethoscope insertion on the cuff pressure.Methods: Patients, who were scheduled for surgeries under general anesthesia, were enrolled in this prospective observational study. After induction of anesthesia, an anesthesiologist intubated a tracheal tube into the patient’s trachea and inflated the cuff manually. Then, an investigator checked the initial cuff pressure using a manometer. Next, the cuff pressure was adjusted to 24-26 mmHg. The cuff pressure was rechecked after insertion of an esophageal stethoscope. We recorded the change in cuff pressure by esophageal stethoscope.Results: One hundred twelve patients completed this study. The cuff pressure increased by an esophageal stethoscope in almost all patients and the mean cuff pressure change was 3.0 ± 3.4 cmH2O in all patients. Among all subjects, cuff pressure change over 5 cmH2O was recorded in 24 patients. When we compared the patient characteristics between patients whose cuff pressure changed over 5 cmH2O with that of other patients, females were more affected by insertion of an esophageal stethoscope, in terms of cuff pressure increase.Conclusion: Esophageal stethoscope insertion could increase cuff pressure, and females are more affected by it. Therefore, anesthesiologists should check the cuff pressure with a manometer after insertion of an esophageal stethoscope and readjust the pressure appropriately.Trial registration: ClinicalTrials.gov Identifier NCT03375554, registered on 12 December 2017 (https://register.clinicaltrials.gov/prs/app/action/SelectProtocol?sid=S0007N0H&selectaction=Edit&uid=U00026JX&ts=2&cx=-ivu5vz)
HNF1α Contributes to Radio-Resistance in Cervical Cancer Via Regulating the CircHNF1α/miR-204-3p/RAD51D Regulatory Axis
Authors: Du Hui , Zou Nai-Yi , Zuo Hong-Ling , Zhang Xue-Yuan , Zhu Shu-Chai 
Published: December 2020

Abstract
Background: Radiotherapy as an important primary treatment has effectively improved the survival of patients with cervical cancer (CC). However, some patients do not show optimal benefits of radiotherapy due to radio-resistance. Therefore, identification of biomarkers of radio-resistance and unraveling the underlying mechanisms of radio-resistance is a key imperative for these patients.Methods: The expression levels of circHNF1α, miRNAs, and mRNA in tissues and cell lines were detect by qRT-PCR analysis. The levels of proteins were analyzed by western blot. Cell proliferation ability was measured by colony formation assay. RNA pull-down and uciferase reporter assay analysis were performed to identify the sponging microRNAs of circHNF1α. The target gene of miR-204-3p was determined by luciferase reporter assay. Chromatin immunoprecipitation (ChIP) analysis and luciferase reporter assay were performed to identify the transcription factor of circHNF1α. Results: We found significant upregulation of HNF1α expression in radio-resistant cervical cancer tissues and cell lines. Depletion of HNF1α reduced whereas overexpression of HNF1α promoted the resistance of CC cells to irradiation in vitro and in vivo. HNF1α positively regulated RAD51D at the protein level but not at the mRNA level, thus attenuating radio-resistance of CC cells. Mechanistically, upregulation of HNF1α enhanced circHNF1α transcription and promoted circHNF1α biogenesis, which in turn sponged miR-204-3p and thus relieved their repression of the RAD51D expression. The HFN1α/circHNF1α/miR-204-3p/RAD51D regulatory axis was found to play a critical role in conferring radio-resistance of CC cells.Conclusions: Dysregulation of the HFN1α/circHNF1α/miR-204-3p/RAD51D axis may promote the radio-resistance of CC cells. Blocking this pathway may provide therapeutic benefits against CC radio-resistance.
Surgical Treatment of Coronary Artery Aneurysm with Calcification and Stenosis: A Case Report and Review of the Literature
Authors: Sun He , Zhang Mingkui , Wu Qingyu , Xue Hui , Jin Yongqiang 
Published: December 2020

Abstract
Coronary artery aneurysm (CAA) has been increasingly reported in recent years. The symptoms are related to myocardial ischemia, such as angina pectoris, myocardial infarction, sudden death and congestive heart failure. This report describes a case of a giant CAA with calcification and stenosis involving two coronary arteries, and the patient underwent a complete arterialized coronary artery bypass graft. After 3 months of follow-up, it was found that the radial artery graft was occluded. In this report, all cases related to CAA with calcification and stenosis are summarized. According to the data, the following conclusions can be drawn: CAA seem to be more common in men; Kawasaki disease is likely to be a causative factor in some patients with asymptomatic CAA involving calcification and stenosis; CABG is a feasible treatment option for CAA with calcification and stenosis.
Enrolment of Indigents into the National Health Insurance Scheme in Ghana through the Livelihood Empowerment Against Poverty Programme: What are the perceptions of the community?
Authors: Akweongo Patricia , Voetagbe Edmund , Tediosi Fabrizio , Gadeka Dominic Dormenyo , Salari Paola , Aikins Moses 
Published: December 2020

Abstract
Background: TheLivelihood Empowerment Against Poverty (LEAP) programme in Ghana as part of its beneficiary programme identifies the poor/indigents for exemptions from premium payments into the National Health Insurance Scheme (NHIS). The criteria for identifying the poor by the LEAP into NHIS is yet to be explored.This paper sought to understand community perceptions of enrolling the poor in the NHIS through LEAPin order to inform policy. Methods: The study adopted a descriptive cross-sectional study design using a qualitative approach. The study was conducted in three geographical regions: Greater Accra, Brong-Ahafo and Northern region representing the three ecological zones of Ghana between October 2017 and February 2018. The study population included community members, health workers, NHIS staff and social welfare officers/social development officers.Eighty-one In-Depth Interviews (IDIs) and 23 Focus Group Discussions (FGDs) across the three regions. Data were analysed thematically and verbatim quotes from participants are used to support the views of participants. Results: The study shows that participants are aware of the existence of LEAP and its benefits. There is however a general belief that the process of LEAP has been politicized and therefore favours only people who are sympathizers of the ruling government.Participants are also of the view that the process of selecting beneficiaries lacks transparency. As a result, the participants are not satisfied with the entire selection process. However, the study shows the ability of the community in identifying the poor. Furthermore, the study shows varying concepts of poverty and its identification across the three ecological zones or regions. The study also identifies poverty and cost of treatment as reasons in the decision to enrol into the NHIS. However, poor quality of care, out-of-pocket payment, far travel distance to NHIS registration / renewal centre and delays of the process are suggested barriers to low NHIS enrolment by participants. Conclusion: There is a general perception of politicization and lack of transparency of the selection of the poor into the NHIS through the LEAP in Ghana. Community-based approaches in the selection of the indigent is recommended to safeguard the NHIS-LEAP beneficiary process.
Identifying Serum Exosomal-Associated lncRNA/circRNA-miRNA-mRNA Network in Coronary Heart Disease
Authors: Mao Jia , Zhou Yufei , Lu Licheng , Zhang Ping , Ren Runhua , Wang Yaqiong , Wang Jing 
Published: December 2020

Abstract
Background: Accumulating evidence has indicated that the importance of noncoding RNAs and exosomes in coronary heart disease (CHD). However, the exosomal-associated competing endogenous RNA (ceRNA)-mediated regulatory mechanism in CHD is still unknown. The present study aimed to explore exosomal-associated ceRNA network in CHD.Methods: The dataset, including 6 CHD patients and 32 normal controls, were downloaded from the ExoRBase database. Differentially expressed mRNAs (DEMs), lncRNAs (DELs) and circRNAs (DECs) in the serum exosomes between CHD and normal controls were screened. MicroRNAs (miRNAs) targeting DEMs were predicted by Targetscan and miRanda, miRNAs targeting DELs and DECs were predicted with miRcode and starBase, respectively. The biological functions and related signal pathways of DEMs were analyzed using David and KOBAS database. Subsequently, the protein-protein interaction (PPI) network was established to screen out hub genes, enrichment analyses of hub genes were performed and the ceRNA network (lncRNA/circRNA-miRNA-mRNA) was constructed to elucidate ceRNA axes in CHD.Results: A total of 312 DEMs, 43 DELs and 85 DECs were identified between CHD patients and normal controls. Functional enrichment analysis showed that DEMs were significantly enriched in “chromatin silencing at rDNA”, “telomere organization”, “negative regulation of gene expression, epigenetic”. The PPI network analysis showed that 25 hub DEMs were closely related to CHD, of which, ubiquitin C (UBC) was the most important. The biological function of hub genes showed that they were mainly enriched in “cellular protein metabolic process”. The exosomal-associated ceRNA regulatory network incorporated 48 DEMs, 72 predicted miRNAs, 10 DELs and 15 DECs. LncRNA/circRNA-miRNA-mRNA interaction axes (RPL7AP11/hsa-miR-17-5p/UBC, RPL7AP11/hsa-miR-20b-5p/UBC) were obtained from the network. Conclusions: Our findings have provided a novel perspective on the potential roles of exosomal-associated ceRNA network regulating the pathogenesis of CHD.
A Case of Complete Double Layer Stents Fracture in Right Coronary Artery
Authors: Gong Xuhe , Yao Daokuo 
Published: December 2020

Abstract
Background: Coronary stent fracture is a rare and serious complication, because it is closely related to restenosis, stent thrombosis, and subsequent target lesion revascularization. We describe the fracture of a double layer of stents in a patient with recurrent acute inferior myocardial infarction. Case presentation: A 67-year-old man was hospitalized for untypical chest pain, with prior stents implantation twice in proximal of right coronary artery due to acute and recurrent myocardial infarction, complete stent fracture was revealed in right coronary artery by angiography and optical coherence tomography. Conservative therapy was chosen, as enough lumen area was observed without aneurysm. No recurrent chest discomfort was reported in 3 month after discharge.Conclusion: Our case describes complete double layer of stents fracture in right coronary artery, the patient get better prognosis through conservative treatment.