cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.16413246.v2
title: Apatinib inhibits cell proliferation and migration of osteosarcoma via activating LINC00261/miR-620/PTEN axis

description: Apatinib has been recently identified as a potential treatment option for osteosarcoma (OS). Nonetheless, the molecular mechanism of Apatinib in regulating OS progression remains unclear. To explore the downstream molecules that mediated the tumor-suppressive effect of Apatinib on OS. Expression levels of genes were detected by RT-qPCR and western blot assays. Functional assays including Transwell assay were applied to detect the proliferation, apoptosis and migration of OS cells. Molecular interactions were detected by luciferase reporter assay and RIP assay. Apatinib inhibited the proliferation and migration of OS cells. LINC00261 was down-regulated in OS cells but then up-regulated after the treatment by Apatinib. Silencing LINC00261 abrogated the suppressive effect of Apatinib on OS cell proliferation and migration. MicroRNA-620 (miR-620) could be sponged by LINC00261. Besides, miR-620 was up-regulated in OS cells and Apatinib treatment reduced miR-620 expression. Furthermore, LINC00261 acted as a competitive endogenous RNA (ceRNA) by sequestering miR-620 to up-regulate the expression of phosphatase and tensin homolog (PTEN). Moreover, Apatinib hindered <i>in vitro</i> cell proliferation and migration as well as the <i>in vivo</i> tumorigenesis of OS through LINC00261/miR-620/PTEN axis. Apatinib-enhanced LINC00261 restrained OS via miR-620/PTEN axis, indicating LINC00261 might promote the efficacy of Apatinib on OS.
DOI: 10.6084/m9.figshare.16413373
title: Identification of fibronectin 1 (FN1) and complement component 3 (C3) as immune infiltration-related biomarkers for diabetic nephropathy using integrated bioinformatic analysis

description: Immune cell infiltration (ICI) plays a pivotal role in the development of diabetic nephropathy (DN). Evidence suggests that immune-related genes play an important role in the initiation of inflammation and the recruitment of immune cells. However, the underlying mechanisms and immune-related biomarkers in DN have not been elucidated. Therefore, this study aimed to explore immune-related biomarkers in DN and the underlying mechanisms using bioinformatic approaches. In this study, four DN glomerular datasets were downloaded, merged, and divided into training and test cohorts. First, we identified 55 differentially expressed immune-related genes; their biological functions were mainly enriched in leukocyte chemotaxis and neutrophil migration. The CIBERSORT algorithm was then used to evaluate the infiltrated immune cells; macrophages M1/M2, T cells CD8, and resting mast cells were strongly associated with DN. The ICI-related gene modules as well as 25 candidate hub genes were identified to construct a protein-protein interactive network and conduct molecular complex detection using the GOSemSim algorithm. Consequently, FN1, C3, and VEGFC were identified as immune-related biomarkers in DN, and a related transcription factor–miRNA–target network was constructed. Receiver operating characteristic curve analysis was estimated in the test cohort; FN1 and C3 had large area under the curve values (0.837 and 0.824, respectively). Clinical validation showed that FN1 and C3 were negatively related to the glomerular filtration rate in patients with DN. Six potential therapeutic small molecule compounds, such as calyculin, phenamil, and clofazimine, were discovered in the connectivity map. In conclusion, FN1 and C3 are immune-related biomarkers of DN.
DOI: 10.6084/m9.figshare.16413246.v1
title: Apatinib inhibits cell proliferation and migration of osteosarcoma via activating LINC00261/miR-620/PTEN axis

description: Apatinib has been recently identified as a potential treatment option for osteosarcoma (OS). Nonetheless, the molecular mechanism of Apatinib in regulating OS progression remains unclear. To explore the downstream molecules that mediated the tumor-suppressive effect of Apatinib on OS. Expression levels of genes were detected by RT-qPCR and western blot assays. Functional assays including Transwell assay were applied to detect the proliferation, apoptosis and migration of OS cells. Molecular interactions were detected by luciferase reporter assay and RIP assay. Apatinib inhibited the proliferation and migration of OS cells. LINC00261 was down-regulated in OS cells but then up-regulated after the treatment by Apatinib. Silencing LINC00261 abrogated the suppressive effect of Apatinib on OS cell proliferation and migration. MicroRNA-620 (miR-620) could be sponged by LINC00261. Besides, miR-620 was up-regulated in OS cells and Apatinib treatment reduced miR-620 expression. Furthermore, LINC00261 acted as a competitive endogenous RNA (ceRNA) by sequestering miR-620 to up-regulate the expression of phosphatase and tensin homolog (PTEN). Moreover, Apatinib hindered <i>in vitro</i> cell proliferation and migration as well as the <i>in vivo</i> tumorigenesis of OS through LINC00261/miR-620/PTEN axis. Apatinib-enhanced LINC00261 restrained OS via miR-620/PTEN axis, indicating LINC00261 might promote the efficacy of Apatinib on OS.
DOI: 10.6084/m9.figshare.16413373.v1
title: Identification of fibronectin 1 (FN1) and complement component 3 (C3) as immune infiltration-related biomarkers for diabetic nephropathy using integrated bioinformatic analysis

description: Immune cell infiltration (ICI) plays a pivotal role in the development of diabetic nephropathy (DN). Evidence suggests that immune-related genes play an important role in the initiation of inflammation and the recruitment of immune cells. However, the underlying mechanisms and immune-related biomarkers in DN have not been elucidated. Therefore, this study aimed to explore immune-related biomarkers in DN and the underlying mechanisms using bioinformatic approaches. In this study, four DN glomerular datasets were downloaded, merged, and divided into training and test cohorts. First, we identified 55 differentially expressed immune-related genes; their biological functions were mainly enriched in leukocyte chemotaxis and neutrophil migration. The CIBERSORT algorithm was then used to evaluate the infiltrated immune cells; macrophages M1/M2, T cells CD8, and resting mast cells were strongly associated with DN. The ICI-related gene modules as well as 25 candidate hub genes were identified to construct a protein-protein interactive network and conduct molecular complex detection using the GOSemSim algorithm. Consequently, FN1, C3, and VEGFC were identified as immune-related biomarkers in DN, and a related transcription factor–miRNA–target network was constructed. Receiver operating characteristic curve analysis was estimated in the test cohort; FN1 and C3 had large area under the curve values (0.837 and 0.824, respectively). Clinical validation showed that FN1 and C3 were negatively related to the glomerular filtration rate in patients with DN. Six potential therapeutic small molecule compounds, such as calyculin, phenamil, and clofazimine, were discovered in the connectivity map. In conclusion, FN1 and C3 are immune-related biomarkers of DN.
DOI: 10.6084/m9.figshare.12219113.v1
title: Additional file 1 of Pretreatment elevated prognostic nutritional index predicts a favorable prognosis in patients with prostate cancer

description: Additional file 1.
DOI: 10.6084/m9.figshare.12219038
title: Additional file 1 of Establishment and characterization of stable red, far-red (fR) and near infra-red (NIR) transfected canine prostate cancer cell lines

description: Additional file 1. Genes located in the chromosomal area chr16:18500001-59500001.
DOI: 10.6084/m9.figshare.11694783.v1
title: Data File 3.csv

description: The complex refractive index of PC in 0.4-2 micro.
DOI: 10.6084/m9.figshare.11694789
title: Data File 7.csv

description: The complex refractive index of PEI in 0.4-2 micro.
DOI: 10.6084/m9.figshare.11694789.v1
title: Data File 7.csv

description: The complex refractive index of PEI in 0.4-2 micro.
DOI: 10.6084/m9.figshare.11694795.v1
title: Data File 2.csv

description: The complex refractive indices of two PMMA obtained by two methods.
DOI: 10.6084/m9.figshare.11694786.v1
title: Data File 4.csv

description: The complex refractive index of PS in 0.4-2 micro.
DOI: 10.6084/m9.figshare.12218837
title: Additional file 1 of Primary care service use by end-of-life cancer patients: a nationwide population-based cohort study in the United Kingdom

description: Additional file 1.
DOI: 10.6084/m9.figshare.12218837.v1
title: Additional file 1 of Primary care service use by end-of-life cancer patients: a nationwide population-based cohort study in the United Kingdom

description: Additional file 1.
DOI: 10.6084/m9.figshare.11694780
title: Data File 1.csv

description: The complex refractive indices of PDMS with different ratios x of composition in 0.4-2 micro.
DOI: 10.6084/m9.figshare.11694792
title: Data File 6.csv

description: The complex refractive index of PVC in 0.4-2 micro.
DOI: 10.6084/m9.figshare.11694780.v1
title: Data File 1.csv

description: The complex refractive indices of PDMS with different ratios x of composition in 0.4-2 micro.
DOI: 10.6084/m9.figshare.11694798.v1
title: Data File 5.csv

description: The complex refractive index of PET in 0.4-2 micro.
DOI: 10.6084/m9.figshare.12219113
title: Additional file 1 of Pretreatment elevated prognostic nutritional index predicts a favorable prognosis in patients with prostate cancer

description: Additional file 1.
DOI: 10.6084/m9.figshare.11694783
title: Data File 3.csv

description: The complex refractive index of PC in 0.4-2 micro.
DOI: 10.6084/m9.figshare.16943816
title: Interleukin-8 concentrations in obstructive sleep apnea syndrome: a systematic review and meta-analysis

description: Interleukin (IL)-8 has been shown to play an important role in obstructive sleep apnea syndrome (OSAS). However, its role in OSAS development is still controversial. This meta-analysis was to explore the correlation between interleukin (IL)-8 concentration and OSAS. Database (from the inception to July 2021) searches on PubMed, Web of Science, Medline, EMBASE, and Cochrane Library were conducted for studies analyzing the correlation between IL-8 concentration and OSAS, regardless of the language of publication. Standardized mean difference (SMD) and 95% confidence intervals (CI) were used to analyze any prospective association between IL-8 concentration and OSAS. A total of 25 eligible studies, including 2301 participants and 1123 controls, were included in this meta-analysis. The included studies evaluating the association between serum IL-8 concentration and OSAS indicated that adults and children with OSAS had elevated serum concentrations of IL-8 compared with controls (SMD = 0.997, 95% CI = 0.437–1.517, P &lt; 0.001; SMD = 0.431, 95% CI = 0.104–0.759, P = 0.01). Categorization of the study population into subgroups according to body mass index, apnea–hypopnea index (AHI), ethnicity, and sample size also showed that individuals with OSAS had elevated serum concentrations of IL-8 compared with controls. Additionally, the results demonstrated that the higher the AHI, higher was the IL-8 concentration. Similar results were observed in the literature on the association between plasma IL-8 concentration and OSAS. This meta-analysis verified that compared with controls, children and adults with OSAS have significantly elevated IL-8 concentrations.
DOI: 10.6084/m9.figshare.11694798
title: Data File 5.csv

description: The complex refractive index of PET in 0.4-2 micro.
DOI: 10.6084/m9.figshare.16944051
title: A flow-rate-controlled double-nozzles approach for electrochemical additive manufacturing

description: The electrochemical additive manufacturing technique based on the meniscus-confined approach has been proved to be a powerful tool for fabricating nanoscale and microscale metal components. The stability of the meniscus is the key in this meniscus-confined approach to achieve high resolution and reliable product quality. In the present study, a double-nozzles design, which consists of a feed nozzle and a suction nozzle, is proposed for the meniscus confined electrochemical additive manufacturing technique. It was demonstrated that the proposed design possessed robust control of the stability of the meniscus by manipulating the feed and suction rates of the two nozzles in a quite large range. Various sizes of menisci can be easily obtained by utilising nozzles with different sizes. Compared with the pressure-controlled single-nozzle approach, the results showed that dense structures without dendrites can be fabricated by the double-nozzles design with larger current density due to the feed-and-suction process at the tip of the nozzles. The proposed flow-rate-controlled double-nozzles design was finally employed to fabricate some copper circuits and a Cu/CuNi thin film thermocouple to demonstrate its potential in fabricating electronic devices.
DOI: 10.6084/m9.figshare.8031170
title: Optimal Simulation of the Land-Use Structure Based on the Local Ecological Environment: the Case of Huanghua City in Hebei Province, China

description: ABSTRACT The overuse of land has resulted in a sharp decline in ecological functions, affecting the environment as it relates to the existence and sustainable development of the whole biosphere. This work aims to evaluate the ecological and economic efficiencies of the land-use structure. A simulation model, CLUE-S (Conversion of Land-Use and its Effects at Small Region Extent), and an integrated model based on the MOP (Multi-Objective Program) and CLUE-S were applied to assess the suitability of unutilized lands in Huanghua City, China. This was to simulate the optimal structure of land-use in the research zone to avoid loss of the land ecological service functions and the decreasing values with rapid changes in the land-use structure. By the year 2020, the simulation of the single model shows that the economic efficiency is expected to increase, but the ecological efficiency will decline. Depending on the evaluation of the suitability of unutilized land and the optimization results of the integrated MOP- and CLUE-S-based models, the ecological and economic efficiencies are expected to increase by 1.17 and 2.23 %, respectively, compared with those in 2012. In addition, the sum of the two land functions will increase for the integrated MOP- and CLUE-S-based model by the year 2020 compared with the single model. Consequently, the ecological efficiency will significantly increase. However, the optimization solution based on the integrated MOP and CLUE-S model is better than the one based on the CLUE-S model.
DOI: 10.6084/m9.figshare.11694792.v1
title: Data File 6.csv

description: The complex refractive index of PVC in 0.4-2 micro.
DOI: 10.6084/m9.figshare.11694795
title: Data File 2.csv

description: The complex refractive indices of two PMMA obtained by two methods.
DOI: 10.6084/m9.figshare.14316333
title: Supplementary Information - figures & tables from A TOR (target of rapamycin) and nutritional phosphoproteome of fission yeast reveals novel targets in networks conserved in humans

description: Supplementary Figure 1–2 and Supplementary Table 1–4.
DOI: 10.6084/m9.figshare.8031347.v1
title: Hydrogen sulfide protects H9c2 cardiomyoblasts against H2O2-induced apoptosis

description: Reactive oxygen species (ROS) are highly reactive chemical species that may cause irreversible tissue damage, and play a critical role in cardiovascular diseases. Hydrogen sulfide (H2S) is a gasotransmitter that acts as a ROS scavenger with cardio-protective effects. In this study, we investigated the cytoprotective effect of H2S against H2O2-induced apoptosis in cardiomyocytes. H9c2 rat cardiomyoblasts were treated with H2S (100 μM) 24 h before challenging with H2O2 (100 μM). Apoptosis was then assessed by annexin V and PI, and mitochondrial membrane potential was measured using a fluorescent probe, JC-1. Our results revealed that H2S improved cell viability, reduced the apoptotic rate, and preserved mitochondrial membrane potential. An increased Bcl-2 to Bax ratio was also seen in myocytes treated with H2S after H2O2-induced stress. Our findings indicated a therapeutic potential for H2S in preventing myocyte death following ischemia/reperfusion.
DOI: 10.6084/m9.figshare.14316644
title: Data from Investigation of the evolution and control of fractures in surrounding rock under different pressure relief and support measures in mine roadways prone to rockburst events

description: The data of Fig. 7, FIG. 9 and FIG. 10 are included
DOI: 10.6084/m9.figshare.11694786
title: Data File 4.csv

description: The complex refractive index of PS in 0.4-2 micro.
DOI: 10.6084/m9.figshare.8025353
title: A systematic review of the approaches to multi-level learning in the general practice context, using a realist synthesis approach: BEME Guide No. 55

description: <b>Background:</b> Recent global increases in medical student numbers and shifts in medical education from teaching hospitals to community settings call for effective strategies to meet the demand for general practice teaching placements. It has been proposed that “multi-level learning” (MLL), in which learning and teaching are shared across different levels of learners, may provide teaching efficiencies and valuable experiences for learners and teachers. <b>Aims:</b> To identify, evaluate and synthesize the evidence related to the types, benefits, challenges, and facilitators of MLL in community-based general practice, and the underlying mechanisms and associated contexts to explain the reported outcomes. <b>Method:</b> A realist synthesis approach guided the systematic review. <b>Results</b>: Fifteen papers were identified, providing primary evaluation data predominantly from interviews with or surveys of key stakeholders. Generally, all levels of learners reported overall satisfaction with their MLL experiences. Medical students appreciated learning from prevocational doctors and registrars due to social and cognitive congruence. Mechanisms and contexts that supported our hypotheses regarding successful MLL outcomes were identified, with “a strong teaching culture” being a major mechanism. <b>Conclusions:</b> The findings can help inform practices considering the implementation or enhancement of MLL initiatives in general practice. Further research should include measuring defined learning outcomes.
DOI: 10.6084/m9.figshare.14316834
title: Citronellal-induced disruption of membrane homeostasis in Candida albicans and attenuation of its virulence attributes

description: Abstract: INTRODUCTION There is an increasing burden of multidrug resistance. As a result, deciphering the mechanisms of action of natural compounds with antifungal activity has gained considerable prominence. We aimed to elucidate the probable mechanism of action of citronellal, a monoterpenoid found in the essential oil extracted from Cymbopogon plants, against Candida albicans. METHODS Drug susceptibility was measured by broth microdilution and spot assays. Ergosterol levels were estimated using the alcoholic potassium hydroxide method and H+ extrusion was assessed by monitoring the glucose-induced acidification of the external medium. Virulence traits were studied by hyphal morphogenesis and biofilm formation, along with fungal cell adherence to polystyrene surface and human oral epithelial cells. RESULTS Citronellal showed anticandidal activity against C. albicans and non-albicans species of Candida at a minimum inhibitory concentration of 1 mg/ml. Citronellal interfered with membrane homeostasis, which is the major target of known antifungal drugs, by increasing the hypersensitivity of the fungi to membrane-perturbing agents, reducing ergosterol levels, and diminishing glucose-induced H+ extrusion. In addition, oxidative and genotoxic stresses were induced via an increased production of reactive oxygen species. Furthermore, citronellal inhibited the virulent attributes of yeast-to-hypha transition and biofilm formation. It also reduced cell adherence to polystyrene surface and the human oral epithelial cells. CONCLUSIONS This is the first study to propose the cell membrane, morphogenetic switching, biofilm formation, and cell adherence of Candida albicans as potential targets for the anticandidal activity of citronellal. However, clinical investigations on the therapeutic applications of citronellal are required.
DOI: 10.6084/m9.figshare.22187216
title: WTAP regulates autophagy in colon cancer cells by inhibiting FLNA through N6-methyladenosine

description: Our study investigated the role of WTAP in colon cancer. We employed experiments including m6A dot blot hybridization, methylated RNA immunoprecipitation, dual-luciferase, and RNA immunoprecipitation to investigate the regulatory mechanism of WTAP. Western blot was performed to analyze the expression of WTAP, FLNA and autophagy-related proteins in cells. Our results confirmed the up-regulation of WTAP in colon cancer and its promoting effect on proliferation and inhibiting effect on apoptosis. FLNA was the downstream gene of WTAP and WTAP-regulated m6A modification led to post-transcriptional repression of FLNA. The rescue experiments showed that WTAP/FLNA could inhibit autophagy. WTAP-mediated m6A modification was confirmed to be crucial in colon cancer development, providing new insights into colon cancer therapy.
DOI: 10.6084/m9.figshare.22187216.v1
title: WTAP regulates autophagy in colon cancer cells by inhibiting FLNA through N6-methyladenosine

description: Our study investigated the role of WTAP in colon cancer. We employed experiments including m6A dot blot hybridization, methylated RNA immunoprecipitation, dual-luciferase, and RNA immunoprecipitation to investigate the regulatory mechanism of WTAP. Western blot was performed to analyze the expression of WTAP, FLNA and autophagy-related proteins in cells. Our results confirmed the up-regulation of WTAP in colon cancer and its promoting effect on proliferation and inhibiting effect on apoptosis. FLNA was the downstream gene of WTAP and WTAP-regulated m6A modification led to post-transcriptional repression of FLNA. The rescue experiments showed that WTAP/FLNA could inhibit autophagy. WTAP-mediated m6A modification was confirmed to be crucial in colon cancer development, providing new insights into colon cancer therapy.
DOI: 10.6084/m9.figshare.14316333.v1
title: Supplementary Information - figures & tables from A TOR (target of rapamycin) and nutritional phosphoproteome of fission yeast reveals novel targets in networks conserved in humans

description: Supplementary Figure 1–2 and Supplementary Table 1–4.
DOI: 10.6084/m9.figshare.12744163
title: Additional file 2 of Mapping quantitative trait loci for disease resistance to false smut of rice

description: Additional file 2 Table S2. Quantitative trait loci for heading date identified in the RIL-F7 population
DOI: 10.6084/m9.figshare.12744163.v1
title: Additional file 2 of Mapping quantitative trait loci for disease resistance to false smut of rice

description: Additional file 2 Table S2. Quantitative trait loci for heading date identified in the RIL-F7 population
DOI: 10.6084/m9.figshare.12744160
title: Additional file 1 of Mapping quantitative trait loci for disease resistance to false smut of rice

description: Additional file 1 Table S1. Evaluation criteria for resistance to false smut of rice
DOI: 10.6084/m9.figshare.12744151
title: Additional file 2 of GMM-Demux: sample demultiplexing, multiplet detection, experiment planning, and novel cell-type verification in single cell sequencing

description: Additional file 2 Supplementary tables