cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19714910.v1
title: Table S1. The raw Fastloc-GPS tracking data for hawksbill turtles. from Travel routes to remote ocean targets reveal the map sense resolution for a marine migrant

description: How animals navigate across the ocean to isolated targets remains perplexing greater than 150 years since this question was considered by Charles Darwin. To help solve this long-standing enigma, we considered the likely resolution of any map sense used in migration, based on the navigational performance across different scales (10 s to 1000 s of km). We assessed navigational performance using a unique high-resolution Fastloc-GPS tracking dataset for post-breeding hawksbill turtles (<i>Eretmochelys imbricata</i>) migrating relatively short distances to remote, isolated targets on submerged banks in the Indian Ocean. Individuals often followed circuitous paths (mean straightness index = 0.54, range 0.14–0.93, s.d. = 0.23, <i>n</i> = 22), when migrating short distances (mean beeline distance to target = 106 km, range 68.7–178.2 km). For example, one turtle travelled 1306.2 km when the beeline distance to the target was only 176.4 km. When off the beeline to their target, turtles sometimes corrected their course both in the open ocean and when encountering shallow water. Our results provide compelling evidence that hawksbill turtles only have a relatively crude map sense in the open ocean. The existence of widespread foraging and breeding areas on isolated oceanic sites points to target searching in the final stages of migration being common in sea turtles.
DOI: 10.6084/m9.figshare.19714669
title: Pilot data for: Dubois & Hauser, Nature Communications, 2022

description: Pilot dataset for Dubois & Hauser, Nature Communications (2022)
DOI: 10.6084/m9.figshare.19714669.v3
title: Pilot data for: Dubois & Hauser, Nature Communications, 2022

description: Pilot dataset for Dubois & Hauser, Nature Communications (2022)
DOI: 10.6084/m9.figshare.19714669.v2
title: Pilot data for: Dubois & Hauser, Nature Communications (2022)

description: Pilot dataset for Dubois & Hauser, Nature Communications (2022)
DOI: 10.6084/m9.figshare.19706320
title: DatasetAndCode_Compressed.tar.xz

description: Collection of datasets for the manuscript "Association mapping of colour variations in a butterfly provides evidences that a supergene locks together a cluster of adaptive loci"
DOI: 10.6084/m9.figshare.19706320.v1
title: DatasetAndCode_Compressed.tar.xz

description: Collection of datasets for the manuscript "Association mapping of colour variations in a butterfly provides evidences that a supergene locks together a cluster of adaptive loci"
DOI: 10.6084/m9.figshare.19709461.v1
title: Founders and ancestries ch22 (10K features)

description: The Founders dataset (Founders_ch22_10KSNP.npy.zip) contains 10K features (SNPs) of chromosome 22 of different individuals. Each row is the SNPs of an individual. Each individual is divided into two rows, one for the maternal and another for the paternal strand. There are 4144 rows, which are 2072 individuals. The ancestries of these individuals can be found in the file Ancestries_ch22_10KSNP.npy. Each ancestry is defined with a number from 0 to 6. - 0: European - 1: African - 2: American - 3: East Asian - 4: Oceania - 5: South African - 6: West Asian
DOI: 10.6084/m9.figshare.19714480
title: Founders and ancestries ch22 (5K features)

description: The Founders dataset (Founders_ch22_5KSNP.npy.zip) contains 5K features (SNPs) of chromosome 22 of different individuals. Each row is the SNPs of an individual. Each individual is divided into two rows, one for the maternal and another for the paternal strand. There are 4144 rows, which are 2072 individuals. The ancestries of these individuals can be found in the file Ancestries_ch22_5KSNP.npy. Each ancestry is defined with a number from 0 to 6. - 0: European - 1: African - 2: American - 3: East Asian - 4: Oceania - 5: South African - 6: West Asian
DOI: 10.6084/m9.figshare.19714519
title: Founders and ancestries ch22 (1K features)

description: The Founders dataset (Founders_ch22_1KSNP.npy.zip) contains 1K features (SNPs) of chromosome 22 of different individuals. Each row is the SNPs of an individual. Each individual is divided into two rows, one for the maternal and another for the paternal strand. There are 4144 rows, which are 2072 individuals. The ancestries of these individuals can be found in the file Ancestries_ch22_1KSNP.npy. Each ancestry is defined with a number from 0 to 6. - 0: European - 1: African - 2: American - 3: East Asian - 4: Oceania - 5: South African - 6: West Asian <br> <br> <br>
DOI: 10.6084/m9.figshare.19714519.v1
title: Founders and ancestries ch22 (1K features)

description: The Founders dataset (Founders_ch22_1KSNP.npy.zip) contains 1K features (SNPs) of chromosome 22 of different individuals. Each row is the SNPs of an individual. Each individual is divided into two rows, one for the maternal and another for the paternal strand. There are 4144 rows, which are 2072 individuals. The ancestries of these individuals can be found in the file Ancestries_ch22_1KSNP.npy. Each ancestry is defined with a number from 0 to 6. - 0: European - 1: African - 2: American - 3: East Asian - 4: Oceania - 5: South African - 6: West Asian <br> <br> <br>
DOI: 10.6084/m9.figshare.19709461
title: Founders and ancestries ch22 (10K features)

description: The Founders dataset (Founders_ch22_10KSNP.npy.zip) contains 10K features (SNPs) of chromosome 22 of different individuals. Each row is the SNPs of an individual. Each individual is divided into two rows, one for the maternal and another for the paternal strand. There are 4144 rows, which are 2072 individuals. The ancestries of these individuals can be found in the file Ancestries_ch22_10KSNP.npy. Each ancestry is defined with a number from 0 to 6. - 0: European - 1: African - 2: American - 3: East Asian - 4: Oceania - 5: South African - 6: West Asian
DOI: 10.5063/f1251gm1
title: Modeled sources and discharge of nitrogen pollution from agriculture and wastewater in the Mesoamerican Reef region over a 1 year period (2019)

description: This data accompanies the paper "Sources and discharge of nitrogen pollution from agriculture and wastewater in the Mesoamerican Reef region" (Berger et al. 2022). The data displays the modeled amount of N (Nitrogen) generated in each watershed, from four distinct sources: fertilizer use in crop production, run off from livestock production, wastewater generated by tourists (including cruise disembarking tourists), and wastewater generated by residents. The shapefile is structured with each row representing an individual watershed, with attributes that list the kg N from each of the four sources, as well as a column for total kg N generated in that watershed. The raster data displays the extent of N diffusion from each watershed into coastal waters, based on a model to distribute the values into coastal waters based on a cost-path surface until a minimum threshold (0.05% of global maximum) is reached . Values are in kg N .
DOI: 10.5281/zenodo.6522091
title: Enhancing bioreactor arrays for automated measurements and reactive control with ReacSight

description: This dataset supports the paper <em>"</em>Enhancing bioreactor arrays for automated measurements and reactive control with ReacSight" (2021). ReacSight is a generic and flexible strategy to enhance bioreactor arrays for automated measurements and reactive experiment control. We used ReacSight to assemble a platform for cytometry-based characterization and reactive optogenetic control of parallel yeast continuous cultures. Using a dedicated bioreactor array, we showcased its capabilities on several applications. This dataset contains all the corresponding raw data. Together with code available in the ReacSight git repository, it allows to reproduce the analysis of raw data and the generation of the figures appearing in the paper.
DOI: 10.5281/zenodo.4776009
title: Enhancing bioreactor arrays for automated measurements and reactive control with ReacSight

description: This dataset supports the paper <em>"</em>Enhancing bioreactor arrays for automated measurements and reactive control with ReacSight" (2021). ReacSight is a generic and flexible strategy to enhance bioreactor arrays for automated measurements and reactive experiment control. We used ReacSight to assemble a platform for cytometry-based characterization and reactive optogenetic control of parallel yeast continuous cultures. Using a dedicated bioreactor array, we showcased its capabilities on several applications. This dataset contains all the corresponding raw data. Together with code available in the ReacSight git repository, it allows to reproduce the analysis of raw data and the generation of the figures appearing in the paper.
DOI: 10.26078/h7ga-d204
title: Digital Appendix of Masters Thesis "Shallow Composition and Structure of the San Gabriel Fault, California in Drill Core and Geophysical Logs: Implications for Fault Slip and Energetics"
DOI: 10.6084/m9.figshare.23522490
title: Peak Tables and the analysis script of Clinical Breathomics Dataset

description: We have performed the GC‒MS analysis for detecting breath molecules in 233 patient samples to create the clinical breathomics dataset. Breath molecules can reflect various conditions, including human psychological and pathological states as well as the microbiome. The noninvasive nature of detecting breath molecules has significant advantages in terms of diagnostic and monitoring capabilities. This dataset contains VOCs present in breath of asthma, bronchiectasis and chronic obstructive pulmonary disease. This dataset is an extensive human clinical breath molecule collection for 3 diseases and has been gathered using consistent sample collection protocols. We believe this clinical breathomics dataset will be a valuable resource for researchers and clinicians as they seek to identify and further study potential biomarkers in patient breath.
DOI: 10.6084/m9.figshare.23522490.v5
title: Peak Tables and the analysis script of Clinical Breathomics Dataset

description: We have performed the GC‒MS analysis for detecting breath molecules in 233 patient samples to create the clinical breathomics dataset. Breath molecules can reflect various conditions, including human psychological and pathological states as well as the microbiome. The noninvasive nature of detecting breath molecules has significant advantages in terms of diagnostic and monitoring capabilities. This dataset contains VOCs present in breath of asthma, bronchiectasis and chronic obstructive pulmonary disease. This dataset is an extensive human clinical breath molecule collection for 3 diseases and has been gathered using consistent sample collection protocols. We believe this clinical breathomics dataset will be a valuable resource for researchers and clinicians as they seek to identify and further study potential biomarkers in patient breath.
DOI: 10.5517/ccdc.csd.cc2h7bfj
title: CCDC 2300957: Experimental Crystal Structure Determination

description: Related Article: Andrew J. Bennett, Leila M. Foroughi, Adam J. Matzger|2024|J.Am.Chem.Soc.|146|1771|doi:10.1021/jacs.3c12023
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: 10.5517/ccdc.csd.cc2h7bgk
title: CCDC 2300958: Experimental Crystal Structure Determination

description: Related Article: Andrew J. Bennett, Leila M. Foroughi, Adam J. Matzger|2024|J.Am.Chem.Soc.|146|1771|doi:10.1021/jacs.3c12023
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: 10.5517/ccdc.csd.cc2gnhl7
title: CCDC 2283819: Experimental Crystal Structure Determination

description: Related Article: Narayan Ch. Jana, Paula Brandão, Rosa M. Gomila, Antonio Frontera, Anangamohan Panja|2024|New J.Chem.|48|2389|doi:10.1039/D3NJ04609E
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: 10.6084/m9.figshare.25149437
title: DataDrawing.opju

description: some data for motions, tension of floating hoses
DOI: 10.6084/m9.figshare.25149437.v1
title: DataDrawing.opju

description: some data for motions, tension of floating hoses
DOI: 10.6084/m9.figshare.25149272
title: FACEIT Demo (<b>team_RAALZh3h3</b> vs <b>sdy</b>)

description: Demofile from https://www.faceit.com/en/cs2/room/1-89e005ee-da0b-487a-9d5b-65fde0069d7a/scoreboard
DOI: 10.6084/m9.figshare.25149272.v1
title: FACEIT Demo (<b>team_RAALZh3h3</b> vs <b>sdy</b>)

description: Demofile from https://www.faceit.com/en/cs2/room/1-89e005ee-da0b-487a-9d5b-65fde0069d7a/scoreboard
DOI: 10.5281/zenodo.10622406
title: Exploring "dark matter" protein folds using deep learning

description: Pre-training, training and test data for Genesis including scripts to generate the dataset.
DOI: 10.5281/zenodo.10622407
title: Exploring "dark matter" protein folds using deep learning

description: Pre-training, training and test data for Genesis including scripts to generate the dataset.
DOI: 10.6084/m9.figshare.25149479
title: Generation of an optimal triangulated irregular network for topographic surface via optimal transport theory

description: more data comming soon.
DOI: 10.6084/m9.figshare.25149479.v1
title: Generation of an optimal triangulated irregular network for topographic surface via optimal transport theory

description: more data comming soon.
DOI: 10.5281/zenodo.10611035
title: Data and results for "Sample, estimate, aggregate: A recipe for causal discovery foundation models"

description: Datasets and results associated with "Sample, estimate, aggregate: A recipe for causal discovery foundation models"
DOI: 10.5281/zenodo.10611036
title: Data and results for "Sample, estimate, aggregate: A recipe for causal discovery foundation models"

description: Datasets and results associated with "Sample, estimate, aggregate: A recipe for causal discovery foundation models"
DOI: 10.6084/m9.figshare.25145585
title: <b>Visualization and Standardized Quantification of Surface Charge Density for Triboelectric Materials</b>

description: Raw data for Visualization and Standardized Quantification of Surface Charge Density for Triboelectric Materials
DOI: 10.26275/q2w0-keol
title: Two-Color Diffuse In Vivo Flow Cytometer

description: Processed diffuse in vivo flow cytometry (DiFC) data for the validation of  Two-Color DiFC. Including in vitro phantom data and mouse data.
DOI: 10.5281/zenodo.10068751
title: Code
DOI: 10.5281/zenodo.10068752
title: Code
DOI: 10.6084/m9.figshare.25106390
title: <b>MAGs from Guaymas Basin and Pescadero Basin</b>

description: During the February and March 2019 expedition FK190211 aboard RV Falkor to Guaymas Basin and Pescadero Basin, researchers collected water samples from rising plumes for metagenomic analysis. Briefly, seawater was collected via a CTD rosette, and up to 4 liters of water was passed through a 0.2 um filter. Excess liquid was removed from the filters, which were then immediately flash frozen in liquid nitrogen. Subsequently, the samples were stored at -80C for nucleic acid extraction. The metagenomes of samples were sequenced and subjected to metagenome-assembled genome binning. This dataset contains all the resulting MAGs and related meta-data.
DOI: 10.6084/m9.figshare.25144262
title: <b>Understanding the driving forces of soil erosion in the Yellow River Basin: a comprehensive analysis using the InVEST model (2000-2020)</b>

description: Hydrometeorological data of the Yellow River Basin
DOI: 10.6084/m9.figshare.25144262.v1
title: <b>Understanding the driving forces of soil erosion in the Yellow River Basin: a comprehensive analysis using the InVEST model (2000-2020)</b>

description: Hydrometeorological data of the Yellow River Basin
DOI: 10.5281/zenodo.10565664
title: Species traits and latitude mediate bird responses to forest edges globally

description: Other supplementary material in Vallejos et al. 2024 

 

Context :               Although local studies comparing species abundance between forest edges and interiors are common, general patterns in the response of different species to edges are still to be determined. There is little consensus on the impacts of forest edge effects on the abundance of individual bird species, probably because the species traits affecting edge responses have rarely been synthesized. 

Objective  :           We aimed to identify how different species’ traits, as well as extrinsic (environmental) factors, mediate the responses of birds to forest edges globally.

Methods  :              We collected global information from bibliographic databases from 59 studies with 63 different datasets that compared bird abundance between forest edges and interiors. For each species, we compiled six traits (diet, habitat preference, territoriality, body mass, hand-wing index, and foraging stratum). Using Linear Mixed-effects Models, we evaluated how species traits, latitude, edge contrast, and sampling method affected bird responses to edges.

Results      :           Based on 2,981 responses of 1,414 bird species, we found that plant/seedeaters birds responded positively to edges. The strength of habitat preference on edge responses was also mediated by latitude. Open-area species from tropics exhibited a positive response, diminishing as latitude increases. Conversely, forest species tend to exhibit a somewhat more negative response in tropical zones. Edge effects were more negative for soft (low-contrast) edges.   

Conclusions  :       Species traits, in particular diet and habitat preferences interacting with latitude, mediate the impacts of edge effects on different bird species. These species traits and latitudinal gradients must be explicitly considered in models attempting to explain variability in edge responses among species, as well as in conservation actions in fragmented landscapes.
DOI: 10.5281/zenodo.10565665
title: Species traits and latitude mediate bird responses to forest edges globally

description: Other supplementary material in Vallejos et al. 2024 

 

Context :               Although local studies comparing species abundance between forest edges and interiors are common, general patterns in the response of different species to edges are still to be determined. There is little consensus on the impacts of forest edge effects on the abundance of individual bird species, probably because the species traits affecting edge responses have rarely been synthesized. 

Objective  :           We aimed to identify how different species’ traits, as well as extrinsic (environmental) factors, mediate the responses of birds to forest edges globally.

Methods  :              We collected global information from bibliographic databases from 58 studies with 63 different datasets that compared bird abundance between forest edges and interiors. For each species, we compiled six traits (diet, habitat preference, territoriality, body mass, hand-wing index, and foraging stratum). Using Linear Mixed-effects Models, we evaluated how species traits, latitude, edge contrast, and sampling method affected bird responses to edges.

Results      :           Based on 2,981 responses of 1,414 bird species, we found that plant/seedeaters birds responded positively to edges. The strength of habitat preference on edge responses was also mediated by latitude. Open-area species from tropics exhibited a positive response, diminishing as latitude increases. Conversely, forest species tend to exhibit a somewhat more negative response in tropical zones. Edge effects were more negative for soft (low-contrast) edges.   

Conclusions  :       Species traits, in particular diet and habitat preferences interacting with latitude, mediate the impacts of edge effects on different bird species. These species traits and latitudinal gradients must be explicitly considered in models attempting to explain variability in edge responses among species, as well as in conservation actions in fragmented landscapes.
DOI: 10.5281/zenodo.10622352
title: Species traits and latitude mediate bird responses to forest edges globally

description: Other supplementary material in Vallejos et al. 2024 

 

Context :               Although local studies comparing species abundance between forest edges and interiors are common, general patterns in the response of different species to edges are still to be determined. There is little consensus on the impacts of forest edge effects on the abundance of individual bird species, probably because the species traits affecting edge responses have rarely been synthesized. 

Objective  :           We aimed to identify how different species’ traits, as well as extrinsic (environmental) factors, mediate the responses of birds to forest edges globally.

Methods  :              We collected global information from bibliographic databases from 59 studies with 63 different datasets that compared bird abundance between forest edges and interiors. For each species, we compiled six traits (diet, habitat preference, territoriality, body mass, hand-wing index, and foraging stratum). Using Linear Mixed-effects Models, we evaluated how species traits, latitude, edge contrast, and sampling method affected bird responses to edges.

Results      :           Based on 2,981 responses of 1,414 bird species, we found that plant/seedeaters birds responded positively to edges. The strength of habitat preference on edge responses was also mediated by latitude. Open-area species from tropics exhibited a positive response, diminishing as latitude increases. Conversely, forest species tend to exhibit a somewhat more negative response in tropical zones. Edge effects were more negative for soft (low-contrast) edges.   

Conclusions  :       Species traits, in particular diet and habitat preferences interacting with latitude, mediate the impacts of edge effects on different bird species. These species traits and latitudinal gradients must be explicitly considered in models attempting to explain variability in edge responses among species, as well as in conservation actions in fragmented landscapes.
DOI: 10.5517/ccdc.csd.cc2gwybn
title: CCDC 2290972: Experimental Crystal Structure Determination

description: Related Article: Dasarath Mal|2023|CSD Communication|||
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: 10.5517/ccdc.csd.cc2g4qfs
title: CCDC 2268655: Experimental Crystal Structure Determination

description: Related Article: Huijie Song|2023|CSD Communication|||
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.