bluuebunny/crossref_metadata_2025_split huggingface dataset:
A data-driven approach for chemotherapy recommendation model based on deep learning for patients with colorectal cancer in Korea
Authors: Park Jinhyeok , Lee Kang-Yoon , Baek Jeong-Heum , Lee Youngho 
Published: January 2020

Abstract
Background: Recently, the Clinical Decision Support System (CDSS) has attracted attention as a method for minimizing medical errors. To overcome the limitation that existing CDSS does not reflect actual data, we proposed CDSS based on deep learning. Methods: We proposed Colorectal Cancer Chemotherapy Recommender (C3R), a deep learning-based chemotherapy recommendation model. This supplements the limitation that the existing CDSS is difficult to support data-based decision making. It is configured to study the clinical data generated at Gachon Gil Medical Center and recommend appropriate chemotherapy. To validate the model, we compared the diagnosis concordance rate with the NCCN Guidelines, a representative cancer treatment guideline, and the results of the Gachon Gil Medical Center’s Colorectal Cancer Treatment Protocol (GCCTP). Results: The diagnosis concordance rates of the C3R model with the NCCN guidelines were 70.5% for the Top-1 Accuracy and 84% for the Top-2 Accuracy. Also, the diagnosis concordance rate with the GCCTP were 57.9% for the Top-1 Accuracy and 77.8 for the Top-2 Accuracy. Conclusions: This model is meaningful in that it is Korea’s first colon cancer treatment method decision support system that reflects actual data. In the future, if sufficient data is secured through multi-organization, more reliable results can be obtained.
Recombinant Porcine Rotavirus VP6 Proteins Expressed in Lactobacillus plantarum NC8 Strain Induces Specific Mucosal and Systemic Antibody Production in Experimental BALB/c mice
Authors: SHONYELA SERIA masole , Yang Wentao , Yang Guilian , Wang Chunfeng 
Published: January 2020

Abstract
Background Rotaviruses are the main cause of animal and infant diarrhea and are widely distributed worldwide. In the pig industry, porcine rotavirus infection is a significant cause of mortality and morbidity; therefore, the optimization and well-organized distribution of vaccines for infection prevention is needed. Because immune responses related to protection are mainly mucosal in nature, the induction of mucosal immunity is significant for preventing porcine rotavirus infection. Methods The major protective VP6 antigens against porcine rotavirus (PRV) expressed by Lactobacillus plantarum NC8-pSIP409-pgsA-VP6-Dcpep were used to orally immunize mice. Western blot analysis and SDS-PAGE were used to confirm the expression of recombinant NC8-pSIP409-pgsA-VP6-Dcpep, and immunofluorescence was also used to verify its surface expression on L. plantarum NC8. Results High levels of mucosal IgA and serum immunoglobulin G (IgG) were produced in mice that were orally immunized with recombinant L. plantarum NC8-pSIP409-pgsA-VP6-Dcpep. Mice immunized with NC8-pSIP409-pgsA-VP6-Dcpep had higher IgA titers than mice immunized with NC8-pSIP409-pgsA and PBS. The mice orally immunized with NC8-pSIP409-pgsA-VP6-Dcpep demonstrated a virus challenge-induced mean fever peak of 38.6°C in the NC8-pSIP409-pgsA-VP6-Dcpep group and 41.1°C in the NC8-pSIP409-pgsA group 4 to 6 days after the challenge, and 7 to 9 days following challenge. Conclusion Our results confirmed that with regard to stimulating mucosal immunity, the VP6 genes of the porcine rotavirus (PRV) Chinese PRV isolate DN30209 strain expressed by L. plantarum NC8 is effective and that Dcpep is superior in its ability to stimulate mucosal immunity, suggesting that this approach can be implanted in pigs.
Development and application of a triplex real-time PCR assay for simultaneous detection of avian influenza virus, Newcastle disease virus, and duck Tembusu virus
Authors: Zhang Xiyu , Yao Ming , Tang Zhihui , Xu Daning , Luo Yan , Gao Yunfei , Yan Liping 
Published: January 2020

Abstract
Background：At present, pathogens including duck-origin avian influenza virus (AIV), duck-origin Newcastle disease virus (NDV) and duck Tembusu virus (DTMUV) have posed great harm to ducks and caused great economic losses to the duck industry. Therefore, these viruses should be detected as early as possible in suspected duck flocks. This study aims to develop and apply a triplex real-time polymerase chain reaction (PCR) assay that can simultaneously detect these three viruses. Results：A sensitivity test shows that the positive detection limit of real-time PCR was at least 10 times higher than that of conventional PCR, with a detection limit of 1×101 copies/μL for AIV, NDV, and DTMUV. Furthermore, the cross-reactivity study of this method with other avian respiratory viruses suggested that the triplex assay was highly specific. The intra-day relative standard deviation and inter-day relative standard deviation were lower than 4.88% for these viruses at three different concentrations. Eventually, a total of 120 clinical samples were evaluated by the developed assay as well as routine PCR. Results showed that the positive rates for these two methods were 23.3% and 17.5%. Conclusion：The method developed in this research is rapid, specific and sensitive. It is feasible and effective for simultaneous detection of AIV, NDV, and DTMUV in ducks.
Cell-penetrating doxorubicin released from Elastin-like polypeptide kills doxorubicin-resistant cancer cells
Authors: Ryu Jung Su , Kratz Felix , Raucher Drazen 
Published: January 2020

Abstract
Background: Elastin-like polypeptide (ELP) undergoes its characteristic of phase transitioning in response to ambient temperature. ELP therefore has been be used as a thermosensitive vector for the delivery of chemotherapy agents since it can be targeted to hyperthermic tumors. This novel strategy introduces unprecedented options for treating cancer, with fewer concerns about side effects. In this study, the ELP system was further modified with an enzyme-cleavable linker in order to release drugs within tumors. This system consists of ELP, a matrix metalloproteinase (MMP) substrate, a cell penetrating peptide (CPP), and 6-maleimidocaproyl amide derivative of doxorubicin (Dox). This construct may be initially targeted to the tumor by application of mild heat after administration. Within the hyperthermic tumor, then this construct is cleaved by MMP, releasing CPP-Dox, which can infiltrate tumor tissues and penetrate cell membranes. Methods: We produced the construct in E.coli and examined its cleavage by MMP enzymes in vitro. Flow cytometry and confocal analysis were used to verify the facilitated uptake of the digested cell-penetrating Dox by breast cancer cells and Dox-resistant cells. Cytotoxicity tests further demonstrated improvements in bioavailability of cell-penetrating Dox following the enhanced cellular uptake of the cancer cells. Comparisons with the non-cleavable ELP counterpart were paralleled. Results: This strategy shows up to a 4-fold increase in cell penetration and results in more death in breast cancer cells than the ELP-Dox. Even in doxorubicin-resistant cells (NCI/ADR and MES/ADR), ELP-released, cell-penetrating doxorubicin demonstrated better membrane penetration, leading to at least twice the killing of resistant cells than ELP-Dox and free Dox. Conclusion: MMP-digested CPP-Dox shows better membrane penetration and induces more cancer cell death in vitro. This CPP-complexed Dox released from ELP kills even dox-resistant cells more efficiently than both free doxorubicin and non-cleaved ELP-CPP-Dox.
A competing endogenous RNA mechanism in glioblastoma is investigated by bioinformatics analysis
Authors: Wang Jinsheng , Wang Yutao , Gao Lei , Zhao Yuhua , Liu Junhua , Cai Da , Zhang Xiao 
Published: January 2020

Abstract
Background Glioblastoma (GBM) is the most aggressive and most lethal primary malignant brain tumor, the 5-year survival rate of which is less than 5%. Novel potential molecular and mechanism of GBM need to investigate.Materials and methods Microarray data of GSE15824 was downloaded from GEO. Differentially expressed genes and lncRNAs were screened by Limma package in R studio, and pathway enrichment analysis was performed by clusterprofiler package in R studio and IPA. The ceRNA mechanism was analyzed and predicted by several kinds of online public databases.ResultsThere were 567 differentially expressed genes and 121 differentially expressed lncRNAs in GBM. And differentially expressed genes were mainly enriched in Tuberculosis, Staphylococcus aureus infection, Systemic lupus erythematosus, Basal cell carcinoma, TGF-beta signaling pathway and p53 signaling pathway. Besides, Neuroinflammation signaling pathway, Role of NFAT in regulation of the immune response, and Dendritic cell maturation were significantly activated in GBM. According to the analysis of target miRNAs of SEM4D and OSER1-AS1, a possible ceRNA mechanism OSER1-AS1/hsa-miR-520h/SEMA4D axis was predicted in GBM.Conclusion Bioinformatics analysis was employed to analyze GSE15824 chip, and predict the potential mechanism. The results revealed that the ceRNA mechanism, OSER1-AS1/hsa-miR-520h/SEMA4D axis, might play a vital role in GBM.
The impact of preoperative use of calcium channel blockers on outcomes of patients undergoing esophagectomy: a propensity score-matched cohort study
Authors: Lin Qihua , Zhang Tianhua , Wu Zhijie , Li Huiting , Yu Junjie , Tan Hongying , Lin Wenqian , cao longhui 
Published: January 2020

Abstract
BACKGROUND In this study, we compared the effects of using preoperative CCBs on perioperative outcomes, cancer recurrence and overall survival in patients undergoing esophagectomy. METHODS A retrospective cohort study was performed on patients who underwent esophagectomy at the Sun Yat-Sen University Cancer Center (n=2415, 2009-2013). Univariate and multivariate logistic regression analyses were performed to assess the perioperative outcomes, while recurrence-free survival and overall survival were assessed using Kaplan-Meier survival estimates and compared using a multivariate Cox proportional hazards regression, adjusted with propensity scores. RESULTS There were 162 patients in the CCB group and 1110 patients in the non-CCB group and the total incidence of perioperative complications was 45.7% in the CCB group and 42.5% in the non-CCB group. The differences in total perioperative complications and other perioperative outcomes were not significantly different between the two groups (P>0.05). The mortality rate was not significantly different between the two groups after matching (38.1% vs 31.6%, P=0.233). The difference in recurrence rate between the two groups was not statistically significant after matching (43.2% vs 32.9%, P = 0.061). Overall survival was shorter in patients with preoperative CCB use than in patients without CCB use (hazards ratio: 1.517, 95% confidence intervals (CI): 1.036-2.220, P=0.030). The multivariate Cox proportional hazards regression adjusted with propensity scores found that a history of smoking cigarettes, clinical stage III at diagnosis, preoperative CCB use, preoperative diuretics use, operation type and postoperative chemotherapy affected the overall survival of patients after esophagectomy. Recurrence-free survival was similar between the CCB and non-CCB groups (HR: 1.425, 95%CI: 0.989-2.053, P=0.054). A history of chronic lung disease, hypertension, and preoperative use of beta-blockers affected the recurrence-free survival of patients after esophagectomy. CONCLUSION Preoperative CCBs use was associated with shorter overall survival but did not affect recurrence-free survival or the postoperative complications for patients undergoing esophagectomy.
Is surgery after neoadjuvant chemoradiotherapy feasible for elderly patients with resectable or borderline resectable pancreatic ductal adenocarcinoma?
Authors: Suto Hironobu , Okano Keiichi , Oshima Minoru , Ando Yasuhisa , Matsukawa Hiroyuki , Takahashi Shigeo , Shibata Toru , Kamada Hideki , Kobara Hideki , Masaki Tsutomu , Suzuki Yasuyuki 
Published: January 2020

Abstract
Background The benefit and safety of pancreas resection for pancreatic ductal adenocarcinoma for elderly patients, especially after preoperative adjuvant therapy, is still unknown. This study attempted to evaluate perioperative and long-term outcomes after pancreas resection in elderly patients with pancreatic ductal adenocarcinoma and to detect the potential impact of neoadjuvant chemoradiotherapy. Methods One hundred and thirty-four consecutive patients undergoing curative resection for resectable and borderline resectable pancreatic ductal adenocarcinoma between March 2008 and February 2018 at our institution were analyzed. Patients were divided into two groups: patients older than or equal to 75 years (the elderly group, n=46) and those younger than 75 years (the younger group, n= 88). Results There were no significant differences both in overall survival and relapse free survival between the two groups (P=0.270, P=0.699). Although the induction rate of adjuvant chemotherapy was not significantly different (P=0.458), the completion rate was significantly lower in elderly group than that in younger group (35% and 56%; P=0.022). Neoadjuvant chemoradiotherapy was performed for 82 patients (61%), and the induction and completion rates were not significantly different (P=0.668, P=0.794) between the two groups. The elderly patients with completion of adjuvant chemotherapy had significantly better overall survival than those without it (P=0.032). Neoadjuvant chemoradiotherapy did not significantly affect overall survival in elderly patients, however, there was a trend toward longer overall survival in patients who had neoadjuvant chemoradiotherapy (P=0.072). Conclusions Neoadjuvant chemoradiotherapy could be introduced and completed even for elderly patients without serious complications and might lead to improved prognosis for those who are difficult to complete postoperative adjuvant chemotherapy.
Prognostic power of molecular and clinical data across cancer types
Authors: Xu Xinsen , Wang Wei , He Min , Yang Linhua , Chen Wei , Wang Jian 
Published: January 2020

Abstract
Background Precision medicine holds promise in prognostication of human cancer. By analyzing the Cancer Genome Atlas (TCGA) data, we evaluated the prognostic power of molecular and clinical data across 33 cancer types.Methods The clinical and molecular data of more than 11,000 patients were obtained from the TCGA database. Top features associated with overall survival were identified. Concordance index of each data type was calculated to investigate the prognostic power. The performance differences among clinical data, molecular data and combination data (integration of molecular data with clinical data) were evaluated.Results The prognostic power of combination data was significantly higher than the molecular data in 108 of 163 comparisons. However, it was only significantly higher than the clinical data in 27 of 163 comparisons. The clinical data seemed to be the most informative prognostic variable in almost half cancer types (14/33). Deeper insights into the low grade glioma models showed that integration of clinical data with molecular data yielded better prognostic modelling than either data used alone. From the pan-cancer level, the combination data was shown to be the most informative prognostic predictor when the sample size was large. In addition, mutation data also showed significant prognostic value.Conclusions Molecular markers complement the traditional diagnostic approaches in the pursuit of precision medicine. The combination of reliable clinical data, multidimensional genomic measurements and mature bioinformatics algorithms may confer more robust prognostic value that will inform clinical decision making.
A simple model established by blood markers predicting overall survival after radical resection of type II and III Adenocarcinomas of the Esophagogastric Junction
Authors: Zhang Li-xiang , Wei Zhi-jian , Xu A-Man 
Published: January 2020

Abstract
Background The prognostic prediction after radical resection of Adenocarcinomas of the esophagogastric junction (AEG) has not been well established. We aimed to establish a prognostic model for AEG based on a new score system, which included another clinical routine serum marker.Methods 355 patients who underwent curative AEG at the first affiliated Hospital of Anhui Medical University from January 2010 to January 2011 were included in this study. Univariate and multivariate analysis were used to screen for prognostic risk factors. The construction of the nomogram was based on Cox proportional hazard regression models. The construction of the new score models was analyzed by C index and Calibration curves.Results Multivariate analysis showed that TNM stage, NLR and BMI were independent prognostic factors. The new score system had a higher C-index, and the Calibration curves of the nomogram was reliable.Conclusions Based on the serum markers and other clinical indicators, we developed a precise model to predict the prognosis of patients with AEG after radical surgery. This score system can provide effective help for surgeons and patients.
Fruit and vegetable consumption is associated with lower prevalence of asymptomatic diverticulosis: a cross-sectional colonoscopy-based study
Authors: Maxner Ben , McGoldrick Jessica , Bellavance Danielle , Liu Po-Hong , Xavier Ramnik J , Yarze Joseph C , Ricciardi Rocco , Staller Kyle , Chung Daniel C , Khalili Hamed 
Published: January 2020

Abstract
Background: Previous studies of the relationship between dietary factors and risk of diverticulosis have yielded inconsistent results. We therefore sought to investigate the association between consumption of fruit and vegetables and prevalent diverticulosis. Methods: Our study population included participants in the Gastrointestinal Disease and Endoscopy Registry (GIDER), a colonoscopy-based longitudinal cohort at the Massachusetts General Hospital, who provided comprehensive information on dietary intake and lifestyle factors using validated questionnaires prior to colonoscopy. Information on presence and location of diverticula was obtained from the endoscopist at the end of each procedure. We used logistic regression modeling to calculate the odds ratios (ORs) and 95% confidence intervals (CIs). Results: Among 549 participants with a mean age of 61 years enrolled in GIDER, we confirmed diverticulosis in 245 (44.6%). The prevalence of diverticulosis appeared to decrease with higher consumption of fruit and vegetables (P trend <0.001). Compared to participants with less than five servings of vegetables per week, the multivariable-adjusted ORs of diverticulosis were 0.67 (95% CI, 0.39-1.14) with five to seven servings per week and 0.37 (95% CI, 0.22-0.63) with greater than one serving per day. Similarly, compared to participants with less than five servings per week of fruit, the multivariable-adjusted OR of diverticulosis was 0.35 (95% CI, 0.20-0.59) with greater than one serving per day. These associations were not modified by age, BMI, smoking, or red meat intake (All P interaction >0.072). Conclusion: In a colonoscopy-based longitudinal cohort study, we show that consumption of fruit and vegetables is associated with lower risk of prevalent diverticulosis.
Golimumab in adolescents with Crohn’s disease refractory to previous tumor necrosis factor antibody
Authors: Pichler Judith , Memaran Nima , Huber Wolf-Dietrich , Aufricht Christoph , Bidmon-Fliegenschnee Bettina 
Published: January 2020

Abstract
Background Inducing and maintaining clinical remission in children with Crohn’s disease (CD) is associated with treatment with antibody to tumor necrosis factor (TNF)-α such as infliximab or adalimumab. In the treatment of paediatric CD, there are no data about the use of a third introduced subcutaneous TNF-antibody, golimumab, Methods We evaluated the efficacy of golimumab for adolescents with moderate/severe CD. Retrospective analyses were done in all 7 (5 girls) adolescents who received golimumab at a median age of 17 years for a median of 7.2 months. Paediatric Crohn’s disease activity index (PCDAI), full blood count, inflammatory markers, use of corticosteroids and adverse events were recorded. Results With golimumab, 5 of the 7 children were PCDAI responders and 2 entered remission (PCDAI<10). There was a significant increase in haematocrit after 2 weeks, faecal calprotectin was significantly reduced after 4 weeks compared to baseline. Out of five children, steroid withdrawal was possible in one and steroid reduction in two cases. There were no serious side effects. Conclusion With moderate/severe CD, golimumab induced and maintained clinical response. The majority of children were PCDAI responders, in most steroid sparing was possible. Golimumab might be an effective rescue therapy in refractory CD.
Nootropic dipeptide, Noopept can modulate hyperalgesia by effecting on spinal microglia dependent Brain Derived Neurotropic Factor (BDNF) and pro-BDNF expression and apoptosis during persistent inflammation
Authors: Taghizadeh Mona , Maghsoudi Nader , Manaheji Homa , Akparov Valery , Baniasadi Mansoureh , Danyali Samira , Mohammadi Mola , Ghasemi Rasoul , Zaringhalam Jalal 
Published: January 2020

Abstract
Background: There are largely unknown associations between changes in pain behavior responses during persistent peripheral inflammation and spinal cell alteration such as apoptosis. Some evidence suggests that microglia and microglia related mediators play notable roles in induction and maintenance of central nervous system pathologies and inflammatory pain. By considering those relationships and microglia related nootrophic factors, such as the Brain Derived Neurotrophic Factor (BDNF) in CNS, we attempted to assess the relationship between microglia dependent BDNF and its precursor with pain behavior through spinal cell apoptosis as well as the effect of Noopept on this relationship. Methods: Persistent peripheral inflammation was induced by a single subcutaneous injection of Complete Freund’s Adjuvant (CFA) on day 0. Thermal hyperalgesia, paw edema, microglial activity, microglia dependent BDNF, pro-BDNF expression, and apoptosis were assessed in different experimental groups by confirmed behavioral and molecular methods on days 0, 7, and 21 of the study. Results: Our findings revealed hyperalgesia and spinal cell apoptosis significantly increased during the acute phase of CFA-induced inflammation but was then followed by a decrement in the chronic phase of the study. Aligned with these variations in spinal microglial activity, microglia dependent BDNF significantly increased during the acute phase of CFA-induced inflammation. Our results also indicated that daily administration of Noopept (during 21 days of the study) not only caused a significant decrease in hyperalgesia and microglia dependent BDNF expression but also changed the apoptosis process in relation to microglia activity alteration. Conclusions: It appears that the administration of Noopept can decrease spinal cell apoptosis and hyperalgesia during CFA-induced inflammation due to its direct effects on microglial activity and microglia dependent BDNF and pro-BDNF expression.