cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5897581
title: NDVI and Statistical Data for Generating Homogeneous Land Use Recommendations

description: Satellite imagery was collected over a sub-Saharan region of East Africa that includes five countries in their entirety (Kenya, Uganda, Tanzania, Burundi and Rwanda) and portions of seven countries (Somalia, Ethiopia, South Sudan, Democratic Republic of Congo, Malawi, Mozambique and Zimbabwe). The Normalized Difference Vegetation Index (NDVI) was augmented with p value and slope through regression analysis. This roughly ‘rectangular’ region extends from 27.8°E to 42.0°E longitude and 15.0°S to 6.2°N latitude. Also included in the region are several East African Great Lakes such as Lake Victoria, Lake Malawi and Lake Tanganyika. Vegetative analysis in this region is of interest for a variety of reasons, including the importance of the region for global biodiversity and the vulnerability of the region to climate change, deforestation of the Congo, urban development, civil conflict, and agricultural practices.
DOI: 10.6084/m9.figshare.5897581.v1
title: NDVI and Statistical Data for Generating Homogeneous Land Use Recommendations

description: Satellite imagery was collected over a sub-Saharan region of East Africa that includes five countries in their entirety (Kenya, Uganda, Tanzania, Burundi and Rwanda) and portions of seven countries (Somalia, Ethiopia, South Sudan, Democratic Republic of Congo, Malawi, Mozambique and Zimbabwe). The Normalized Difference Vegetation Index (NDVI) was augmented with p value and slope through regression analysis. This roughly ‘rectangular’ region extends from 27.8°E to 42.0°E longitude and 15.0°S to 6.2°N latitude. Also included in the region are several East African Great Lakes such as Lake Victoria, Lake Malawi and Lake Tanganyika. Vegetative analysis in this region is of interest for a variety of reasons, including the importance of the region for global biodiversity and the vulnerability of the region to climate change, deforestation of the Congo, urban development, civil conflict, and agricultural practices.
DOI: 10.6084/m9.figshare.5897566
title: Lag-bias reconstruction data sets

description: These data were used to produce a manuscript about lag-bias reconstruction of raster scanned retinal images. The method uses strip registration statistics in order to estimate motion artifacts in the reference image.<br><br>This file contains three separate data sets:<br><br>1. aoslo_simulated contains simulated retinal images (frames.hdf5) and the registration data and corrected images (reg_000.hdf5, where '000' indicates that frame 0 was used to register the remaining frames.<br><br>2. aoslo_real contains real retinal images (frames.hdf5) as well as four corrected images, referenced to frames 0, 40, 65, and 80. Reference frame 65 contains the worst motion artifacts (and thus best illustrates the motion correction algorithm).<br><br>3. aooct contains two averaged volumes, one uncorrected and one corrected.<br>
DOI: 10.6084/m9.figshare.5897551
title: Two Phase Flow Matlab Code

description: The MATLAB code was programmed for simulating two-phase flow (CO2 - brine) in rough fractures.
DOI: 10.6084/m9.figshare.5897299.v1
title: ROSES for Systematic Map Reports. Version 1.0

description: ROSES is a collaborative initiative with the aim of improving the standards of reporting in evidence syntheses in the field of environment. At the core of ROSES is a set of detailed state-of-the art forms for ensuring evidence syntheses report their methods to the highest possible standards. Here you can find information about how to use ROSES forms for review protocols and final reports, along with detailed guidance on how to use the forms and how they were developed and published.<br>ROSES forms will help review authors to ensure that all relevant methodological information is reported in their review, and will help editors and peer-reviewers to critique the reliability and validity of a review.<br>
DOI: 10.6084/m9.figshare.5897299.v2
title: ROSES for Systematic Map Reports. Version 1.0

description: ROSES is a collaborative initiative with the aim of improving the standards of reporting in evidence syntheses in the field of environment. At the core of ROSES is a set of detailed state-of-the art forms for ensuring evidence syntheses report their methods to the highest possible standards. Here you can find information about how to use ROSES forms for review protocols and final reports, along with detailed guidance on how to use the forms and how they were developed and published.<br>ROSES forms will help review authors to ensure that all relevant methodological information is reported in their review, and will help editors and peer-reviewers to critique the reliability and validity of a review.<br>
DOI: 10.6084/m9.figshare.5897284.v1
title: ROSES for Systematic Map Protocols. Version 1.0

description: ROSES is a collaborative initiative with the aim of improving the standards of reporting in evidence syntheses in the field of environment. At the core of ROSES is a set of detailed state-of-the art forms for ensuring evidence syntheses report their methods to the highest possible standards. Here you can find information about how to use ROSES forms for review protocols and final reports, along with detailed guidance on how to use the forms and how they were developed and published.<br><br>ROSES forms will help review authors to ensure that all relevant methodological information is reported in their review, and will help editors and peer-reviewers to critique the reliability and validity of a review.<br>
DOI: 10.6084/m9.figshare.5897284.v2
title: ROSES for Systematic Map Protocols. Version 1.0

description: ROSES is a collaborative initiative with the aim of improving the standards of reporting in evidence syntheses in the field of environment. At the core of ROSES is a set of detailed state-of-the art forms for ensuring evidence syntheses report their methods to the highest possible standards. Here you can find information about how to use ROSES forms for review protocols and final reports, along with detailed guidance on how to use the forms and how they were developed and published.<br><br>ROSES forms will help review authors to ensure that all relevant methodological information is reported in their review, and will help editors and peer-reviewers to critique the reliability and validity of a review.<br>
DOI: 10.6084/m9.figshare.5897284.v3
title: ROSES for Systematic Map Protocols. Version 1.0

description: ROSES is a collaborative initiative with the aim of improving the standards of reporting in evidence syntheses in the field of environment. At the core of ROSES is a set of detailed state-of-the art forms for ensuring evidence syntheses report their methods to the highest possible standards. Here you can find information about how to use ROSES forms for review protocols and final reports, along with detailed guidance on how to use the forms and how they were developed and published.<br><br>ROSES forms will help review authors to ensure that all relevant methodological information is reported in their review, and will help editors and peer-reviewers to critique the reliability and validity of a review.<br>
DOI: 10.6084/m9.figshare.5897272.v1
title: ROSES for Systematic Review Reports

description: ROSES is a collaborative initiative with the aim of improving the standards of reporting in evidence syntheses in the field of environment. At the core of ROSES is a set of detailed state-of-the art forms for ensuring evidence syntheses report their methods to the highest possible standards. Here you can find information about how to use ROSES forms for review protocols and final reports, along with detailed guidance on how to use the forms and how they were developed and published.<br>ROSES forms will help review authors to ensure that all relevant methodological information is reported in their review, and will help editors and peer-reviewers to critique the reliability and validity of a review.<br>
DOI: 10.6084/m9.figshare.5897272.v2
title: ROSES for Systematic Review Reports. Version 1.0

description: ROSES is a collaborative initiative with the aim of improving the standards of reporting in evidence syntheses in the field of environment. At the core of ROSES is a set of detailed state-of-the art forms for ensuring evidence syntheses report their methods to the highest possible standards. Here you can find information about how to use ROSES forms for review protocols and final reports, along with detailed guidance on how to use the forms and how they were developed and published.<br>ROSES forms will help review authors to ensure that all relevant methodological information is reported in their review, and will help editors and peer-reviewers to critique the reliability and validity of a review.<br>
DOI: 10.6084/m9.figshare.5897272.v3
title: ROSES for Systematic Review Reports. Version 1.0

description: ROSES is a collaborative initiative with the aim of improving the standards of reporting in evidence syntheses in the field of environment. At the core of ROSES is a set of detailed state-of-the art forms for ensuring evidence syntheses report their methods to the highest possible standards. Here you can find information about how to use ROSES forms for review protocols and final reports, along with detailed guidance on how to use the forms and how they were developed and published.<br>ROSES forms will help review authors to ensure that all relevant methodological information is reported in their review, and will help editors and peer-reviewers to critique the reliability and validity of a review.<br>
DOI: 10.6084/m9.figshare.5897269.v2
title: ROSES for Systematic Review Protocols. Version 1.0

description: ROSES is a collaborative initiative with the aim of improving the standards of reporting in evidence syntheses in the field of environment. At the core of ROSES is a set of detailed state-of-the art forms for ensuring evidence syntheses report their methods to the highest possible standards. Here you can find information about how to use ROSES forms for review protocols and final reports, along with detailed guidance on how to use the forms and how they were developed and published.<br>ROSES forms will help review authors to ensure that all relevant methodological information is reported in their review, and will help editors and peer-reviewers to critique the reliability and validity of a review.<br>
DOI: 10.6084/m9.figshare.5897269.v3
title: ROSES for Systematic Review Protocols. Version 1.0

description: ROSES is a collaborative initiative with the aim of improving the standards of reporting in evidence syntheses in the field of environment. At the core of ROSES is a set of detailed state-of-the art forms for ensuring evidence syntheses report their methods to the highest possible standards. Here you can find information about how to use ROSES forms for review protocols and final reports, along with detailed guidance on how to use the forms and how they were developed and published.<br>ROSES forms will help review authors to ensure that all relevant methodological information is reported in their review, and will help editors and peer-reviewers to critique the reliability and validity of a review.<br>
DOI: 10.6084/m9.figshare.5897191
title: recount.all.data.plier.newversion.RData

description: Updated PLIER model based on all human samples from recount2 database (https://jhubiostatistics.shinyapps.io/recount/). Gene expression is normalized by rpkm (Reads Per Kilobase Million).
DOI: 10.6084/m9.figshare.5897191.v1
title: recount.all.data.plier.newversion.RData

description: Updated PLIER model based on all human samples from recount2 database (https://jhubiostatistics.shinyapps.io/recount/). Gene expression is normalized by rpkm (Reads Per Kilobase Million).
DOI: 10.6084/m9.figshare.5897137
title: Cord blood buffy coat DNA methylation is comparable to whole cord blood methylation

description: Cord blood DNA methylation is associated with numerous health outcomes and environmental exposures. Whole cord blood DNA reflects all nucleated blood cell types, while centrifuging whole blood separates red blood cells, generating a white blood cell buffy coat. Both sample types are used in DNA methylation studies. Cell types have unique methylation patterns and processing can impact cell distributions, which may influence comparability. We evaluated differences in cell composition and DNA methylation between cord blood buffy coat and whole cord blood samples. Cord blood DNA methylation was measured with the Infinium EPIC BeadChip (Illumina) in eight individuals, each contributing buffy coat and whole blood samples. We analyzed principal components (PC) of methylation, performed hierarchical clustering, and computed correlations of mean-centered methylation between pairs. We conducted moderated t-tests on single sites and estimated cell composition. DNA methylation PCs were associated with individual (<i>P</i><sub>PC1</sub> = 1.4 × 10<sup>−9</sup>; <i>P</i><sub>PC2</sub> = 2.9 × 10<sup>−5</sup>; <i>P</i><sub>PC3</sub> = 3.8 × 10<sup>-5</sup>; <i>P</i><sub>PC4</sub> = 4.2 × 10<sup>-6</sup>; <i>P</i><sub>PC5</sub> = 9.9 × 10<sup>-13</sup>, <i>P</i><sub>PC6</sub> = 1.3 × 10<sup>−11</sup>) and not with sample type (<i>P</i><sub>PC1-6</sub>&gt;0.7). Samples hierarchically clustered by individual. Pearson correlations of mean-centered methylation between paired samples ranged from r = 0.66 to r = 0.87. No individual site significantly differed between buffy coat and whole cord blood when adjusting for multiple comparisons (five sites had unadjusted <i>P</i>&lt;10<sup>−5</sup>). Estimated cell type proportions did not differ by sample type (<i>P</i> = 0.46), and estimated proportions were highly correlated between paired samples (r = 0.99). Differences in methylation and cell composition between buffy coat and whole cord blood are much lower than inter-individual variation, demonstrating that both sample preparation types can be analytically combined and compared.
DOI: 10.6084/m9.figshare.5897137.v1
title: Cord blood buffy coat DNA methylation is comparable to whole cord blood methylation

description: Cord blood DNA methylation is associated with numerous health outcomes and environmental exposures. Whole cord blood DNA reflects all nucleated blood cell types, while centrifuging whole blood separates red blood cells, generating a white blood cell buffy coat. Both sample types are used in DNA methylation studies. Cell types have unique methylation patterns and processing can impact cell distributions, which may influence comparability. We evaluated differences in cell composition and DNA methylation between cord blood buffy coat and whole cord blood samples. Cord blood DNA methylation was measured with the Infinium EPIC BeadChip (Illumina) in eight individuals, each contributing buffy coat and whole blood samples. We analyzed principal components (PC) of methylation, performed hierarchical clustering, and computed correlations of mean-centered methylation between pairs. We conducted moderated t-tests on single sites and estimated cell composition. DNA methylation PCs were associated with individual (<i>P</i><sub>PC1</sub> = 1.4 × 10<sup>−9</sup>; <i>P</i><sub>PC2</sub> = 2.9 × 10<sup>−5</sup>; <i>P</i><sub>PC3</sub> = 3.8 × 10<sup>-5</sup>; <i>P</i><sub>PC4</sub> = 4.2 × 10<sup>-6</sup>; <i>P</i><sub>PC5</sub> = 9.9 × 10<sup>-13</sup>, <i>P</i><sub>PC6</sub> = 1.3 × 10<sup>−11</sup>) and not with sample type (<i>P</i><sub>PC1-6</sub>&gt;0.7). Samples hierarchically clustered by individual. Pearson correlations of mean-centered methylation between paired samples ranged from r = 0.66 to r = 0.87. No individual site significantly differed between buffy coat and whole cord blood when adjusting for multiple comparisons (five sites had unadjusted <i>P</i>&lt;10<sup>−5</sup>). Estimated cell type proportions did not differ by sample type (<i>P</i> = 0.46), and estimated proportions were highly correlated between paired samples (r = 0.99). Differences in methylation and cell composition between buffy coat and whole cord blood are much lower than inter-individual variation, demonstrating that both sample preparation types can be analytically combined and compared.
DOI: 10.6084/m9.figshare.5897134
title: Dataset for: Ultrasound as a non-invasive tool for monitoring reproductive physiology in female Atlantic salmon (Salmo salar)

description: Aiming to explore ultrasound technology as a non-invasive method for maturation monitoring, we compared ultrasound observations and measurements in female Atlantic salmon (Salmo salar) during the last year before ovulation with standard, invasive methods such as gonadosomatic index (GSI), gonad histology and sex hormone analysis. Ultrasound measurements of ovaries correlated strongly (R &gt; 0.9, p &lt; 0.01) with ovary weight and GSI, and could be used as a non-invasive tool for GSI estimation. Using ultrasound, we were able to identify females with advanced oocyte development and elevated sex hormone and GSI levels earlier than previously observed. Histological studies confirmed these observations showing oocyte yolk accumulation 10 months before ovulation and eight months before significant increase in sex hormones. Levels of 11-keto testosterone (11-KT) indicated a new role of this hormone at final maturation in salmon females. We propose the use of ultrasound as an alternative method to traditionally used invasive methods during sexual maturation monitoring in wild and farmed Atlantic salmon broodstock populations. Eliminating sacrifice of valuable broodfish, and reducing handling stress, would improve animal welfare in present-day broodstock management.
DOI: 10.6084/m9.figshare.5897134.v1
title: Dataset for: Ultrasound as a non-invasive tool for monitoring reproductive physiology in female Atlantic salmon (Salmo salar)

description: Aiming to explore ultrasound technology as a non-invasive method for maturation monitoring, we compared ultrasound observations and measurements in female Atlantic salmon (Salmo salar) during the last year before ovulation with standard, invasive methods such as gonadosomatic index (GSI), gonad histology and sex hormone analysis. Ultrasound measurements of ovaries correlated strongly (R &gt; 0.9, p &lt; 0.01) with ovary weight and GSI, and could be used as a non-invasive tool for GSI estimation. Using ultrasound, we were able to identify females with advanced oocyte development and elevated sex hormone and GSI levels earlier than previously observed. Histological studies confirmed these observations showing oocyte yolk accumulation 10 months before ovulation and eight months before significant increase in sex hormones. Levels of 11-keto testosterone (11-KT) indicated a new role of this hormone at final maturation in salmon females. We propose the use of ultrasound as an alternative method to traditionally used invasive methods during sexual maturation monitoring in wild and farmed Atlantic salmon broodstock populations. Eliminating sacrifice of valuable broodfish, and reducing handling stress, would improve animal welfare in present-day broodstock management.
DOI: 10.6084/m9.figshare.5897119
title: Kano, Nigeria Building Detection

description: This building data for the state of Kano, Nigeria was created using a deep convolutional neural network trained from labeled buildings available via OpenStreetMap. The data has been made available in polygon format (ESRI Geodatabase), converted from the native output resolution of 0.5m, and accompanies the paper “Exploiting Deep Learning and Volunteered Geographic Information for Mapping Buildings in Kano, Nigeria.”
DOI: 10.6084/m9.figshare.5897119.v1
title: Kano, Nigeria Building Detection

description: This building data for the state of Kano, Nigeria was created using a deep convolutional neural network trained from labeled buildings available via OpenStreetMap. The data has been made available in polygon format (ESRI Geodatabase), converted from the native output resolution of 0.5m, and accompanies the paper “Exploiting Deep Learning and Volunteered Geographic Information for Mapping Buildings in Kano, Nigeria.”
DOI: 10.6084/m9.figshare.5897026
title: NMR files

description: NMR files for mixed ligand nanoparticles, shown in SI
DOI: 10.6084/m9.figshare.5897026.v1
title: NMR files

description: NMR files for mixed ligand nanoparticles, shown in SI
DOI: 10.6084/m9.figshare.5897023
title: TGA files

description: TGA files for nanoparticles, shown in SI
DOI: 10.6084/m9.figshare.5897023.v1
title: TGA files

description: TGA files for nanoparticles, shown in SI
DOI: 10.6084/m9.figshare.5897020
title: TEM Images

description: TEM images of the nanoparticles shown in SI
DOI: 10.6084/m9.figshare.5897014
title: SAXS files

description: SAXS files shown in the SI.
DOI: 10.6084/m9.figshare.5897014.v1
title: SAXS files

description: SAXS files shown in the SI.
DOI: 10.6084/m9.figshare.5896996
title: SANS data files

description: This dataset contains all the raw data file for the SANS experiments of the paper.
DOI: 10.6084/m9.figshare.5896945
title: Endemic and emerging acute virus infections in Indonesia: an overview of the past decade and implications for the future

description: Being the largest archipelago country in the world, with a tropical climate and a unique flora and fauna, Indonesia habitats one of the most diverse biome in the world. These characteristics make Indonesia a popular travel destination, with tourism numbers increasing yearly. These characteristics also facilitate the transmission of zoonosis and provide ideal living and breading circumstances for arthropods, known vectors for viral diseases. A review of the past 10 years of literature, reports of the Ministry of Health, Republic of Indonesia and ProMED-mail shows a significant increase in dengue infection incidence. Furthermore, chikungunya, Japanese encephalitis and rabies are proven to be endemic in Indonesia. The combination of cohort studies, governmental data and ProMED-mail reveals an integrated overview for those working in travel medicine and public health, focusing on both endemic and emerging acute virus infections. This review summarizes the epidemiology of acute virus infections in Indonesia, including outbreak reports, as well as public health response measurements and their potential or efficacy. Knowledge about human behaviour, animal reservoirs, climate factors, environment and their role in emerging virus infection are discussed. We aim to support public health authorities and health care policy makers in a One Health approach.
DOI: 10.6084/m9.figshare.5896924
title: Dataset from Relatedness decreases and reciprocity increases cooperation in Norway rats

description: Kin selection and reciprocity are two mechanisms underlying the evolution of cooperation, but the relative importance of kinship and reciprocity for decisions to cooperate are yet unclear for most cases of cooperation. Here we experimentally tested the relative importance of relatedness and received cooperation for decisions to help a conspecific in wild-type Norway rats (<i>Rattus norvegicus</i>). Test rats provided more food to non-kin than to siblings, and they generally donated more food to previously helpful social partners than to those that had refused help. The rats thus applied reciprocal cooperation rules irrespective of relatedness, highlighting the importance of reciprocal help for cooperative interactions among both related and unrelated conspecifics.