cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7435565.v1
title: Cover crops and compost prevent weed seed bank build-up in herbicide-free wheat-potato rotations under conservation tillage

description: 1. Weeds are a major constraint affecting crop yields in organic farming and weed seed bank analysis can be an important tool for predicting weed infestation and assessing farming system sustainability.<br>2. We compared the weed seed banks two and four years after transition from conventional to reduced tillage in organically managed winter wheat-potato cropping sequences in two replicated field trials. Experimental factors were either conventional (CT) with moldboard (25 cm) or reduced tillage (RT) with chisel ploughing (5-15 cm). Dead mulch (8-10 cm), consisting of rye-pea or triticale-vetch mixtures, were additionally applied to potatoes in the RT system. In both systems, one half of the plots received 5 t (ha year)<sup>-1</sup> dry matter of a commercially sold yard waste compost as an organic amendment. Furthermore, subsidiary crops were grown in both systems, either as legume living mulches undersown in wheat or as cover crops sown after wheat. Prior to sowing the wheat and after potatoes, the soil seed bank from 0-12.5 20 and from 12.5-25 cm was sampled and assessed in an unheated glasshouse over nine months. <br>3. The initial weed seed bank size in the topsoil was uniform (4,420 seedlings m<sup>-2</sup>). Two years later, wheat associated weeds, such as <i>Galium aparine, Lamium</i> spp., and <i>Myosotis arvensis</i>, were 61% higher on average in RT than in CT. This was independent of subsidiary crops used. In contrast, <i>Chenopodium album</i>, a potato associated weed that depends on intensive tillage, was reduced by 15% in the mulched RT system compared to CT. When RT was combined with cover crops and compost application, the seed bank did not differ significantly from the CT system. <br>4. We conclude that subsidiary crops, mulches, and potentially compost are important management tools that contribute to the success of RT in herbicide-free cereal based systems in temperate climates.
DOI: 10.6084/m9.figshare.7435580.v2
title: Преимущества и актуальность клинического применения тройной комбинации ингибитора апф периндоприла с розувастатином и индапамидом

description: Цель. Изучить эффективность и безопасность двойных комбинаций (ингибитор ангиотензинпревращающего фермента (ИАПФ) + индапамид) и тройных комбинаций (ИАПФ + статин + индапамид) у пациентов с артериальной гипертонией (АГ) и дислипидемией (ДЛ). Материал и методы. Работа основана на анализе данных, полученных при обследовании и лечении 75 больных в возрасте от 40 до 65 лет с АГ I-II степени высокого риска и ДЛ (холестерин более 4,5 ммоль/л и/или липопротеиды низкой плотности более 2,5 ммоль/л). Результаты. В ходе исследования показаны дополнительные возможности статинов при добавлении к двухкомпонентной гипотензивной терапии ИАПФ + индапамид у пациентов высокого сердечно-сосудистого риска (ССР), отмечается усиление гипотензивного и вазопротективного эффектов. Представлены преимущества, дополнительный вазопротективный эффект, улучшение эндотелиальной функции и актуальность клинического применения тройной комбинации ИАПФ периндоприла с розувастатином и индапамидом у больных с ДЛ и АГ высокого ССР. Заключение. Полученные нами данные свидетельствуют о том, что комбинация ИАПФ + статин + индапамид способна наиболее эффективно уменьшать повреждающее влияние воспаления на сосудистый эндотелий. При аналогичном по силе гипотензивном воздействии на фоне комбинированного лечения наблюдается суммация ангиопротективных эффектов каждого из препаратов. Синергизм ангиопротективного действия сочетанной терапии дает основание рекомендовать трехкомпонентную комбинацию ИАПФ + статин + индапамид для широкого использования у больных АГ I-II степени и ДЛ высокого ССР в качестве комбинации выбора препаратов, обладающих патогенетическими механизмами коррекции как артериального давления, так и метаболических нарушений, обеспечивающих органопротекторный эффект терапии. Особый интерес могла бы представлять фиксированная трехкомпонентная комбинация периндоприл + розувастатин + индапамид.<br> <br>
DOI: 10.6084/m9.figshare.7435556
title: Supplementary Material for: Progression of Hearing Loss in the Aging Population: Repeated Auditory Measurements in the Rotterdam Study

description: We quantified changes in the auditory acuity of 675 aging adults (mean age 71.1 years, 52.0% female, mean follow-up 4.4 years ± 0.2) of an ongoing cohort study with a pure-tone audiogram and a speech-in-noise test. Generalized estimating equation models were used to study the association between hearing loss and the progression with age, sex, education, cognition, BMI, blood pressure, having type 2 diabetes mellitus, cholesterol ratio, smoking and alcohol consumption. The mean progression of hearing loss was 0.29 and 1.35 dB/year (low and high frequencies). Progression of hearing loss was associated with baseline hearing thresholds. Besides, the presence of type 2 diabetes, smoking, age, sex and time were associated with worse hearing at baseline, but there was no statistical evidence that the tested determinants were associated with progression of hearing loss. This finding indicates that the 4-year progression of hearing loss in older adults in this study is not influenced by the measured determinants. More research with multiple follow-up rounds is desired.
DOI: 10.7284/136018
title: Multibeam Echosounder data collected during research cruise NA087 using a Kongsberg EM302 instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/136019
title: Multibeam Echosounder data collected during research cruise NA087 using a Kongsberg EM302 instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135295
title: Singlebeam Echosounder data collected during research cruise NA087 using a Knudsen 3260 instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7435532
title: Phantom DICOMs

description: DICOM images of CEORA and SATI phantom for calcium volume scores acquired using clinical calcium score and partial volume corrected scores used in manuscript "Coronary calcium scoring with partial volume correction in anthropomorphic thorax phantom and screening chest CT images" submitted at PLOS ONE.
DOI: 10.7284/135293
title: SSV (Sound Speed Velocimeter) data collected during research cruise NA087 using a AML SV Xchange instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135217
title: Expendable Probe data collected during research cruise NA088 using a Sippican MK21 instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135215
title: INS (Inertial Navigation System) data collected during research cruise NA088 using a Kongsberg Seatex MRU-5 instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135218
title: INS (Inertial Navigation System) data collected during research cruise NA088 using a Kongsberg Seapath 330+ instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7435469
title: Data-Driven Analysis of Age, Sex, and Tissue Effects on Gene Expression Variability in Alzheimer’s Disease

description: Data accompanying "Data-Driven Analysis of Age, Sex, and Tissue Effects on Gene Expression Variability in Alzheimer’s Disease" manuscript by L.R.K. Brooks and G. Mias.
DOI: 10.7284/135219
title: Meteorological Station data collected during research cruise NA088 using a Coastal Weatherpak-2000 instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.17633/rd.brunel.7435457
title: Ultrasonic liquid metal processing: The essential role of cavitation bubbles in controlling acoustic streaming dataset

description: This collection contains data from the article:G.S.B. Lebon, I. Tzanakis, K. Pericleous, D. Eskin, and P.S. Grant. Ultrasonic liquid metal processing: The essential role of cavitation bubbles in controlling acoustic streaming. Ultrasonics Sonochemistry.
DOI: 10.6084/m9.figshare.7435469.v1
title: Data-Driven Analysis of Age, Sex, and Tissue Effects on Gene Expression Variability in Alzheimer’s Disease

description: Data accompanying "Data-Driven Analysis of Age, Sex, and Tissue Effects on Gene Expression Variability in Alzheimer’s Disease" manuscript by L.R.K. Brooks and G. Mias.
DOI: 10.7284/136020
title: Multibeam Echosounder data collected during research cruise NA088 using a Kongsberg EM302 instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7435469.v3
title: Data-Driven Analysis of Age, Sex, and Tissue Effects on Gene Expression Variability in Alzheimer’s Disease

description: Data accompanying "Data-Driven Analysis of Age, Sex, and Tissue Effects on Gene Expression Variability in Alzheimer’s Disease" manuscript by L.R.K. Brooks and G. Mias.
DOI: 10.17633/rd.brunel.7435457.v1
title: Ultrasonic liquid metal processing: The essential role of cavitation bubbles in controlling acoustic streaming dataset

description: This collection contains data from the article:G.S.B. Lebon, I. Tzanakis, K. Pericleous, D. Eskin, and P.S. Grant. Ultrasonic liquid metal processing: The essential role of cavitation bubbles in controlling acoustic streaming. Ultrasonics Sonochemistry.
DOI: 10.7284/136021
title: Multibeam Echosounder data collected during research cruise NA088 using a Kongsberg EM302 instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7435469.v2
title: Data-Driven Analysis of Age, Sex, and Tissue Effects on Gene Expression Variability in Alzheimer’s Disease

description: Data accompanying "Data-Driven Analysis of Age, Sex, and Tissue Effects on Gene Expression Variability in Alzheimer’s Disease" manuscript by L.R.K. Brooks and G. Mias.
DOI: 10.7284/135216
title: Singlebeam Echosounder data collected during research cruise NA088 using a Knudsen 3260 instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135214
title: SSV (Sound Speed Velocimeter) data collected during research cruise NA088 using a AML SV Xchange instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135290
title: Expendable Probe data collected during research cruise NA089 using a Sippican MK21 instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135288
title: INS (Inertial Navigation System) data collected during research cruise NA089 using a Kongsberg Seatex MRU-5 instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7435361
title: Supplementary Material for: MicroRNA-128 Protects Dopamine Neurons from Apoptosis and Upregulates the Expression of Excitatory Amino Acid Transporter 4 in Parkinson’s Disease by Binding to AXIN1

description: <b><i>Background/Aims:</i></b> Parkinson’s disease (PD) is a frequently occurring condition that resulted from the loss of midbrain neurons, which synthesize the neurotransmitter dopamine. In this study, we established mouse models of PD to investigate the expression of microRNA-128 (miR-128) and mechanism through which it affects apoptosis of dopamine (DA) neurons and the expression of excitatory amino acid transporter 4 (EAAT4) via binding to axis inhibition protein 1 (AXIN1). <b><i>Methods:</i></b> Gene expression microarray analysis was performed to screen differentially expressed miRNAs that are associated with PD. The targeting relationship between miR-128 and AXIN1 was verified via a bioinformatics prediction and dual-luciferase reporter gene assay. After separation, DA neurons were subjected to a series of inhibitors, activators and shRNAs to validate the mechanisms of miR-128 in controlling of AXIN1 in PD. Positive protein expression of AXIN1 and EAAT4 in DA neurons was determined using immunocytochemistry. miR-128 expression and the mRNA and protein levels of AXIN1 and EAAT4 were evaluated via RT-qPCR and Western blot analysis, respectively. DA neuron apoptosis was evaluated using TUNEL staining. <b><i>Results:</i></b> We identified AXIN1 as an upregulated gene in PD based on the microarray data of GSE7621. AXIN1 was targeted and negatively mediated by miR-128. In the DA neurons, upregulated miR-128 expression or sh-AXIN1 increased the positive expression rate of EAAT4 together with mRNA and protein levels, but decreased the mRNA and protein levels of AXIN1, apoptosis rate along with the positive expression rate of AXIN1; however, the opposite trend was found in response to transfection with miR-128 inhibitors. <b><i>Conclusion:</i></b> Evidence from experimental models revealed that miR-128 might reduce apoptosis of DA neurons while increasing the expression of EAAT4 which might be related to the downregulation of AXIN1. Thus, miR-128 may serve as a potential target for the treatment of PD.
DOI: 10.6084/m9.figshare.7435358
title: Supplementary Material for: lncRNA SNHG8 Promotes the Tumorigenesis and Metastasis by Sponging miR-149-5p and Predicts Tumor Recurrence in Hepatocellular Carcinoma

description: <b><i>Background/Aims:</i></b> Long noncoding RNAs (lncRNAs) are aberrantly expressed in multiple malignant tumors involved in tumor growth and metastasis. Accumulating data show that small nucleolar RNA host gene (SNHG) 1/12/20 plays a key role in the progression of hepatocellular carcinoma (HCC). However, the molecular mechanisms by which SNHG8 contributes to HCC remain elusive and merit exploration. <b><i>Methods:</i></b> The association between SNHG8 expression and the clinicopathological characteristics and prognoses in HCC patients was analysed by using qRT-PCR analysis and the data from The Cancer Genome Atlas. Cell growth and metastatic potential were determined by MTT, colony formation, Transwell assays, and the mouse xenograft tumor model and lung metastasis model. Epithelial–mesenchymal transition markers were detected by western blot analysis. The binding capacity of SNHG8 with miRNAs was evidenced by bioinformatic analysis and a luciferase reporter assay. In addition, the rescue experiments were performed based on co-transfection with sh-SNHG8 and a miR-149 inhibitor in HCC cells. <b><i>Results:</i></b> The expression levels of lncRNA SNHG8 were dramatically increased in HCC tissues and cell lines as compared with the adjacent normal tissues, and SNHG8 expression was an independent prognostic factor of tumor recurrence in HCC patients. Furthermore, knockdown of SNHG8 inhibited cell proliferation, invasion, and lung metastasis <i>in vitro</i> and <i>in vivo</i>, whereas overexpression of SNHG8 reversed these effects. SNHG8 acted as a sponge of miR-149 and counteracted the tumor suppressive effects of mi R-149 in HCC cells. Expression of phosphatase, Mg2+/Mn2+ dependent 1F, a target of R-149, displayed a negative correlation with miR-149 expression but a positive correlation with SNHG8 expression in HCC specimens. <b><i>Conclusion:</i></b> As lncRNA SNHG8 may promote HCC tumorigenesis and metastasis by sponging miR-149, it is a potential candidate marker and therapeutic target for HCC.
DOI: 10.6084/m9.figshare.7435361.v1
title: Supplementary Material for: MicroRNA-128 Protects Dopamine Neurons from Apoptosis and Upregulates the Expression of Excitatory Amino Acid Transporter 4 in Parkinson’s Disease by Binding to AXIN1

description: <b><i>Background/Aims:</i></b> Parkinson’s disease (PD) is a frequently occurring condition that resulted from the loss of midbrain neurons, which synthesize the neurotransmitter dopamine. In this study, we established mouse models of PD to investigate the expression of microRNA-128 (miR-128) and mechanism through which it affects apoptosis of dopamine (DA) neurons and the expression of excitatory amino acid transporter 4 (EAAT4) via binding to axis inhibition protein 1 (AXIN1). <b><i>Methods:</i></b> Gene expression microarray analysis was performed to screen differentially expressed miRNAs that are associated with PD. The targeting relationship between miR-128 and AXIN1 was verified via a bioinformatics prediction and dual-luciferase reporter gene assay. After separation, DA neurons were subjected to a series of inhibitors, activators and shRNAs to validate the mechanisms of miR-128 in controlling of AXIN1 in PD. Positive protein expression of AXIN1 and EAAT4 in DA neurons was determined using immunocytochemistry. miR-128 expression and the mRNA and protein levels of AXIN1 and EAAT4 were evaluated via RT-qPCR and Western blot analysis, respectively. DA neuron apoptosis was evaluated using TUNEL staining. <b><i>Results:</i></b> We identified AXIN1 as an upregulated gene in PD based on the microarray data of GSE7621. AXIN1 was targeted and negatively mediated by miR-128. In the DA neurons, upregulated miR-128 expression or sh-AXIN1 increased the positive expression rate of EAAT4 together with mRNA and protein levels, but decreased the mRNA and protein levels of AXIN1, apoptosis rate along with the positive expression rate of AXIN1; however, the opposite trend was found in response to transfection with miR-128 inhibitors. <b><i>Conclusion:</i></b> Evidence from experimental models revealed that miR-128 might reduce apoptosis of DA neurons while increasing the expression of EAAT4 which might be related to the downregulation of AXIN1. Thus, miR-128 may serve as a potential target for the treatment of PD.
DOI: 10.7284/135291
title: INS (Inertial Navigation System) data collected during research cruise NA089 using a Kongsberg Seapath 330+ instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7435358.v1
title: Supplementary Material for: lncRNA SNHG8 Promotes the Tumorigenesis and Metastasis by Sponging miR-149-5p and Predicts Tumor Recurrence in Hepatocellular Carcinoma

description: <b><i>Background/Aims:</i></b> Long noncoding RNAs (lncRNAs) are aberrantly expressed in multiple malignant tumors involved in tumor growth and metastasis. Accumulating data show that small nucleolar RNA host gene (SNHG) 1/12/20 plays a key role in the progression of hepatocellular carcinoma (HCC). However, the molecular mechanisms by which SNHG8 contributes to HCC remain elusive and merit exploration. <b><i>Methods:</i></b> The association between SNHG8 expression and the clinicopathological characteristics and prognoses in HCC patients was analysed by using qRT-PCR analysis and the data from The Cancer Genome Atlas. Cell growth and metastatic potential were determined by MTT, colony formation, Transwell assays, and the mouse xenograft tumor model and lung metastasis model. Epithelial–mesenchymal transition markers were detected by western blot analysis. The binding capacity of SNHG8 with miRNAs was evidenced by bioinformatic analysis and a luciferase reporter assay. In addition, the rescue experiments were performed based on co-transfection with sh-SNHG8 and a miR-149 inhibitor in HCC cells. <b><i>Results:</i></b> The expression levels of lncRNA SNHG8 were dramatically increased in HCC tissues and cell lines as compared with the adjacent normal tissues, and SNHG8 expression was an independent prognostic factor of tumor recurrence in HCC patients. Furthermore, knockdown of SNHG8 inhibited cell proliferation, invasion, and lung metastasis <i>in vitro</i> and <i>in vivo</i>, whereas overexpression of SNHG8 reversed these effects. SNHG8 acted as a sponge of miR-149 and counteracted the tumor suppressive effects of mi R-149 in HCC cells. Expression of phosphatase, Mg2+/Mn2+ dependent 1F, a target of R-149, displayed a negative correlation with miR-149 expression but a positive correlation with SNHG8 expression in HCC specimens. <b><i>Conclusion:</i></b> As lncRNA SNHG8 may promote HCC tumorigenesis and metastasis by sponging miR-149, it is a potential candidate marker and therapeutic target for HCC.
DOI: 10.6084/m9.figshare.7435325
title: Supplementary Material for: RNA-Seq Analyses of the Role of miR-21 in Acute Pancreatitis

description: <b><i>Background/Aims:</i></b> Our previous study demonstrated that a deficiency of microRNA 21 (miR-21) protects mice from acute pancreatitis, yet the underlying molecular networks associated with miR-21 in pancreatitis and pancreatitis-associated lung injury remain unexplored. <b><i>Methods:</i></b> We used next generation sequencing to analyze gene expression profiles of pancreatic tissues from wild-type (WT) and miR-21 knockout (KO) mice treated with caerulein by using a 1-day treatment protocol. The Database for Annotation, Visualization, and Integrated Discovery gene annotation tool and Ingenuity Pathway Analysis were used to analyze the molecular pathways, while quantitative real-time PCR, western blotting, and immunohistochemistry were used to explore the molecular mechanisms. <b><i>Results:</i></b> We identified 152 differentially expressed genes (DEGs) in pancreata between WT and KO mice treated with caerulein. Cellular biogenesis and metabolism were the major pathways affected between WT and KO mice, whereas cell death and inflammatory response discriminated between WT and KO mice under acute pancreatitis. We validated 16 DEGs, consisting of 6 upregulated genes and 10 downregulated genes, involved in pancreatic injury. In particular, the upregulation of Pias3 and downregulation of Hmgb1 in KO pancreata coincided with a reduced severity of pancreatitis. In addition, we found Hmgb1 stimulation resulted in the overexpression of miR-21 in peripheral blood mononuclear cells, and deletion of miR-21 led to a reduction of caerulein-induced acute pancreatitis-associated lung injury by repressing Hmgb1 expression. <b><i>Conclusion</i></b><b><i>:</i></b> Our data support the hypothesis that miR-21 modulates the inflammatory response during acute pancreatitis through the upregulation of Pias3 and downregulation of Hmgb1. Our findings further underscore a role for miR-21 in the promotion of acute pancreatitis.