bluuebunny/crossref_metadata_2025_split huggingface dataset:
Development and validation of lncRNAs–based Nomogram for prognosis prediction of hepatocellular carcinoma
Authors: Tang Hong , Zhao Han , Zhao Fei-fei , Xie Min , zhu ying 
Published: May 2022

Abstract
BACKGROUND
Hepatocellular carcinoma (HCC) is a common cancer with a poor prognosis. It is critical to develop effective tools for prognosis prediction of HCC and better understand its underlying molecular mechanism. Hence, the aim of this study is to construct a lncRNAs–based nomogram for prognosis prediction of HCC.
RESULTS
The expression data of long noncoding RNA (lncRNA) and messenger RNA (mRNA) of HCC patients were obtained from TCGA and GEO datasets. Differentially expressed lncRNAs between tumor and normal tissues were conducted in these datasets. A lncRNAs–based nomogram for prognosis prediction was then constructed. CeRNA network and Gene Set Enrichment Analysis (GSEA) were also performed to identify significantly enriched genes which share a common biological function or regulation based on our lncRNAs signature. A total of 415 patients were enrolled in this study, including 377 patients from TCGA dataset, 38 patients from GEO dataset (24 patients from GSE115019 and 14 patients from GSE101728). A two lncRNAs signature and lncRNAs–based nomogram was identified in discovery set (HR: 0.76, 95%CI: 0.63–0.91; P < 0.01;C-index = 0.71) and validated in test set (HR: 0.54, 95%CI: 0.30–0.96; P = 0.03;C-index = 0.73). In addition, ceRNA network and lncRNAs associated with pathways, such as metabolic pathways, chemical carcinogenesis, drug metabolism and carbon metabolism were further identified.
CONCLUSIONS
In summary, we constructed a lncRNAs–based nomogram that was a reliable prognostic tool for HCC patients. Additionally, our ceRNA network and GSEA results identified some potential mechanisms which were valuable research issue in future studies on the mechanism of HCC progression.
Evaluation of a protocol combining applications of Ophytrium-based shampoo and mousse in dogs with sensitive, itchy and irritated skin
Authors: Gatellet Marina , Ollivier Elodie , Kesteman Roxane , Fiora Pierre , Groux Daniel , Ilgart Emmanuelle , Jamet Jean-François , Madiot Gilles , Mahé Vincent , Ordeix Laura , Poujol Mikaël , Rosenkrantz Wayne , Wiest Melissa , Yotti Cesar , Blondel Thomas , Zemirline Claudine , De Jaeger Xavier 
Published: May 2022

Abstract
Topical formulations are key when managing skin conditions as they bring ingredients directly to the target organ. The objective of the study was to evaluate the effect of a protocol combining applications of Ophytrium-based shampoo and mousse (DOUXO® S3 CALM) in atopic dogs presenting with a skin flare. Thirty-four atopic dogs were included in the analysis of this prospective, multicentric European and US field study. Dogs received a shampoo application on D0 then mousse applications every 48–72 hours for three weeks. CADESI-04 scores were assessed by a dermatologist and pruritus by the owners (Pruritus Visual Analogue Scale score (PVAS)) on a weekly basis. On D21, veterinarian and pet owner evaluations were collected through questionnaires. Mean CADESI-04 score decreased significantly from 24.2 on D0 to 11.9 on D21 (49.4% mean improvement, P < 0.001 at all timepoints), and 61.8% of dogs achieved a ≥ 50% decrease of their CADESI-04 score on D21. Mean PVAS scores also decreased significantly between D0 and D21 (30.8% mean improvement, P < 0.001 at all timepoints) and 44.1% of the dogs showed a ≥ 50% PVAS decrease on D21. Veterinarians considered the improvement as satisfactory, good or excellent in 66.7% of cases. Pet owners were satisfied with the performance of the protocol in 72.7% of cases. In conclusion, the protocol combining applications of Ophytrium-based shampoo and mousse resulted in a quick and significant improvement in both skin health and pruritus in atopic dogs presenting with a skin flare with a high level of pet owner satisfaction.
Development and validation of a novel prognostic nomogram for patients with giant cell carcinoma of the lung: a population-based study
Authors: Wang Feng , Han Yi , Gong Chang-fan , Yan Dong-jie , Wang Chong , Liu Yang , Xiao Bo , Liu Shu-ku 
Published: May 2022

Abstract
Background: The objective of this research was to develop a nomogram for predicting the outcome of giant cell carcinoma of the lung (GCCL).Methods: 436 cases of GCCL were obtained from the Surveillance, Epidemiology, and End Results (SEER) database. Cases were divided into two cohort: training and validation cohort. Prognosis factors of nomogram were chosen using Cox regression model. The nomogram constructed with the training cohort was subsequently validated by the validation cohort. Harrell's concordance index (C-index), the decision curve analysis (DCA) and calibration curves were used to validate the performance of the nomogram.Results: The survival curves of the OS and cancer-specific survival（CSS）shows that 1-year and 5-year OS of all enrolled cases were 0.316 and 0.163, 1-year and 5-year CSS were 0.407 and 0.262. Age, marital status, site, T stage, N stage, M stage, surgery, radiation therapy, and chemotherapy were used to create the nomogram as independent prognostic variables. The C-index value were 0.774 and 0.765 for the training and validation cohort. The predicted survival probability and the actual survival probability showed a great consistency in calibration curves. The DCA revealed the nomogram had good clinical utility.Conclusions: A nomogram was developed to predict the outcome of patients with GCCL and the validation shows its excellent performance.
Trophic consequences of invasive mrigal carp for native mud carp by comparing the results of intra- and inter-specific competition
Authors: Zhang Yingqiu , Chen Fangcan , Li Yuefei , Li Xinhui , Dai Shouhui , Li Jie 
Published: May 2022

Abstract
Predicting the ecological impacts of invasive species on analogous native species has great significance for native population conservation. We tested how the strength of interspecific competition from a coexisting invasive species varies with abundance and how this compares with intraspecific competition. The model species was the native mud carp, and the coexisting invasive species was mrigal carp. The replicated mesocosm used each species in an allopatric control (n = 10), in intraspecific competition treatments (n = 20, 30), in a sympatric control (n = 5 for both species) and in interspecific competition treatments (n = 10, 15, 20 for both species). The treatment effects were the specific growth rate (SGR), position and size of trophic (isotopic) niches. Compared to mrigal carp, mud carp had a significantly lower survival rate (median: 0.8) and SGR. The mud carp SGR significantly decreased when the con- and inter-specific densities increased, showing a density dependence, but there was no significant difference between intra- and inter-specific competition. Compared to intraspecific competition in which mud carp expanded their niche, the presence of mrigal carp drove the mud carp trophic niche toward broader sizes at lower trophic positions, but intensified interspecific competition drove the mud carp trophic niche toward constriction. Both mud carp and mrigal carp expanded their niches in invaded communities, and their niches overlapped with each other. Their niche expansions implied plasticity in resource utilization. These results also suggested a complexity in how ilyophagous invasive species integrate into food webs and alter their structure.
Relationship between sarcopenia/paravertebral muscles and the incidence of vertebral refractures following percutaneous kyphoplasty: A retrospective study
Authors: Chen Qi , Lei Chenyang , Zhao Tingxiao , Dai Zhanqiu , Zhang Jun , Jin Yongming , xia Chen 
Published: May 2022

Abstract
Background
This study aimed to reveal the associations of osteoporotic vertebral compression refracture (OVCRF) incidence with sarcopenia and paravertebral muscles (PVM).
Methods
A total of 214 elderly patients who underwent percutaneous kyphoplasty in our hospital between January 2017 and December 2019 were analyzed. Data on possible risk factors, including sex, age, weight, height, diabetes, treated vertebral levels (thoracolumbar junction [(T10–L2]), vacuum clefts, and body mass index (BMI), were collected. Preoperative bone mineral density (BMD) and appendicular muscle mass were evaluated using dual-energy X-ray absorptiometry. Nutritional status was evaluated using the Mini Nutritional Assessment. Magnetic resonance imaging was performed to evaluate the physiological cross-sectional area of the PVM.
Results
Overall, 74 (15 men and 59 women) and 60 (55 women and 14 men) patients developed OVCRF and sarcopenia, respectively. Patients with sarcopenia tended to be older and had lower BMD and BMI values. Sarcopenia-related indicators (PVM fat rate, appendicular muscle mass index, grip strength) were significantly lower in the sarcopenia group. Univariate analysis showed a correlation between OVCRF and BMD, BMI, diabetes, sarcopenia, and age. Multivariate analysis suggested that fatty infiltration of the PVM, BMD, sarcopenia, diabetes, BMI, and treated vertebral level remained as the independent predictors of OVCRF (p < 0.05).
Conclusions
The association between sarcopenia and PVM as independent risk factors for OVCRF was established in this study; therefore, sarcopenia should be greatly considered in OVCRF prevention.
Asparagus racemosus aqueous extract improves seminal antioxidant status and sperm characteristics in buck semen at refrigeration temperature
Authors: gangwar chetna , Kumar Ashok , Mishra Anil Kumar , Kharche S.D. , Swaroop Kamendra , Pourouchttmane R , Goel Rakesh , Singh Shriprakash 
Published: May 2022

Abstract
During semen preservation, with the passage of time, there is decrease in fertilization rate or conception rate. The decrease occurs due to the gradual deterioration of semen quality. Hence, the investigation was planned to evaluate the effect of Asparagus racemosus aqueous extract on buck semen quality during preservation. In the current study, 8 ejaculates from 8 Jakhrana bucks were collected (total 64 ejaculates). Good quality semen samples were pooled during each collection. Pooled semen samples were then divided into 4 equal parts, and diluted in TRIS buffer containing different concentration of Shatavari aqueous extract (Different groups, i.e., G I -500 mg, G II-250 mg, G III-125 mg, G IV-0 mg of Shatavari aqueous extract in 100 ml TRIS Buffer). All the diluted semen samples were kept at refrigerated temperature (5ºC) for seven days, and on each day diluted semen was evaluated for various sperm characteristics and antioxidant status. Shatavari aqueous extract exhibited significant (P < 0.05) enhancement in sperm viability, sperm motility, acrosomal integrity and plasma membrane integrity, whereas it reduced the sperm abnormality. G III (125mg Shatavari extract/100ml TRIS buffer) showed significantly (P < 0.05) better results in terms of sperm viability, sperm motility, acrosomal integrity and plasma membrane integrity. Along with this the longevity of sperm was also enhanced in Shatavari supplemented group.
The Cellulose Regeneration in Imidazolium-based Ionic Liquids and Anti-solvents Mixtures: A DFT study
Authors: Fu Lanlan , Ju Zhaoyang , Yu Mengting , Luo Huaying , Zhang Cheng , Zhang Ximing , Cheng Haixiang , Zheng Minjia , Ge Chengsheng 
Published: May 2022

Abstract
Cellulose can be dissolved in ionic liquids (ILs) and it can be recovered by adding anti-solvent such as water or alcohol. Besides, the regenerated cellulose can be used for textiles, degradable membranes, hydrogels/aerogels, etc. But the regenerated mechanism of cellulose remains ambiguous. In this work, a Density Functional Theory (DFT) calculation is reported for the cellulose regeneration from a cellulose/1-n-butyl-3-methylimidazolium acetate (BmimOAc)/water mixture. To investigate the microcosmic effects of the anti-solvents, we analyzed the structures and H-bonds of BmimOAc-nH2O and cellobiose-ILs-nH2O (n = 0–6) clusters. It can be found that when n ≥ 5 in the BmimOAc-nH2O clusters, the solvent-separated ion pairs (SIPs) play a dominant position in the system. With the increasing numbers of water molecules, the cation-anion interaction can be separated by water to reduce the effects of ILs on cellulose dissolution. Furthermore, the BmimOAc-nH2O and cellobiose-ILs (n = 0–6) clusters tend to be a more stable structure with high hydration in an aqueous solution. When the water molecules were added to the system, H-bonds can be formed among H2O, the hydroxyl of cellulose, and the oxygen of OAc. Therefore, the interactions between cellobiose and ILs will be decreased to promote cellulose regeneration. This work would provide some help to understand the mechanism of the cellulose regeneration from the view of theoretical calculation.
An acute, blinded, randomised cross-over design intervention to compare beef, lamb and a meat analogue on digestive, metabolic and nutritional outcomes
Authors: Braakhuis Andrea , Cameron-Smith David , Pham Toan , Knowles Scott , Kaur Lovedeep , Bermingham Emma 
Published: May 2022

Abstract
BackgroundPlant-based analogues and substitutes for animal meat are receiving considerable attention within academia and the popular press. Once a niche product aimed at vegetarians, they are increasingly promoted to omnivores and meat-moderating “flexitarians”. Proponents view these new foods as a means of reducing livestock production and improving the environment, whilst industry sees opportunity to repurpose traditional and novel crops into high-value ingredients. To date, most research on meat alternatives has focused on public perception, processing technologies, hedonics and the consumer acceptability issues that underpin product development. There have been surprisingly few investigations into the nutritional, health and well-being consequences of consuming meat analogues over the short- or long term. The aim of our current trial is to consider the digestion, absorption and utilisation of a meat-analogue meal in Millennial consumers and compare that to matched meals featuring pasture-raised or grain-finished beef.MethodsA cohort of healthy, young (20-34 yrs) male participants will consume a single meal on three occasions in a treatment-crossover, blinded investigation. Each instance will be followed by five hours of repeated venous blood collection to assess the digestive and metabolic effects of the meal. The three meals include a popular commercial meat analogue comprising pea, bean and rice extracts plus plant fats and cellulose, or a beef patty from pasture-raised cattle or grain-fed cattle. Samples of the participants’ blood plasma will be measured for changes in amino acid profile, neurotransmitter proteins, chylomicron fatty acid distribution and biomarkers of general health.DiscussionTo our knowledge this is the first randomised controlled trial (RCT) comparing the acute nutritional effects of iso-caloric, blinded meals containing a plant-based meat analogue or pasture-fed- or grain-finished beef. The study provides proof of principle for only the effects of a single meal. Future work will translate these insights into longer-term, lifestyle interventions.Trial Registration This study, registered as Universal trial number: U1111-1244-9426. ClinicalTrials.gov: NCT04545398 will be carried out under the auspices of The University of Auckland. The trial has been granted ethical approval by the Ministry of Health, Health and Disability Ethics Committee (Ref: 19/STH/226). Date and version: 9/05/22, version 1
Role of reactive oxygen species in lesion mimic formation, and resistance to F. graminearum in barley lesion mimic mutant 5386
Authors: Hao Qunqun , Zhang Jifa , Guo Fenxia , Wang Yuhui , Li Wankun , Di Yindi , Ni Fei , Fu Daolin , Wang Wei , Wang Wenqiang 
Published: May 2022

Abstract
This study investigated barley lesion mimic mutant (LMM) 5386, it exhibited a leaf brown spot phenotype and conferred basal resistance to F. graminearum. RNA-seq analysis identified 1453 differentially expressed genes in LMM 5368 compared to those in the wild type. GO and KEGG functional annotations suggested that lesion mimic formation was mediated by pathways involving oxidation-reduction and glutathione metabolism. In addition, the accumulation of reactive oxygen species (ROS) in brown spots was substantially higher in LMM 5368. Antioxidant competence, as indicated by ROS accumulation, was significantly lower in LMM 5368. Further, the reduction of glycine in LMM 5386 inhibited glutathione biosynthesis. These results suggest that the decrease in antioxidant competence and glutathione caused the accumulation of large amounts of ROS and thus led to programmed cell death in leaves of LMM 5386, which eventually reduced the yield components in LMM 5386.
Splenic artery aneurysm management with detachable-coil embolization moderate packing.
Authors: Dinoto Ettore , Mirabella Domenico , Lachat Mario , Dolce Anita , Tortomasi Graziella , Urso Francesca , Marca Manfredi , Ferlito Francesca , Pecoraro Felice 
Published: May 2022

Abstract
Splenic artery aneurysm (SAA) management is various but endovascular solutions are preferred for a lower incidence of mortality and morbidity. The aim is to report SAA management using moderate packing of detachable coil embolization without routine splenectomy. From January 2017 to February 2020, we retrospectively analyzed patients presenting SAA and treated by moderate packing detachable coil embolization. SAA treatment indications were transverse diameter >2 cm, any size pseudoaneurysm, any size women in childbearing age and abdominal symptoms. The measured outcomes were technical success; mortality, morbidity, abdominal symptoms onset, and splenic infarction. Median follow-up was 34.77±9 months. Seven patients (median transverse diameter of 23±20 mm) were included. Technical success was achieved in all cases. No early mortality, abdominal pain onset or recurrence, reintervention, or splenic infarction was registered. Detachable coil moderate packing embolization is safe and effective for SAA management. The moderate coil packing maintained a limited splenic vascularization in the early period and avoided splenic infarction. During the follow-up, the coil embolization allowed SAA exclusion with no SAA growth. Larger patient samples with longer follow-up are required to validate this technique.
Integrated analysis for identification of key immune related genes and patterns of immune infiltration in calcified aortic valvular disease
Authors: Wu Li-Da , Xiao Feng , Sun Jin-Yu , Li Feng , Chen Yu-Jia , Chen Jia-Yi , Zhang Jie , Qian Ling-Ling , Wang Ru-Xing 
Published: May 2022

Abstract
Background: As the most prevalent valvular heart disease, calcific aortic valve disease (CAVD) has become a primary cause of aortic valve stenosis and a major health problem. We aimed to illustrate roles of immune related genes (IRGs) and immune infiltration in pathogenesis of CAVD.Methods: We used Integrative meta-analysis of expression data (INMEX) to incorporate multiple gene expression datasets related to CAVD. By matching the differentially expressed genes (DEGs) to IRGs from ImmPort database, differentially expressed immune related genes (DEIRGs) were screened out. Biological functional enrichment analysis were conducted based on GO database, KEGG database, DisGeNET database and TRRUST database. Then, we constructed protein–protein interaction (PPI) network and identified the key DEIRGs of CAVD according to the mixed character calculation results. Moreover, CIBERSORT was performed to explore the patterns of immune cells infiltration in CAVD. Finally, using Spearman method, correlation analysis between key IRGs and infiltrating immune cells was conducted.Results: 220 DEIRGs were identified, and the enrichment analysis of DEIRGs showed that they were significantly enriched in inflammatory responses. PPI network was constructed based on DEIRGs and PTPN11, GRB2, SYK, PTPN6 and SHC1 were identified as key IRGs. Compared with normal aortic valve tissue samples, the proportion of neutrophils, T cells CD4 memory activated and macrophages M0 was significantly elevated in calcified aortic valves tissue samples, as well as reduced infiltration of monocytes and NK cells activated. Furthermore, IRGs identified in the present study, including PTPN11, GRB2, PTPN6, SYK, and SHC1, was significantly correlated with the infiltration of various immune cells.Conclusions: This study suggested that PTPN11, GRB2, PTPN6, SYK, and SHC1 might be key IRGs associated with immune infiltration, which play a pivotal role in pathogenesis of CAVD.
Prediction of Response to Immune Checkpoint Blockade in Patients with Metastatic Colorectal Cancer with Microsatellite Instability
Authors: Duval Alex , Ratovomanana Toky , Nicolle Remy , Cohen Romain , Diehl Aurélien , Siret Aurélie , Letourneur Quentin , Buhard Olivier , Perrier Alexandre , Guillerm Erell , Coulet Florence , Colle Raphaël , Collura Ada , Despras Emmanuelle , Rouzic Philippe Le , Renaud Florence , Alentorn Agusti , Touat Mehdi , Ayadi Mira , Bourgoin Pierre , Prunier Celine , Jonchère Vincent , Bennouna Jaafar , de Reynies Aurélien , Fléjou Jean-François , Svrcek Magali , André Thierry 
Published: May 2022

Abstract
Tumors with microsatellite instability (MSI) represent a paradigm for the success of immune checkpoint inhibitor (ICI)-based immunotherapy, particularly in patients with metastatic colorectal cancer (mCRC). To date however, tools for predicting efficacy of these new therapies are lacking. Here we combined high-throughput DNA and RNA sequencing of tumors from 117 patients with MSI mCRC treated with anti-PD-1 +/- anti-CTLA-4 and enrolled into two cohorts, i.e., the NIPICOL clinical trial (NCT03350126) and the ImmunoMSI prospective cohort that were used as discovery and validation cohorts in this ancillary study, respectively. All analyses based on previously suggested DNA/RNA biomarkers of resistance failed to identify robust predictors of treatment response in patients, e.g., the level of MSI, mutational burden, the presence of specific somatic DNA variants as assessed by exome-sequencing and the activity of canonical signaling pathways or the presence of specific cellular contingents within the tumor bulk as estimated by RNA-sequencing. By contrast, resistance to ICI was found to depend both on a small subset of somatic DNA variants located in microsatellite-containing genes with very diverse biological functions and the expression of a stromal-oriented RNA component. Testing of these predictors in 5 large additional independent retrospective and prospective cohorts (IDEA and MOSAIC clinical trials) regrouping 446 patients with nonmetastatic or metastatic MSI CRC untreated with ICI allowed us to validate the specificity of the predictive nature of these indicators regarding ICI-treated MSI mCRC patients. The use of these DNA/RNA predictors will help to refine the ICI-based precision therapy of patients with metastatic MSI mCRC.