bluuebunny/crossref_metadata_2025_split huggingface dataset:
Mapping Trends and Identifying Hotspots in Research on Mesenchymal Stem Cells in Cardiovascular Disease
Authors: Chen Chan , Lou Yang , Li Xin-Yi , Lv Zheng-Tian , Zhang Lu-Qiu , Mao Wei 
Published: August 2020

Abstract
Background: Mesenchymal stem cells (MSCs) have important research value and broad application prospects in the cardiovascular disease. This study in order to provide information on the latest progress, evolutionary path, frontier research hotspots and future research developmental trends in this field. Methods: A knowledge map was generated by CiteSpace and VOSviewer analysis software based on data obtained from the literature on MSCs in the cardiovascular field.Results: The USA and China ranked at the top in terms of the percentage of articles, accounting for 34.306% and 28.550%, respectively. The institution with the highest number of research publications in this field was the University of Miami, followed by the Chinese Academy of Medical Sciences and Harvard University. The research institution with the highest ACI value was Harvard University, followed by the Mayo Clinic and the University of Cincinnati.The top three subjects in terms of the number of published articles were cell biology, cardiovascular system cardiology and research experimental medicine. The journal with the most publications in this field was Circulation Research, followed by Scientific Reports and Biomaterials. The direction of research on MSCs in the cardiovascular system was divided into four parts: (1) tissue engineering and gene and material research, (2) cell transplantation and signal transduction pathway research, (3) assessment of the efficacy of the use of stem cells from different sources in the treatment of acute myocardial infarction, and (4) myocardial hypertrophy, heart failure and myocardial infarction regeneration and repair research. Tissue research is the hotspot and frontier in this field.Conclusion: MSC research has presented a gradual upward trend in the cardiovascular field. Multidisciplinary intersection is a characteristic of this field. Engineering and materials disciplines are particularly valued and have received attention from researchers. The progress in multidisciplinary research will provide motivation and technical support for the development of this field.
Identification of key biomarkers and functional pathways in osteosarcomas with lung metastasis: Evidence from bioinformatics analysis
Authors: Liu Denghua , Zhou Rui , Zhou Aiguo 
Published: August 2020

Abstract
Background: In osteosarcoma, the lung is the most common metastatic organ. Intensive work has been made to illuminate the pathogeny, but the specific metastatic mechanism remains unclear. Thus, we conducted the study to seek to find the key genes and critical functional pathways associated with progression and treatment in osteosarcoma with lung metastasis.Methods: Two independent datasets (GSE14359 and GSE85537) were screened out from the Gene Expression Omnibus (GEO) database and the overlapping differentially expressed genes (DEGs) were identified using GEO2R online platform. Subsequently, the Gene Ontology (GO) annotation and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways enrichment analysis of DEGs were conducted using DAVID. Meanwhile, the protein-protein interaction (PPI) network constructed by STRING was visualized using Cytoscape. Afterwards, the key module and hub genes were extracted from the PPI network using the MCODE and cytoHubba plugin. Moreover, the raw data obtained from GSE73166 and GSE21257 was applied to verify the expression differences and conduct the survival analyses of hub genes, respectively. Finally, the interaction network of miRNAs and hub genes constructed by ENCORI was visualized using Cytoscape.Results: A total of 364 DEGs were identified, comprising 96 downregulated genes and 268 upregulated genes, which were mainly involved in cancer-associated pathways, adherens junction, ECM-receptor interaction, focal adhesion, MAPK signaling pathway. Subsequently, 10 hub genes were obtained and survival analysis demonstrated SKP2 and ASPM were closely related to poor prognosis of patients with osteosarcoma. Finally, hsa-miR-340-5p were found to be most closely associated with these hub genes according to the interaction network of miRNAs and hub genes.Conclusion: The key genes and functional pathways identified in the study may contribute to understanding the molecular mechanisms involved in the carcinogenesis and progression of osteosarcoma with lung metastasis, and provide potential diagnostic and therapeutic targets.
Research on Investment Portfolio Model Based on Neural Network and Genetic Algorithm
Authors: Zhou Wei , Zhao Yuanjun , Chen Weiwei , Liu Yanghui , Yang Rongjun , Liu Zheng 
Published: August 2020

Abstract
With the maturity of neural network theory, it provides new ideas and methods for the prediction and analysis of stock market investment. The purpose of this paper is to improve the accuracy of stock market investment prediction, we build neural network model and genetic algorithm model, study the law of stock market operation, and improve the effectiveness of neural network and genetic algorithm. Through the empirical research, it is found that the neural network model can make up for the shortcomings of the traditional algorithm through the optimization of genetic algorithm.
Effects of calcium level and source, acidification, and phytase on phytate degradation and the microbiota in the digestive tract of broiler chickens
Authors: Krieg Jochen , Borda-Molina Daniel , Siegert Wolfgang , Sommerfeld Vera , Chi Yung Ping , Taheri Hamid Reza , Feuerstein Dieter , Camarinha-Silva Amélia , Rodehutscord Markus 
Published: August 2020

Abstract
Background Diet acidification, dietary calcium ( Ca ) level, and phytase supplementation are known influences on the microbial community in the digestive tract and on phosphorus ( P ) utilization of broiler chickens. Effects of dietary factors and microbiota on P utilization may be linked because microorganisms produce enzymes that release P from phytate ( InsP 6 ), the main source of P in plant feedstuffs. This study aimed to detect linkages between microbiota and InsP 6 degradation by acidifying diets (i.e., replacing Ca carbonate (CaCO 3 ) by Ca formate or adding formic acid to CaCO 3 -containing diets), varying Ca levels, and supplementing phytase in a three-factorial design. We investigated i) the microbial community and pH in the digestive tract, ii) prececal ( pc ) P and Ca digestibility, and iii) InsP 6 degradation. Results All factors under investigation influenced digesta pH and the microbiota composition. Predicted functionality and relative abundance of microorganisms indicated that diets influenced the contribution of the microbiota on InsP degradation. Values of InsP 6 degradation and relative abundance of the strains Lactobacillus johnsonii and Lactobacillus reuteri were correlated. Phytase supplementation increased pc InsP 6 disappearance, with differences between Ca levels, and influenced concentrations of lower inositol phosphate isomers in the digestive tract. Formic acid supplementation increased pc InsP 6 degradation to myo -inositol. Replacing CaCO 3 by Ca-formate and the high level of these Ca sources reduced pc InsP 6 disappearance, except when the combination of CaCO 3 +formic acid was used. Supplementing phytase to CaCO 3 +formic acid led to the highest InsP 6 disappearance (52%) in the crop and increased myo -inositol concentration in the ileum digesta. Supplementing phytase leveled the effect of high Ca content on pc InsP 6 disappearance. Conclusions The results point towards a contribution of changing microbial community on InsP 6 degradation in the crop and up to the terminal ileum. This is indicated by relationships between InsP 6 degradation and relative abundance of phosphatase-producing strains. Functional predictions supported influences of microbiota on InsP 6 degradation. The extent of such effects still remains to be clarified. InsP 6 degradation can also be influenced by pH effects caused by dietary concentration and solubility of the Ca sources.
The Sequence of Disease Modifying Anti-Rheumatic Drugs: Pathways to and Predictors of Tocilizumab Monotherapy
Authors: Solomon Daniel , Xu Chang , Collins Jamie , Kim Seoyoung C. , Losina Elena , Yau Vincent , Johansson Fredrik D. 
Published: August 2020

Abstract
Background: There are numerous non-biologic and biologic disease modifying anti-rheumatic drugs (bDMARDs) for rheumatoid arthritis (RA) Typical sequences of bDMARDs are not clear.Methods: We used data from Corrona, a large real-world RA registry, to examine the sequence of bDMARDs in patients who eventually use tocilizumab monotherapy (TCZm), an IL-6 antagonist with similar benefits used as monotherapy or in combination. Patients starting a bDMARD were included and were followed using a Markov transition state model, assessing treatments every six-months, to determine if they used TCZm. A supervised machine learning algorithm was then employed to determine longitudinal patient factors associated with TCZm use.Results: 7,300 patients starting a bDMARD were followed for up to 5 years. Their median age was 58 years, 78% were female, median disease duration was 5 years, and 71.8% were seropositive. During follow-up, 287 (3.9%) reported use of TCZm with median time until use of 25.6 (11.5, 56.0) months. 82% of TCZm use began within three years of starting any bDMARD. 93% of TCZm users switched from TCZ combination, a TNF inhibitor, or another bDMARD. Very few patients are given TCZm as their first DMARD (0.6%). Variables associated with use of TCZm included: prior use of TCZ combination therapy, older age, longer disease duration, seronegative, higher disease activity, and no prior use of a TNF inhibitor.Conclusions: Improved understanding of treatment sequences in RA may help personalize care. These methods may help optimize treatment decisions using big data.
Spatial and temporal patterns in Carbon and Nitrogen inputs by net precipitation in Atlantic Forest, Brazil
Authors: Mantovani Vanessa Alves , Terra Marcela de Castro Nunes Santos , de Mello Carlos Rogério , Rodrigues André Ferreira , de Oliveira Vinicius Augusto , Pinto Luiz Otávio Rodrigues 
Published: August 2020

Abstract
Background Forests are important for governing local and regional water and nutrient dynamics. Thus, studying precipitation-forest interactions is essential to understand the consequences of land-use and climate change for the hydrological and nutrient cycles. This study aimed to quantify the contribution of the net precipitation on Atlantic Forest’s total carbon (C) and total nitrogen (N), identifying potential differences between these chemistry inputs regarding temporal (seasonal and monthly) and spatial scales.Results The rainfall was enriched after crossing the forest canopy. For gross rainfall and net precipitation, respectively, statistical differences were found between annual inputs of carbon (104.13 kg ha− 1 and 193.18 kg ha− 1) and nitrogen (16.81 kg ha− 1 and 36.95 kg ha− 1). Moreover, there was a seasonal variability in the inputs of C and N since 75% occurred in the wet season. November and December concentrated the largest nutrient contribution throughout the year. The spatial variability of C and N was higher in the wet season. Overall, the spatial patterns revealed that the same locations had the highest inputs regardless of the analyzed period.Conclusion Our findings reinforce that forests promote rainfall enrichment with C and N. The forest-rainfall interactions provide constant input of these nutrients, especially in the wet season, being fundamental for maintenance of ecological processes. Despite the nutrient inputs presented some variability, this study provides useful information on the changes of C and N inputs after forest-rainfall interactions. Thus, it can support the estimation of atmospheric deposition and advance the knowledge of the contribution of the leaching and absorption processes by canopies.
The Impact of Parturition Induction With Cloprostenol on Immunological Parameters in the Sow Colostrum
Authors: Hlavová Karolina , Kudláčková Hana , Faldyna Martin 
Published: August 2020

Abstract
Background: Farrowing induction with prostaglandin F2 analogue cloprostenol is commonly used on commercial farms to manage the timing of farrowing. When labour induction is applied, the questions arise about possible side effects of such a hormonal intervention on physiological processes connected with labour and lactation, including colostral immunity.Results: In this study, immune cells composition, lysozyme concentration, complement bacteriolytic activity and proinflamatory (GM-CSF2, IL-1β, IL-6, a TNFα) and anti-inflammatory (IL-4, IL-10, TGFβ1 a TGFβ2) cytokines were measured in colostrum samples from sows farrowing naturally (NP) and from sows with farrowing induced using cloprostenol administration on day 113 of gestation (IP). A significantly higher proportion of lymphocytes was found in colostrum of induced sows compared to colostrum of non-induced sows. No significant differences between NP and IP were found in complement activity, in the proportions of granulocytes, macrophages and lymphocyte subpopulations. Lower lysozyme concentration and higher IL-1β, IL-6, TGFβ1 and TNFα concentrations were found in IP sow colostrum compared to colostrum from NP sows. Conclusions: An increased number of colostral lymphocytes can positively influence the cellular immunity transmission from sow to her offspring. On the other hand, a lower lysozyme concentration can adversely affect newborn’s intestinal immunity, as well as changes in cytokine concentrations can have an adverse effect on newborn piglet intestinal epithelium development and its defence function.
A rapid qualitative assessment of the impact of the COVID-19 pandemic on a racially/ethnically diverse sample of gay, bisexual, and other men who have sex with men living with HIV in the US South
Authors: Rhodes Scott D. , Mann-Jackson Lilli , Alonzo Jorge , Garcia Manuel , Tanner Amanda E. , Smart Benjamin D. , Horridge Danielle N. , Dam Cornelius N. Van , Wilkin Aimee M. 
Published: August 2020

Abstract
Persons living with HIV (PLWH) may be at increased risk for severe COVID-19-related illness. Our community-based participatory research partnership collected and analyzed semi-structured interview data to understand the early impact of the COVID-19 pandemic on a sample of racially/ethnically diverse gay, bisexual, and other men who have sex with men living with HIV. Fifteen cisgender men participated; their mean age was 28. Six participants were Black/African American, five were Spanish-speaking Latinx, and four were White. Seventeen themes emerged that were categorized into six domains: knowledge and perceptions of COVID-19; COVID-19 information sources and perceptions of trustworthiness; impact of COVID-19 on behaviors, health, and social determinants of health; and general COVID-19-related concerns. Interventions are needed to ensure that PLWH have updated information and adhere to medication regimens, and to reduce the impact of COVID-19 on social isolation, economic stability, healthcare access, and other social determinants of health within this vulnerable population.
Comparative validation of the BOADICEA and Tyrer-Cuzick breast cancer risk models incorporating classical risk factors and polygenic risk in a population-based prospective cohort of women of European ancestry
Authors: Choudhury Parichoy Pal , Brook Mark N. , Wilcox Amber N. , Lee Andrew , Mulder Charlotta , Coulson Penny , Schoemaker Minouk J. , Jones Michael E. , Swerdlow Anthony J. , Chatterjee Nilanjan , Antoniou Antonis C. , Garcia-Closas Montserrat 
Published: August 2020

Abstract
Background: The Breast and Ovarian Analysis of Disease Incidence and Carrier Estimation Algorithm (BOADICEA) and the Tyrer-Cuzick breast cancer risk prediction models are commonly used in clinical practice and have recently been extended to include polygenic risk scores (PRS). In addition, BOADICEA has also been extended to include reproductive and lifestyle factors, which were already part of Tyrer-Cuzick model. We conducted a comparative prospective validation of these models after incorporating the recently developed 313-variant PRS. Methods: Calibration and discrimination of five-year absolute risk was assessed in a nested case-control sample of 1,337 women of European ancestry (619 incident breast cancer cases) aged 23-75 years from the Generations Study.Results: The extended BOADICEA model with reproductive/lifestyle factors and PRS was well calibrated across risk deciles; expected-to-observed ratio (E/O) at the highest risk decile: 0.97 (95% CI: 0.51 - 1. 86) for women younger than 50 years and 1.09 (0.66 - 1.80) for women 50 years or older. Adding reproductive/lifestyle factors and PRS to the BOADICEA model improved discrimination modestly in younger women (Area Under the Curve (AUC): 69.7% vs. 69.1%) and substantially in older women (AUC: 64.6% vs 56.8%). The Tyrer-Cuzick model with PRS showed evidence of overestimation at the highest risk decile: E/O = 1.54 (0.81 - 2.92) for younger and 1.73 (1.03 - 2.90) for older women.Conclusion: The extended BOADICEA model identified women in a European-ancestry population at elevated breast cancer risk more accurately than the Tyrer-Cuzick model with PRS. With the increasing availability of PRS, these analyses can inform choice of risk models incorporating PRS for risk stratified breast cancer prevention among women of European ancestry.
Complementary information provided by simultaneous sequencing of CTC, cfDNA and metastatic tissue in endocrine-resistant metastatic breast cancer
Authors: Manzano Esther Navarro , Pérez Maria Piedad Fernández , García-Martínez Elena , Barrio Pilar de la Morena , Rubio Alejandra Ivars , Benito Asunción Chaves , Díaz Francisco Martínez , Montoya Raul Teruel , García-Torralba Esmeralda , Peña Francisco Ayala de la 
Published: August 2020

Abstract
Background: Endocrine resistance is a major cause of therapeutic failure in metastatic breast cancer (MBC). The information provided by DNA sequencing of plasma cell free DNA (cfDNA) and by the analysis of circulating tumor cells (CTC) may be useful to determine the occurrence and type of endocrine resistance. However, different levels of concordance between cfDNA and CTC, and also between liquid biopsy and tissue biopsy, have been reported. Thus, the best strategy for performing DNA sequencing in the setting of therapeutic decisions for luminal MBC patients is not well defined. The purpose of this study was to determine the concordance between DNA sequencing data from CTC, cfDNA, metastasis, and primary tumor in endocrine-resistant luminal MBC.Methods: Using the same panel (10 genes) we performed simultaneous sequencing of cfDNA, CTC, metastases and primary tumor in 38 patients with luminal MBC. CTC isolation was performed with an Epcam-based immunomagnetic system. Concordance of DNA sequencing data of the different types of sample was analyzed and correlated with clinical data. Results: CTC were detected in 21% of the patients. The rate of detection of genetic alterations was 87.5% for CTC, 61.5% for cfDNA, 63.2% for metastasis and 67.7% for primary tumor, and involved mainly TP53, PIK3CA, ESR1 and AKT1. A higher number of mutations was found in cfDNA of MBC patients with progressive disease (p=0.02) and the same trend was observed for endocrine resistance (p=0.08), especially for PIK3CA, ESR1 and AKT1 mutations. Global concordance was low to intermediate between CTC and cfDNA, but significantly higher between CTC and metastasis. Concordance also varied according to the specific genetic alteration, with no ESR1 mutations detected in CTC and with a low concordance for PIK3CA and AKT1 mutations between CTC and cfDNA samples.Conclusions: DNA sequencing of different types of tumor samples (cfDNA, CTC, metastasis and primary tumor) may provide different rates of genomic alterations detection in luminal endocrine-resistant MBC. A moderate to low concordance, with discordances depending both on the clinical situation and on the sequenced gene, support the complementarity of the different samples, with cfDNA and metastatic tissue as the preferred sources of tumor DNA.
Biomarkers of Response to Combinational Use of PD-1 Blockade and Anti-angiogenesis: An Analysis from a Phase II Trial in Advanced Triple-negative Breast Cancer Patients
Authors: Liu Jieqiong , Li Ying , Li Qian , Liang Dandan , Wang Quanren , Liu Qiang 
Published: August 2020

Abstract
Background: We recently reported the results of a phase II clinical trial that the combinational use of camrelizumab plus apatinib induced an objective response rate (ORR) at 43.3% in advanced triple-negative breast cancer (TNBC) patients. This study presents the analysis of potential tumor and blood biomarkers for the patients responded to the combinational therapy. Methods: Stromal tumor-infiltrating lymphocytes (TILs), CD8+ T cells and the protein expression of programmed death protein 1 (PD-1) and PD-L1 were evaluated in tumor samples collected before and after the treatment. Peripheral blood samples were collected before treatment, 2-weeks and 8-weeks after treatment. 59 cytokines/chemokines, growth factors, or checkpoint-related proteins, blood immune cell subpopulations were analyzed in the blood samples. The correlation between biomarkers and clinical outcomes including ORR, progression-free survival (PFS), and overall survival (OS) was analyzed. Results: Upon database lock, the ORR of 28 evaluable patients was 46.4%. An increase of tumor-infiltrating CD8+ T cells more than 15% during therapy was significantly associated with higher ORR (P=0.040). Patients with lower baseline plasma levels of HGF or IL-8 were more likely to respond to the combinational treatment (P=0.005 or 0.001, respectively), and showed a longer PFS and OS (HGF: PPFS<0.0001, POS<0.0001; IL-8: PPFS<0.0001, POS=0.009). Patients with a decrease of IL-8, or an increase of TIM-3 or CD152 during treatment responded more to the treatment (P=0.008, 0.040, or 0.014, respectively). Responders had a higher baseline CD4+ T cells and B cell proportions in blood than non-responders (P=0.002 and 0.030 respectively). Moreover, patients with higher baseline CD4+ T cells or B cells proportions in blood showed a longer PFS (P<0.001) or a longer OS (P=0.030) respectively. Conclusion: Higher baseline TILs or a greater increase of tumor-infiltrating CD8+ T cells during therapy, lower baseline plasma HGF/IL-8, a decrease of plasma IL-8, an increase of plasma TIM-3/CD152 during therapy, higher baseline CD4+ T cells or B cells proportion in blood are potential biomarkers for the combinational anti-angiogenesis and immunotherapy in advanced TNBC patients.