cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24421960.v2
title: Data and Analysis: Individual foraging site fidelity persists within and across stopover seasons in a migratory shorebird

description: This repository contains the data and code necessary to reproduce the analysis and figures in the manuscript "Individual foraging site fidelity persists within and across stopover seasons in a migratory shorebird" by Handmaker et al. (submitted, Proceedings of the Royal Society B).Authors (affiliation): Maina C. Handmaker (Department of Environmental Conservation, University of Massachusetts) Felicia J. Sanders (South Carolina Department of Natural Resources)Adam D. Smith (American Bird Conservancy) Ethan P. Shealy (Savannah River Ecology Laboratory, University of Georgia) Natasza Fontaine () Madelyn B. Kaplin (Baltimore, Maryland, USA) Janet M. Thibault (South Carolina Department of Natural Resources) Mary Catherine Martin (South Carolina Department of Natural Resources) Camille Duquet (South Carolina Department of Natural Resources) Abby V. Stering (Manomet, Inc.)Nathan R. Senner (Department of Environmental Conservation, University of Massachusetts) To run the analysis: Download this repository; all code and data is available in this repository If necessary, extract the zipped repository to the desired location on your local machine. Open the `whimbrel_site_fidelity.Rproj` file in [RStudio](https://posit.co/products/open-source/rstudio/) on a computer with internet access; RStudio requires [R](http://www.r-project.org) to be installed. This opens the RStudio project associated with the data, code, and analysis. All of the code necessary to process, analyze, and generate figures is located in the `Scripts` directory. Open and begin by running the code within `00_core_stopover_filter.R`. Proceed sequentially through other similarly-named files. If interested in just one component of the analysis, all necessary data are loaded at the top of each script, so that each script can be run without running all previous files. If interested only in the figures, these are provided as a convenience in the `Figures` directory (and each can be recreated by running the code within `11_make_figure.R`.)
DOI: 10.5281/zenodo.8170875
title: Reinforcement learning prioritizes general applicability in reaction optimization - optimization data logs

description: A zipped file of all optimization data logs for publication "Reinforcement learning prioritizes general applicability in reaction optimization". Included in the files are: acquisition logs for simulation testing with synthetic data, simulation testing with various chemistry datasets and a real time amide coupling optimization
DOI: 10.6084/m9.figshare.24420097.v1
title: UAV DOM image; 2022-03-28

description: UAV DOM image; 2022-03-28
DOI: 10.6084/m9.figshare.24420097
title: UAV DOM image; 2022-03-28

description: UAV DOM image; 2022-03-28
DOI: 10.5517/ccdc.csd.cc2byq78
title: CCDC 2173510: Experimental Crystal Structure Determination

description: Related Article: Qi Zhou, Guojian Ren, Yonghang Yang, Cong Wang, Guang Che, Meiling Li, Mei-Hui Yu, Jiyang Li, Qinhe Pan|2023|Inorg.Chem.|62|16652|doi:10.1021/acs.inorgchem.3c02958
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.10035619
title: vConTACT3 Database v220

description: Compressed database files used by vConTACT3 to classify virus sequences.
This database is version 220 and is derived from NCBI Virus RefSeq release 220, incorporating information from the Virus-Host DB (using GenBank release 257) 
This file is downloaded by vConTACT3 during database setup, and then users can select which domains to use during analysis. Alternatively, users can download these databases (provided through Zenodo.org) manually, expanded to any desired location, and the path to the resulting folder can be passed to vConTACT3.
Full details are provided through the vConTACT3 website and accompanying documentation.
DOI: 10.5281/zenodo.10035618
title: vConTACT3 Database v220

description: Compressed database files used by vConTACT3 to classify virus sequences.
This database is version 220 and is derived from NCBI Virus RefSeq release 220, incorporating information from the Virus-Host DB (using GenBank release 257) 
This file is downloaded by vConTACT3 during database setup, and then users can select which domains to use during analysis. Alternatively, users can download these databases (provided through Zenodo.org) manually, expanded to any desired location, and the path to the resulting folder can be passed to vConTACT3.
Full details are provided through the vConTACT3 website and accompanying documentation.
DOI: 10.25946/21539076
title: estimation of quantity and harvesttiming of the mango crop

description: A forward estimate of mango fruit harvest volume and scheduling is required for farm management, for organization in terms of labour planning and market sales. Harvest timing estimation in mango production is currently achieved using accumulated growing degree days (GDD) from from early stages of flower development, non-destructive estimates of fruit dry matter content by handheld near infra-red spectrometry, and destructive assessment of internal flesh colour. For fruit load estimation, current best practice involves manual counting of total fruit per tree. A range of technologies are becoming available that have relevance to assessment of mango crop harvest timing and fruit load forecast. Four activities were undertaken to assess relevant technologies: (i) A hardware system based on LoRa connected temperature sensors was characterised and recommended for field use based on measurement accuracy, battery life and reception range. An alternative algorithm on GDD calculation involving use of a function that penalises high temperatures as well as low temperatures was demonstrated to better predict harvest maturity in warmer climates. Required heat units (GDD, Tb = 12 °C, TB =32 °C) to achieve maturity were documented as 2185, 1728 and 1740 for the cultivars Keitt, Calypso, and Honey Gold, respectively. (ii) Vis-NIR spectrometry was trialled for non-invasive assessment of fruit flesh colour in the context of harvest maturity estimation, using a data set of 2034 spectra from 19 populations, where a population is an orchard/season/flowering event. The best leave-one-out-population cross validation prediction result was obtained using a Support Vector Regression (R2 of 0.63 and RMSEP of 5.52 on CIE B). However, this performance was inadequate for recommendation for use in non-invasive assessment of fruit maturity, which requires estimation to within 2.0 CIE B units. (iii) A procedure for prediction of fruit size at harvest based on measurements made prior to harvest was established, based a linear growth model for weight increment. The procedure was demonstrated for Honey Gold, Calypso and Keitt populations, with estimation error of 8.64 ± 13.7% and 0.61 ± 4.7% for measurements made between either five and four, or four and three weeks before harvest, respectively. (iv) A procedure for use of in-field machine vision-based count of fruit on tree in estimation of orchard fruit load was established, based on use of imaging on two dates to capture fruit arising from different flowering events. The two imaging estimations were accurate estimates of total orchard fruit load as measured by packhouse count, with R2 of 0.98 and slope of 0.99 across six orchards. These four activities demonstrate the potential of new technologies for improved estimation of harvest timing and load.
DOI: 10.25946/21539076.v1
title: estimation of quantity and harvesttiming of the mango crop

description: A forward estimate of mango fruit harvest volume and scheduling is required for farm management, for organization in terms of labour planning and market sales. Harvest timing estimation in mango production is currently achieved using accumulated growing degree days (GDD) from from early stages of flower development, non-destructive estimates of fruit dry matter content by handheld near infra-red spectrometry, and destructive assessment of internal flesh colour. For fruit load estimation, current best practice involves manual counting of total fruit per tree. A range of technologies are becoming available that have relevance to assessment of mango crop harvest timing and fruit load forecast. Four activities were undertaken to assess relevant technologies: (i) A hardware system based on LoRa connected temperature sensors was characterised and recommended for field use based on measurement accuracy, battery life and reception range. An alternative algorithm on GDD calculation involving use of a function that penalises high temperatures as well as low temperatures was demonstrated to better predict harvest maturity in warmer climates. Required heat units (GDD, Tb = 12 °C, TB =32 °C) to achieve maturity were documented as 2185, 1728 and 1740 for the cultivars Keitt, Calypso, and Honey Gold, respectively. (ii) Vis-NIR spectrometry was trialled for non-invasive assessment of fruit flesh colour in the context of harvest maturity estimation, using a data set of 2034 spectra from 19 populations, where a population is an orchard/season/flowering event. The best leave-one-out-population cross validation prediction result was obtained using a Support Vector Regression (R2 of 0.63 and RMSEP of 5.52 on CIE B). However, this performance was inadequate for recommendation for use in non-invasive assessment of fruit maturity, which requires estimation to within 2.0 CIE B units. (iii) A procedure for prediction of fruit size at harvest based on measurements made prior to harvest was established, based a linear growth model for weight increment. The procedure was demonstrated for Honey Gold, Calypso and Keitt populations, with estimation error of 8.64 ± 13.7% and 0.61 ± 4.7% for measurements made between either five and four, or four and three weeks before harvest, respectively. (iv) A procedure for use of in-field machine vision-based count of fruit on tree in estimation of orchard fruit load was established, based on use of imaging on two dates to capture fruit arising from different flowering events. The two imaging estimations were accurate estimates of total orchard fruit load as measured by packhouse count, with R2 of 0.98 and slope of 0.99 across six orchards. These four activities demonstrate the potential of new technologies for improved estimation of harvest timing and load.
DOI: 10.6084/m9.figshare.24420103
title: UAV nDSM image; 2021-05-22

description: UAV nDSM image; 2021-05-22
DOI: 10.6084/m9.figshare.24425242
title: Anonymous Survey

description: Software support functionality assessment survey environmental management and consultancy companies.
DOI: 10.6084/m9.figshare.24425242.v1
title: Anonymous Survey

description: Software support functionality assessment survey environmental management and consultancy companies.
DOI: 10.5517/ccdc.csd.cc2gl8fs
title: CCDC 2281675: Experimental Crystal Structure Determination

description: Related Article: Emmanuel B. Patricio-Rangel, Karen González-Silva, Daniel Mendoza-Espinosa|2023|Organometallics|42|2893|doi:10.1021/acs.organomet.3c00325
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.10035650
title: TESS Confirmed and First Identified SuperWASP Variable Stars

description: This catalog consists of the TESS-confirmed and First Identified SuperWASP Variable Stars of types $\delta$ Scuti, $\gamma$ Doradus, RR Lyrae, eclipsing binary systems with pulsating components, rotating variables, and others.  This dataset is part of a short summary submitted to RNAAS entitled "Identifying SuperWASP Detected Candidate Variables with TESS" (Zhou, A.-Y., 2023 Research Notes of the AAS, vol.7).
DOI: 10.5281/zenodo.10035649
title: TESS Confirmed and First Identified SuperWASP Variable Stars

description: This catalog consists of the TESS-confirmed and First Identified SuperWASP Variable Stars of types $\delta$ Scuti, $\gamma$ Doradus, RR Lyrae, eclipsing binary systems with pulsating components, rotating variables, and others.  This dataset is part of a short summary submitted to RNAAS entitled "Identifying SuperWASP Detected Candidate Variables with TESS" (Zhou, A.-Y., 2023 Research Notes of the AAS, vol.7).
DOI: 10.5281/zenodo.10035680
title: FS_EFA_Outline_Data

description: Associated README file describes the samples and data collection procedures for archived data associated with the grant listed above, specifically regarding the outline data related to the Elliptical Fourier Analysis (EFA) method.  The resulting data file (FS_EFA_Outline_Data.csv) is the collection of scaled coefficients for all the tracings that underwent EFA analyses.
DOI: 10.5281/zenodo.10035679
title: FS_EFA_Outline_Data

description: Associated README file describes the samples and data collection procedures for archived data associated with the grant listed above, specifically regarding the outline data related to the Elliptical Fourier Analysis (EFA) method.  The resulting data file (FS_EFA_Outline_Data.csv) is the collection of scaled coefficients for all the tracings that underwent EFA analyses.
DOI: 10.34740/kaggle/dsv/6779942
title: WallStreetBets 2022
DOI: 10.6084/m9.figshare.24419041.v1
title: Table 1. Genome assembly and annotation features of <i>Lasiodiplodia pseudotheobromae</i> isolates

description: Table 1. Genome assembly and annotation features of <i>Lasiodiplodia pseudotheobromae</i> isolates
DOI: 10.17632/6dyj7nfyhw.1
title: Sources of Sediments Received by the East Subbasin Abyssal Plain of the South China Sea Since ~15 Ma, Based on IODP Deep Ocean Drilling Results: An Assessment of Tectonic versus Climatic Drivers

description: Yan et al., Sources of Sediments Received by the East Subbasin Abyssal Plain of the South China Sea Since ~15 Ma, Based on IODP Deep Ocean Drilling Results: An Assessment of Tectonic versus Climatic Drivers Supplementary Data (DR) Files: Supplementary DR Table 1: Information on analysed samples from IODP Site U1431. Supplementary DR Table 2: Analytical results of trace element analyses of the samples from IODP Site U1431. Supplementary DR Table 3: Sr and Nd isotopic compositions of the samples from IODP Site U1431. Supplementary DR Table 4: Detrital zircon U–Pb geochronology of the samples from IODP Site U1431. Supplementary DR Table 5: Compiled Sr and Nd isotopic compositions of potential source areas. Supplementary DR Table 6: Compiled detrital zircon U–Pb geochronology of potential source areas.
DOI: 10.17632/bsc8jf63sm.1
title: Distributed Energy Resources Dispatch Considering a Hydrogen Power Plant - 37 bus grid dataset

description: Data set for simulating the operation of a hydrogen power plant in a distribution grid with a high penetration of distributed energy sources.

Includes:
1. Single-line diagram of the distribution grid.
2. Input data: seasonal PV generation profiles (22 PV systems).
3. Input data: seasonal wind generation profiles (2 wind farms).
4. Input data: seasonal load profiles (22 loads).
DOI: 10.17632/bsc8jf63sm.2
title: Distributed Energy Resources Dispatch Considering a Hydrogen Power Plant - 37 bus grid dataset

description: Data set for simulating the operation of a hydrogen power plant in a distribution grid with a high penetration of distributed energy sources. Includes: 1. Single-line diagram of the distribution grid. 2. Input data: seasonal PV generation profiles (22 PV systems). 3. Input data: seasonal wind generation profiles (2 wind farms). 4. Input data: seasonal load profiles (22 loads).
DOI: 10.17632/xfbrfhtt6p.1
title: CX-5461 potentiates imatinib-induced apoptosis in K562 cells by stimulating KIF1B expression (Part 3)

description: The selective RNA polymerase I inhibitor CX-5461 has been shown to be effective in treating some types of leukemic disorders. Emerging evidence suggests that combined treatments with CX-5461 and other chemotherapeutic agents may achieve enhanced effectiveness as compared to monotherapies. In the present study, we tested whether CX-5461 could potentiate the effect of imatinib in the human chronic myeloid leukemia cell line K562. Cells were divided into 3 treatment groups (with 3 independent biological replications in each group): control, imatinib (100 nM for 48 hr) alone, and imatinib+CX-5461 (100 nM for 48 hr). Genome-wide mRNA sequencing was performed.
DOI: 10.17632/7kx3hz7wr9.1
title: SUPPLEMENTAL INFORMATION - Effect of smoking cessation on psoriasis vulgaris, palmoplantar pustulosis, and generalized pustular psoriasis: A nationwide population-based cohort study

description: Mendeley supplemental Fig 1. Association of changes in smoking habits with psoriasis vulgaris according to subgroup. Mendeley supplemental Fig 2. Association between changes in smoking habits and palmoplantar pustulosis by subgroup.
DOI: 10.17632/7kx3hz7wr9.2
title: SUPPLEMENTAL INFORMATION - Effect of smoking cessation on psoriasis vulgaris, palmoplantar pustulosis, and generalized pustular psoriasis: A nationwide population-based cohort study

description: Mendeley supplemental Table 1. The characteristics of the study population regarding health behaviors and laboratory results Mendeley supplemental Fig 1. Association of changes in smoking habits with psoriasis vulgaris according to subgroup. Mendeley supplemental Fig 2. Association between changes in smoking habits and palmoplantar pustulosis by subgroup.
DOI: 10.17632/k7jwk6pgpc.1
title: flight initiation distance of wintering Buzzards

description: The development of road networks has given rise to man-made wildlife habitats. Birds of prey use roadsides and highway infrastructure as attractive foraging sites. In order to measure reactions to human disturbance, the flight initiation distance (FID) of Common Buzzards (Buteo buteo) foraging on expressways and in open farmland was investigated. The GLM model showed that FID was affected by habitat types, distance from the nearest building and distance from the nearest tree. Common Buzzards took off from a shorter distance on roads than in farmland. The distance from the nearest building and the distance from the nearest tree were positively correlated with FID. Our results confirmed the behavioural plasticity of these birds and may provide a theoretical basis for measures aimed at reducing the risk of collisions with moving road vehicles.
DOI: 10.17632/f59yhhbjwx.1
title: Nanophotonic resonators in stratified media with the nanobem toolbox

description: nanobem is a recently developed matlab toolbox for the solution of Maxwell's equations using a boundary element method, which is particularly suited for nanophotonic resonators and the computation of resonance modes [Hohenester et al., CPC 276, 108337 (2022)]. In this paper we present an extension that allows simulating nanoparticles situated in stratified media, using the matrix-friendly approach of Chew. Possible simulation setups include nanoparticles on substrates or embedded in layer structures, holes in films, or void structures. We provide a detailed documentation of the various toolbox classes, and present selected showcase results and convergence studies.
DOI: 10.17632/kzdg45x84s.1
title: Effects of coffee pericarp and litter mulching on soil microbiomes diversity and functions in a tropical coffee plantation, South China

description: The soil microenvironment, microbial community structure, and functional data used in the research manuscript
DOI: 10.17632/25g6hhw5db.1
title: O-GlcNAcylation drives calcium signaling towards osteoblast differentiation: a bioinformatics-oriented study

description: Objective: This study aimed to reveal the possible mechanisms by which O-linked-N-acetylglucosaminylation (O-GlcNAcylation) regulates osteoblast differentiation using a series of bioinformatics-oriented experiments. Methods: To examine the influence of O-GlcNAcylation levels on osteoblast differentiation, osteoblastic MC3T3-E1 cells were treated with O-GlcNAc transferase (OGT) and O-GlcNAcase (OGA) inhibitors. Correlations between the levels of O-GlcNAcylation and the expression of osteogenic markers as well as OGT were evaluated by qPCR and western blotting. The O-GlcNAcylated proteins assumed to correlate with Runx2 expression were retrieved from several public databases and used for further bioinformatics analysis. Following the findings of the bioinformatics analysis, intracellular calcium ([Ca2+]i) was monitored in the cells treated with OGT and OGA inhibitors using a confocal laser-scanning microscope (CLS). The interaction effect between O-GlcNAcylation and [Ca2+]i on osteogenic marker expression was determined using stable OGT knockdown MC3T3-E1 cells. Results: O-GlcNAcylation was positively and negatively associated with osteoblast differentiation. The time-course profile of global O-GlcNAcylated proteins showed a distinctive pattern with different molecular weights during osteoblast differentiation. The expression pattern of several O-GlcNAcylated proteins was significantly similar to that of Runx2 expression. Bioinformatic analysis of the retrieved Runx2-related-O-GlcNAcylated-proteins revealed the importance of [Ca2+]i. CLS showed that alteration of O-GlcNAcylation rapidly changed [Ca2+]i in MC3T3-E1 cells. O-GlcNAcylation and [Ca2+]i showed an interaction effect on the expression of osteogenic markers. OGT knockdown disrupted the [Ca2+]i-induced expression changes of osteogenic markers. Conclusions: O-GlcNAcylation interacts with [Ca2+]i and elicits osteoblast differentiation by regulating the expression of osteogenic markers. KEYWORDS: Osteoblast differentiation; O-linked-N-acetylglucosaminylation; Calcium; Bioinformatics; Literature-mining