cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9942782.v1
title: UvVis SoilColumn and Oct Plotter from Stabilizing gold nanoparticles for use in X-ray computed tomography imaging of soil systems

description: This investigation establishes a system of gold nanoparticles that show good colloidal stability as an X-ray computed tomography (XCT) contrast agent under soil conditions. Gold nanoparticles offer numerous beneficial traits for experiments in biology including: comparatively minimal phytotoxicity, X-ray attenuation of the material and the capacity for functionalization. However, soil salinity, acidity and surface charges can induce aggregation and destabilize gold nanoparticles, hence in biomedical applications polymer coatings are commonly applied to gold nanoparticles to enhance stability in the <i>in vivo</i> environment. Here we first demonstrate non-coated nanoparticles aggregate in soil-water solutions. We then show coating with a polyethylene glycol (PEG) layer prevents this aggregation. To demonstrate this, PEG-coated nanoparticles were drawn through flow columns containing soil and were shown to be stable; this is in contrast with control experiments using silica and alumina-packed columns. We further determined that a suspension of coated gold nanoparticles which fully saturated soil maintained stability over at least 5 days. Finally, we used time resolved XCT imaging and image based models to approximate nanoparticle diffusion as similar to that of other typical plant nutrients diffusing in water. Together, these results establish the PEGylated gold nanoparticles as potential contrast agents for XCT imaging in soil.
DOI: 10.6084/m9.figshare.9942764
title: Buffer power for callum from Stabilizing gold nanoparticles for use in X-ray computed tomography imaging of soil systems

description: This investigation establishes a system of gold nanoparticles that show good colloidal stability as an X-ray computed tomography (XCT) contrast agent under soil conditions. Gold nanoparticles offer numerous beneficial traits for experiments in biology including: comparatively minimal phytotoxicity, X-ray attenuation of the material and the capacity for functionalization. However, soil salinity, acidity and surface charges can induce aggregation and destabilize gold nanoparticles, hence in biomedical applications polymer coatings are commonly applied to gold nanoparticles to enhance stability in the <i>in vivo</i> environment. Here we first demonstrate non-coated nanoparticles aggregate in soil-water solutions. We then show coating with a polyethylene glycol (PEG) layer prevents this aggregation. To demonstrate this, PEG-coated nanoparticles were drawn through flow columns containing soil and were shown to be stable; this is in contrast with control experiments using silica and alumina-packed columns. We further determined that a suspension of coated gold nanoparticles which fully saturated soil maintained stability over at least 5 days. Finally, we used time resolved XCT imaging and image based models to approximate nanoparticle diffusion as similar to that of other typical plant nutrients diffusing in water. Together, these results establish the PEGylated gold nanoparticles as potential contrast agents for XCT imaging in soil.
DOI: 10.6084/m9.figshare.9942767
title: Mean Slice Values Flow Columns Jan 19 from Stabilizing gold nanoparticles for use in X-ray computed tomography imaging of soil systems

description: This investigation establishes a system of gold nanoparticles that show good colloidal stability as an X-ray computed tomography (XCT) contrast agent under soil conditions. Gold nanoparticles offer numerous beneficial traits for experiments in biology including: comparatively minimal phytotoxicity, X-ray attenuation of the material and the capacity for functionalization. However, soil salinity, acidity and surface charges can induce aggregation and destabilize gold nanoparticles, hence in biomedical applications polymer coatings are commonly applied to gold nanoparticles to enhance stability in the <i>in vivo</i> environment. Here we first demonstrate non-coated nanoparticles aggregate in soil-water solutions. We then show coating with a polyethylene glycol (PEG) layer prevents this aggregation. To demonstrate this, PEG-coated nanoparticles were drawn through flow columns containing soil and were shown to be stable; this is in contrast with control experiments using silica and alumina-packed columns. We further determined that a suspension of coated gold nanoparticles which fully saturated soil maintained stability over at least 5 days. Finally, we used time resolved XCT imaging and image based models to approximate nanoparticle diffusion as similar to that of other typical plant nutrients diffusing in water. Together, these results establish the PEGylated gold nanoparticles as potential contrast agents for XCT imaging in soil.
DOI: 10.6084/m9.figshare.9942764.v1
title: Buffer power for callum from Stabilizing gold nanoparticles for use in X-ray computed tomography imaging of soil systems

description: This investigation establishes a system of gold nanoparticles that show good colloidal stability as an X-ray computed tomography (XCT) contrast agent under soil conditions. Gold nanoparticles offer numerous beneficial traits for experiments in biology including: comparatively minimal phytotoxicity, X-ray attenuation of the material and the capacity for functionalization. However, soil salinity, acidity and surface charges can induce aggregation and destabilize gold nanoparticles, hence in biomedical applications polymer coatings are commonly applied to gold nanoparticles to enhance stability in the <i>in vivo</i> environment. Here we first demonstrate non-coated nanoparticles aggregate in soil-water solutions. We then show coating with a polyethylene glycol (PEG) layer prevents this aggregation. To demonstrate this, PEG-coated nanoparticles were drawn through flow columns containing soil and were shown to be stable; this is in contrast with control experiments using silica and alumina-packed columns. We further determined that a suspension of coated gold nanoparticles which fully saturated soil maintained stability over at least 5 days. Finally, we used time resolved XCT imaging and image based models to approximate nanoparticle diffusion as similar to that of other typical plant nutrients diffusing in water. Together, these results establish the PEGylated gold nanoparticles as potential contrast agents for XCT imaging in soil.
DOI: 10.6084/m9.figshare.9942767.v1
title: Mean Slice Values Flow Columns Jan 19 from Stabilizing gold nanoparticles for use in X-ray computed tomography imaging of soil systems

description: This investigation establishes a system of gold nanoparticles that show good colloidal stability as an X-ray computed tomography (XCT) contrast agent under soil conditions. Gold nanoparticles offer numerous beneficial traits for experiments in biology including: comparatively minimal phytotoxicity, X-ray attenuation of the material and the capacity for functionalization. However, soil salinity, acidity and surface charges can induce aggregation and destabilize gold nanoparticles, hence in biomedical applications polymer coatings are commonly applied to gold nanoparticles to enhance stability in the <i>in vivo</i> environment. Here we first demonstrate non-coated nanoparticles aggregate in soil-water solutions. We then show coating with a polyethylene glycol (PEG) layer prevents this aggregation. To demonstrate this, PEG-coated nanoparticles were drawn through flow columns containing soil and were shown to be stable; this is in contrast with control experiments using silica and alumina-packed columns. We further determined that a suspension of coated gold nanoparticles which fully saturated soil maintained stability over at least 5 days. Finally, we used time resolved XCT imaging and image based models to approximate nanoparticle diffusion as similar to that of other typical plant nutrients diffusing in water. Together, these results establish the PEGylated gold nanoparticles as potential contrast agents for XCT imaging in soil.
DOI: 10.6084/m9.figshare.9942770
title: UvVis SoilColumn and Oct Data from Stabilizing gold nanoparticles for use in X-ray computed tomography imaging of soil systems

description: This investigation establishes a system of gold nanoparticles that show good colloidal stability as an X-ray computed tomography (XCT) contrast agent under soil conditions. Gold nanoparticles offer numerous beneficial traits for experiments in biology including: comparatively minimal phytotoxicity, X-ray attenuation of the material and the capacity for functionalization. However, soil salinity, acidity and surface charges can induce aggregation and destabilize gold nanoparticles, hence in biomedical applications polymer coatings are commonly applied to gold nanoparticles to enhance stability in the <i>in vivo</i> environment. Here we first demonstrate non-coated nanoparticles aggregate in soil-water solutions. We then show coating with a polyethylene glycol (PEG) layer prevents this aggregation. To demonstrate this, PEG-coated nanoparticles were drawn through flow columns containing soil and were shown to be stable; this is in contrast with control experiments using silica and alumina-packed columns. We further determined that a suspension of coated gold nanoparticles which fully saturated soil maintained stability over at least 5 days. Finally, we used time resolved XCT imaging and image based models to approximate nanoparticle diffusion as similar to that of other typical plant nutrients diffusing in water. Together, these results establish the PEGylated gold nanoparticles as potential contrast agents for XCT imaging in soil.
DOI: 10.6084/m9.figshare.9942746
title: 2019_10_04_genes_oocyte_good_quality_annotated.txt.bz2

description: Ensembl annotation of the genes associated with good developmental potential.
DOI: 10.6084/m9.figshare.9942749
title: 2019_10_04_genes_oocyte_poor_quality_annotated.txt.bz2

description: Ensembl annotation of the genes associated with poor developmental potential.
DOI: 10.6084/m9.figshare.9942749.v1
title: 2019_10_04_genes_oocyte_poor_quality_annotated.txt.bz2

description: Ensembl annotation of the genes associated with poor developmental potential.
DOI: 10.6084/m9.figshare.9942752
title: GO_MF_Cats_poor_quality_oocyte_2019_10_04.txt.bz2

description: Gene ontology (molecular function) enrichment analysis of genes associated with poor oocyte competence.
DOI: 10.6084/m9.figshare.9942770.v1
title: UvVis SoilColumn and Oct Data from Stabilizing gold nanoparticles for use in X-ray computed tomography imaging of soil systems

description: This investigation establishes a system of gold nanoparticles that show good colloidal stability as an X-ray computed tomography (XCT) contrast agent under soil conditions. Gold nanoparticles offer numerous beneficial traits for experiments in biology including: comparatively minimal phytotoxicity, X-ray attenuation of the material and the capacity for functionalization. However, soil salinity, acidity and surface charges can induce aggregation and destabilize gold nanoparticles, hence in biomedical applications polymer coatings are commonly applied to gold nanoparticles to enhance stability in the <i>in vivo</i> environment. Here we first demonstrate non-coated nanoparticles aggregate in soil-water solutions. We then show coating with a polyethylene glycol (PEG) layer prevents this aggregation. To demonstrate this, PEG-coated nanoparticles were drawn through flow columns containing soil and were shown to be stable; this is in contrast with control experiments using silica and alumina-packed columns. We further determined that a suspension of coated gold nanoparticles which fully saturated soil maintained stability over at least 5 days. Finally, we used time resolved XCT imaging and image based models to approximate nanoparticle diffusion as similar to that of other typical plant nutrients diffusing in water. Together, these results establish the PEGylated gold nanoparticles as potential contrast agents for XCT imaging in soil.
DOI: 10.6084/m9.figshare.9942752.v1
title: GO_MF_Cats_poor_quality_oocyte_2019_10_04.txt.bz2

description: Gene ontology (molecular function) enrichment analysis of genes associated with poor oocyte competence.
DOI: 10.6084/m9.figshare.9942746.v1
title: 2019_10_04_genes_oocyte_good_quality_annotated.txt.bz2

description: Ensembl annotation of the genes associated with good developmental potential.
DOI: 10.6084/m9.figshare.12867038.v1
title: Ricciardi et al 2020 Ceres Main Results

description: This dataset was created for the Ceres2030 Team 6, who conducted a semi-automatic systematic review of over 18,000 articles. The goal was to identify solutions for small farms to adapt to climate change - we focused on water scarce environments. This analysis is under review at the academic journal Nature Sustainability. A link to the article will be provided once published. The manuscript's current citation is:<br>Ricciardi, V., Wane, A., Singh Sidhu, B., Goode, C., Solomon, D., McCullough, E., Diekmann, F., Porciello, J., Jain, M., Randall, N., Mehrabi, Z.Evidence synthesis: Funding research for small-scale farmers in water scarce regions to achieve SDG 2.3. In Review. Nature Sustainability.<br>We use manually coded abstracts to build a natural language processing (NLP) model to include or exclude abstracts to our study. A deep learning model was developed using Bidirectional Encoder Representations from Transformers (BERT) and a cross entropy function to classify abstracts. This model performed better than other classifiers (e.g., optimized support vector machine (SVM) and naive bayes) across accuracy, precision, and recall metrics. This dataset is the predicted results.<br>This dataset is an input file for use in:https://github.com/vinnyricciardi/Ricciardi_etal_2020_ceres/blob/master/full_text_analysis.R<br><br>The data filename referred to in the code is: Validation Survey_February 17, 2020_12.13.csv<br>
DOI: 10.6084/m9.figshare.9942608
title: oocyte_gene_quality_2019_10_04.Rdata

description: R file containing the objects used to obtain the information and produce the charts displayed on the review.
DOI: 10.6084/m9.figshare.9942602
title: 2019_10_01_count_oocyte_cpm_protein_coding.txt.bz2

description: Counts per million calculated for protein coding genes from RNA-sequencing produced from cattle oocytes.
DOI: 10.6084/m9.figshare.9942605
title: GO_BP_Cats_good_quality_oocyte_2019_10_04.txt.bz2

description: Gene ontology (biological process) enrichment analysis of genes associated with good oocyte competence.
DOI: 10.6084/m9.figshare.9942608.v1
title: oocyte_gene_quality_2019_10_04.Rdata

description: R file containing the objects used to obtain the information and produce the charts displayed on the review.
DOI: 10.6084/m9.figshare.9942596
title: 2019_09_29_oocyte_count.txt.bz2

description: Raw read counts obtained from RNA-sequencing produced from cattle oocytes.
DOI: 10.6084/m9.figshare.9942605.v1
title: GO_BP_Cats_good_quality_oocyte_2019_10_04.txt.bz2

description: Gene ontology (biological process) enrichment analysis of genes associated with good oocyte competence.
DOI: 10.6084/m9.figshare.9942593
title: GO_BP_Cats_poor_quality_oocyte_2019_10_04.txt.bz2

description: Gene ontology (biological process) enrichment analysis of genes associated with poor oocyte competence.
DOI: 10.6084/m9.figshare.9942599
title: GO_MF_Cats_good_quality_oocyte_2019_10_04.txt.bz2

description: Gene ontology (molecular function) enrichment analysis of genes associated with good oocyte competence.
DOI: 10.6084/m9.figshare.9942602.v1
title: 2019_10_01_count_oocyte_cpm_protein_coding.txt.bz2

description: Counts per million calculated for protein coding genes from RNA-sequencing produced from cattle oocytes.
DOI: 10.6084/m9.figshare.9942551
title: Tabla 8. Youtubers de la ciencia

description: Tabla 7.
DOI: 10.6084/m9.figshare.9942596.v1
title: 2019_09_29_oocyte_count.txt.bz2

description: Raw read counts obtained from RNA-sequencing produced from cattle oocytes.
DOI: 10.6084/m9.figshare.9942548
title: Tabla 7. Youtubers de la ciencia

description: Tabla 7.
DOI: 10.6084/m9.figshare.9942554
title: Tabla 9. Youtubers de la ciencia

description: Tabla 9.
DOI: 10.6084/m9.figshare.9942593.v1
title: GO_BP_Cats_poor_quality_oocyte_2019_10_04.txt.bz2

description: Gene ontology (biological process) enrichment analysis of genes associated with poor oocyte competence.
DOI: 10.6084/m9.figshare.9942599.v1
title: GO_MF_Cats_good_quality_oocyte_2019_10_04.txt.bz2

description: Gene ontology (molecular function) enrichment analysis of genes associated with good oocyte competence.
DOI: 10.6084/m9.figshare.9942551.v1
title: Tabla 8. Youtubers de la ciencia

description: Tabla 7.
DOI: 10.6084/m9.figshare.9942554.v1
title: Tabla 9. Youtubers de la ciencia

description: Tabla 9.
DOI: 10.6084/m9.figshare.9942536
title: Tabla 3. Youtubers de la ciencia

description: Tabla 3.
DOI: 10.6084/m9.figshare.9942542
title: Tabla 5. Youtubers de la ciencia

description: Tabla 5.
DOI: 10.6084/m9.figshare.9942545
title: Tabla 6. Youtubers de la ciencia

description: Tabla 6.
DOI: 10.6084/m9.figshare.9942548.v1
title: Tabla 7. Youtubers de la ciencia

description: Tabla 7.
DOI: 10.6084/m9.figshare.9942539
title: Tabla 4. Youtubers de la ciencia

description: Tabla 4.
DOI: 10.6084/m9.figshare.9942542.v1
title: Tabla 5. Youtubers de la ciencia

description: Tabla 5.
DOI: 10.6084/m9.figshare.9942533
title: Data tables

description: Data from the study "Consequences of rapid development due to cohort splitting: just how costly is to hurry?", by Zoltán Rádai, Johanna Kiss, Agnieszka Babczyńska, Gábor Kardos, Ferenc Báthori, Ferenc Samu, and Zoltán Barta<br>
DOI: 10.6084/m9.figshare.9942536.v1
title: Tabla 3. Youtubers de la ciencia

description: Tabla 3.
DOI: 10.6084/m9.figshare.9942545.v1
title: Tabla 6. Youtubers de la ciencia

description: Tabla 6.
DOI: 10.6084/m9.figshare.9942530
title: Tabla 2. Youtubers de la ciencia

description: Tabla 2.
DOI: 10.6084/m9.figshare.9942539.v1
title: Tabla 4. Youtubers de la ciencia

description: Tabla 4.
DOI: 10.6084/m9.figshare.12867038.v2
title: Ricciardi et al 2020 Ceres Main Results

description: This dataset was created for the Ceres2030 Team 6, who conducted a semi-automatic systematic review of over 18,000 articles. The goal was to identify solutions for small farms to adapt to climate change - we focused on water scarce environments. This analysis is under review at the academic journal Nature Sustainability. A link to the article will be provided once published. The manuscript's current citation is:<br>Ricciardi, V., Wane, A., Singh Sidhu, B., Goode, C., Solomon, D., McCullough, E., Diekmann, F., Porciello, J., Jain, M., Randall, N., Mehrabi, Z.Evidence synthesis: Funding research for small-scale farmers in water scarce regions to achieve SDG 2.3. In Review. Nature Sustainability.<br>We use manually coded abstracts to build a natural language processing (NLP) model to include or exclude abstracts to our study. A deep learning model was developed using Bidirectional Encoder Representations from Transformers (BERT) and a cross entropy function to classify abstracts. This model performed better than other classifiers (e.g., optimized support vector machine (SVM) and naive bayes) across accuracy, precision, and recall metrics. This dataset is the predicted results.<br>This dataset is an input file for use in:https://github.com/vinnyricciardi/Ricciardi_etal_2020_ceres/blob/master/full_text_analysis.R<br><br>The data filename referred to in the code is: Validation Survey_February 17, 2020_12.13.csv<br>
DOI: 10.6084/m9.figshare.9942524
title: Es calcs_Masika 2018 Data

description: Data collected for Es estimation in the Masika season of 2018
DOI: 10.6084/m9.figshare.9942530.v1
title: Tabla 2. Youtubers de la ciencia

description: Tabla 2.
DOI: 10.6084/m9.figshare.9942533.v1
title: Untitled Item

description: Data from the study "Consequences of rapid development due to cohort splitting: just how costly is to hurry?", by Zoltán Rádai, Johanna Kiss, Agnieszka Babczyńska, Gábor Kardos, Ferenc Báthori, Ferenc Samu, and Zoltán Barta<br>
DOI: 10.6084/m9.figshare.9942524.v1
title: Es calcs_Masika 2018 Data

description: Data collected for Es estimation in the Masika season of 2018
DOI: 10.6084/m9.figshare.9942446
title: Data figure calculations from New regimes of dispersion in microfluidics as mediated by travelling temperature waves

description: We unveil new regimes of dispersion in miniaturized fluidic devices, by considering fluid flow triggered by a travelling temperature wave. When a temperature wave travels along a channel wall, it alters the density and viscosity of the adjacent fluid periodically. Successive expansion–contraction of the fluid volume through a spatio-temporally evolving viscosity field generates a net fluidic current. Based on the temporal evolution of the axial dispersion coefficient, new regimes of dispersion—such as a short-time ‘oscillating regime’ and a large-time ‘stable regime’—have been identified, which are absent in traditionally addressed flows through miniaturized fluidic devices. Our analysis reveals that the oscillation of axial dispersion persists until the variance of species concentration becomes equal to half of the square of the wavelength of the thermal wave. The time period of oscillation in the dispersion coefficient turns out to be a unique function of the thermal wavelength and net flow velocity induced by thermoviscous pumping. The results of this study are likely to contribute towards the improvement of microscale systems that are subjected to periodic temperature variations, including microreactors and DNA amplification devices.
DOI: 10.6084/m9.figshare.9942446.v1
title: Data figure calculations from New regimes of dispersion in microfluidics as mediated by travelling temperature waves

description: We unveil new regimes of dispersion in miniaturized fluidic devices, by considering fluid flow triggered by a travelling temperature wave. When a temperature wave travels along a channel wall, it alters the density and viscosity of the adjacent fluid periodically. Successive expansion–contraction of the fluid volume through a spatio-temporally evolving viscosity field generates a net fluidic current. Based on the temporal evolution of the axial dispersion coefficient, new regimes of dispersion—such as a short-time ‘oscillating regime’ and a large-time ‘stable regime’—have been identified, which are absent in traditionally addressed flows through miniaturized fluidic devices. Our analysis reveals that the oscillation of axial dispersion persists until the variance of species concentration becomes equal to half of the square of the wavelength of the thermal wave. The time period of oscillation in the dispersion coefficient turns out to be a unique function of the thermal wavelength and net flow velocity induced by thermoviscous pumping. The results of this study are likely to contribute towards the improvement of microscale systems that are subjected to periodic temperature variations, including microreactors and DNA amplification devices.
DOI: 10.6084/m9.figshare.9942338
title: Bashar H. Malkawi, Derivatives Law and Practice in Selected Middle Eastern Countries

description: The purpose of the data set, part of project by Boston University Law School, is to examine derivatives law and practice in some Middle Eastern countries including the UAE.
DOI: 10.6084/m9.figshare.9942344
title: reference_test_iris_subtract_bg_flat_cal.fits

description: Expected output from the image pipeline
DOI: 10.6084/m9.figshare.9942347
title: HMMs for Naive Bayesian Classifier from viralVerify

description: Database of virus/chromosome-specific HMMs for https://github.com/ablab/viralVerify