cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.25403482.v1
title: turn_angle_rasters.npy

description: 3D Numpy array of 13x13 rasters (stacked together), each of which is a 2D representation of a Von Mises distribution corresponding to a different turn angle. The Von Mises distribution is parameterized from observed turn angles.
DOI: 10.7931/qdpd-xp17
title: Wetland biomass
DOI: 10.6084/m9.figshare.25403485
title: sl_raster.npy

description: This is a 13x13 numpy array representing a gamma mixture distribution fit to observed step lengths of dispersing cougars.
DOI: 10.6084/m9.figshare.25403485.v1
title: sl_raster.npy

description: This is a 13x13 numpy array representing a gamma mixture distribution fit to observed step lengths of dispersing cougars.
DOI: 10.6084/m9.figshare.25403488
title: states.npy

description: This is a numpy array representing North American states and provinces.
DOI: 10.6084/m9.figshare.25403488.v1
title: states.npy

description: This is a numpy array representing North American states and provinces.
DOI: 10.6084/m9.figshare.25403491
title: speed_lanes_rast_overpass.npy

description: "Speed_lanes_rast" and "road_mortality" are both 3D arrays containing many stacked 13x13 rasters. Each 13x13 raster is centered on one of the cells indicated in "roadstarts_rast." During simulations, the model evaluates # # retrieves the corresponding 13x13 rasters from "speed_lanes_rast" and "road_mortality." These are then used to modify# selection probabilities and mortality probability, respectively. The "overpass" versions have sections of roads removed,# simulating wildlife overpasses.
DOI: 10.6084/m9.figshare.25403491.v1
title: speed_lanes_rast_overpass.npy

description: "Speed_lanes_rast" and "road_mortality" are both 3D arrays containing many stacked 13x13 rasters. Each 13x13 raster is centered on one of the cells indicated in "roadstarts_rast." During simulations, the model evaluates # # retrieves the corresponding 13x13 rasters from "speed_lanes_rast" and "road_mortality." These are then used to modify# selection probabilities and mortality probability, respectively. The "overpass" versions have sections of roads removed,# simulating wildlife overpasses.
DOI: 10.6084/m9.figshare.25403497
title: speed_lanes_rast.npy

description: "Speed_lanes_rast" and "road_mortality" are both 3D arrays containing many stacked 13x13 rasters. Each 13x13 raster is centered on one of the cells indicated in "roadstarts_rast." During simulations, the model evaluates whether animals are within 30km of a road (i.e., if their coordinates are contained in "roadstarts_rast"), and if they are, retrieves the corresponding 13x13 rasters from "speed_lanes_rast" and "road_mortality." These are then used to modify selection probabilities and mortality probability, respectively. The "overpass" versions have sections of roads removed, simulating wildlife overpasses.
DOI: 10.6084/m9.figshare.25403497.v1
title: speed_lanes_rast.npy

description: "Speed_lanes_rast" and "road_mortality" are both 3D arrays containing many stacked 13x13 rasters. Each 13x13 raster is centered on one of the cells indicated in "roadstarts_rast." During simulations, the model evaluates whether animals are within 30km of a road (i.e., if their coordinates are contained in "roadstarts_rast"), and if they are, retrieves the corresponding 13x13 rasters from "speed_lanes_rast" and "road_mortality." These are then used to modify selection probabilities and mortality probability, respectively. The "overpass" versions have sections of roads removed, simulating wildlife overpasses.
DOI: 10.15468/2tvn4g
title: Data from ornithological studies on the Zmiinyi island (Black Sea, Ukraine) for the 1975-1992 period and spring 2006

description: Within this dataset data on captured and ringed birds on the Zmiinyi island is provided. The data covers the period from 1975 to 1992 and separate studies conducted in spring 2006. For a number of birds, data on the main biometric measurements (bill length, beak length, wing length, weight, etc.) are provided. Data are provided regarding the phenology of individual species - the date of the first appearance of the species and the date of mass appearance. Particular records provided refer to the registrations of a number of rare and endangered species for the territory of Ukraine.
DOI: 10.6084/m9.figshare.25403509
title: road_mortality.npy

description: "Speed_lanes_rast" and "road_mortality" are both 3D arrays containing many stacked 13x13 rasters. Each 13x13 raster is centered on one of the cells indicated in "roadstarts_rast." During simulations, the model evaluates whether animals are within 30km of a road (i.e., if their coordinates are contained in "roadstarts_rast"), and if they are, retrieves the corresponding 13x13 rasters from "speed_lanes_rast" and "road_mortality." These are then used to modify selection probabilities and mortality probability, respectively. The "overpass" versions have sections of roads removed, simulating wildlife overpasses.
DOI: 10.6084/m9.figshare.25403509.v1
title: road_mortality.npy

description: "Speed_lanes_rast" and "road_mortality" are both 3D arrays containing many stacked 13x13 rasters. Each 13x13 raster is centered on one of the cells indicated in "roadstarts_rast." During simulations, the model evaluates whether animals are within 30km of a road (i.e., if their coordinates are contained in "roadstarts_rast"), and if they are, retrieves the corresponding 13x13 rasters from "speed_lanes_rast" and "road_mortality." These are then used to modify selection probabilities and mortality probability, respectively. The "overpass" versions have sections of roads removed, simulating wildlife overpasses.
DOI: 10.6084/m9.figshare.25403524
title: road_mortality_overpass.npy

description: "Speed_lanes_rast" and "road_mortality" are both 3D arrays containing many stacked 13x13 rasters. Each 13x13 raster is centered on one of the cells indicated in "roadstarts_rast." During simulations, the model evaluates whether animals are within 30km of a road (i.e., if their coordinates are contained in "roadstarts_rast"), and if they are, retrieves the corresponding 13x13 rasters from "speed_lanes_rast" and "road_mortality." These are then used to modify selection probabilities and mortality probability, respectively. The "overpass" versions have sections of roads removed, simulating wildlife overpasses.
DOI: 10.6084/m9.figshare.25403524.v1
title: road_mortality_overpass.npy

description: "Speed_lanes_rast" and "road_mortality" are both 3D arrays containing many stacked 13x13 rasters. Each 13x13 raster is centered on one of the cells indicated in "roadstarts_rast." During simulations, the model evaluates whether animals are within 30km of a road (i.e., if their coordinates are contained in "roadstarts_rast"), and if they are, retrieves the corresponding 13x13 rasters from "speed_lanes_rast" and "road_mortality." These are then used to modify selection probabilities and mortality probability, respectively. The "overpass" versions have sections of roads removed, simulating wildlife overpasses.
DOI: 10.17909/tvwk-ye33
title: MW/LMC UFDs subset from Richstein et al. 2024

description: 10 UFDs from HST GO-14734 with photometry presented in Richstein et al. 2024 and imaging from HST ACS/WFC
DOI: 10.6084/m9.figshare.25403500
title: occupied_female_1990.npy

description: A 2D numpy array representing areas occupied by cougars circa 1990 within a female's dispersal distance of the eastern range edge.
DOI: 10.6084/m9.figshare.25403500.v1
title: occupied_female_1990.npy

description: A 2D numpy array representing areas occupied by cougars circa 1990 within a female's dispersal distance of the eastern range edge.
DOI: 10.6084/m9.figshare.25403518
title: occupied_female_2023.npy

description: A 2D numpy array representing areas occupied by cougars circa 2023 within a female's dispersal distance of the eastern range edge.
DOI: 10.6084/m9.figshare.25403518.v1
title: occupied_female_2023.npy

description: A 2D numpy array representing areas occupied by cougars circa 2023 within a female's dispersal distance of the eastern range edge.
DOI: 10.7294/25374619
title: Surface deformation at City of Derna Libya from Sentinel-1 satellite

description: Surface deformation rate in the City of Derna, Libya. The Synthetic Aperture Radar (SAR) datasets spanning from 20160608 to 20230912 [YYYYMMDD] are derived from 214 images from ascending orbits of the Sentinel-1 C-band satellite. Reference system: IGS14. The dataset is processed using the WabInSAR algorithm.<br>
DOI: 10.7294/25374619.v1
title: Surface deformation at City of Derna Libya from Sentinel-1 satellite

description: Surface deformation rate in the City of Derna, Libya. The Synthetic Aperture Radar (SAR) datasets spanning from 20160608 to 20230912 [YYYYMMDD] are derived from 214 images from ascending orbits of the Sentinel-1 C-band satellite. Reference system: IGS14. The dataset is processed using the WabInSAR algorithm.<br>
DOI: 10.6084/m9.figshare.25403503
title: unoccupied_1990.npy

description: A 2D numpy array representing potential (unoccupied) cougar habitat in North America, circa 1990.
DOI: 10.6084/m9.figshare.25403503.v1
title: unoccupied_1990.npy

description: A 2D numpy array representing potential (unoccupied) cougar habitat in North America, circa 1990.
DOI: 10.6084/m9.figshare.25403506
title: hunting rates.csv

description: State- and cell-specific mortality rates from hunting for juvenile cougars.
DOI: 10.6084/m9.figshare.25403506.v1
title: hunting rates.csv

description: State- and cell-specific mortality rates from hunting for juvenile cougars.
DOI: 10.6084/m9.figshare.25403515
title: nonharvest mortality rates.csv

description: State- and cell-specific mortality rates from nonharvest mortality for juvenile cougars.
DOI: 10.6084/m9.figshare.25403680
title: Supporting Data for manuscript entitled "sAMP-VGG16: Force-field assisted image-based deep neural network prediction model for short antimicrobial peptides"

description: During the last three decades, antimicrobial peptides (AMPs) have emerged as a promising therapeutic alternative to antibiotics. The approaches for designing AMPs span from experimental trial-and-error methods to synthetic hybrid peptide libraries. To overcome the exceedingly expensive and time-consuming process of designing effective AMPs, many computational and machine-learning tools for AMP prediction have been recently developed. In general, to encode the peptide sequences, featurization relies on approaches based on (a) amino acid composition, (b) physicochemical properties, (c) sequence similarity, and (d) structural properties. In this work, we present an image-based deep neural network model to predict AMPs, where we are using feature encoding based on Drude polarizable force-field atom types, which can capture the peptide properties more efficiently compared to conventional feature vectors. The proposed prediction model identifies AMPs with promising accuracy and efficiency and can be used as a next-generation screening method for predicting new AMPs.
DOI: 10.6084/m9.figshare.25403680.v1
title: Supporting Data for manuscript entitled "sAMP-VGG16: Force-field assisted image-based deep neural network prediction model for short antimicrobial peptides"

description: During the last three decades, antimicrobial peptides (AMPs) have emerged as a promising therapeutic alternative to antibiotics. The approaches for designing AMPs span from experimental trial-and-error methods to synthetic hybrid peptide libraries. To overcome the exceedingly expensive and time-consuming process of designing effective AMPs, many computational and machine-learning tools for AMP prediction have been recently developed. In general, to encode the peptide sequences, featurization relies on approaches based on (a) amino acid composition, (b) physicochemical properties, (c) sequence similarity, and (d) structural properties. In this work, we present an image-based deep neural network model to predict AMPs, where we are using feature encoding based on Drude polarizable force-field atom types, which can capture the peptide properties more efficiently compared to conventional feature vectors. The proposed prediction model identifies AMPs with promising accuracy and efficiency and can be used as a next-generation screening method for predicting new AMPs.
DOI: 10.6084/m9.figshare.25403512
title: habkern.npy

description: A 2D numpy array representation of a rasterized "habitat kernel," created from step selection function fit to dispersing cougar movement data.
DOI: 10.6084/m9.figshare.25403512.v1
title: habkern.npy

description: A 2D numpy array representation of a rasterized "habitat kernel," created from step selection function fit to dispersing cougar movement data.
DOI: 10.6073/pasta/eb1b04a7dd0e5fb69f005a8609564720
title: Change in marsh surface elevation measured with a Surface Elevation Table (SET) at control and fertilized plots at Spartina alterniflora, S.patens and Typha sp. marshes, Plum Island Ecosystems LTER, MA.

description: A Surface Elevation Table (SET) is used to measure changes in the elevation of the marsh surface at three long term marsh control and fertilization experimental research sites. The sites include one Typha-dominated brackish marsh, one Spartina alterniflora-dominated salt marsh, and one S. patens-dominated salt marsh. Sites are located on the Rowley and upper Parker Rivers in the Plum Island Ecosystems (PIE) LTER.
DOI: 10.6084/m9.figshare.25403521
title: occupied_2023.npy

description: A 2D numpy array representing cougar range circa 2023.
DOI: 10.6084/m9.figshare.25403521.v1
title: occupied_2023.npy

description: A 2D numpy array representing cougar range circa 2023.
DOI: 10.6073/pasta/86f2bc394a23033e778e7305a94205f5
title: Surface Elevation Table (SET) data (pin heights) from control and fertilized plots at Spartina alterniflora, S. patens and Typha sp. marshes, Plum Island Ecosystems LTER, MA.

description: A Surface Elevation Table (SET) is used to measure changes in the elevation of the marsh surface at three long term marsh fertilization experimental research sites. The sites include one Typha-dominated brackish marsh, one Spartina alterniflora-dominated salt marsh, and one S. patens-dominated salt marsh. Sites are located on the Rowley and upper Parker Rivers in the Plum Island Ecosystems (PIE) LTER site.
DOI: 10.6084/m9.figshare.25403494
title: flight_rasters.npy

description: This is a 3D array of 13x13 rasters (stacked together), each of which is a 2D representation of a Von Mises distribution corresponding to a different flight angle. The Von Mises distribution is parameterized from observed flight angles.<br>
DOI: 10.6084/m9.figshare.25403494.v1
title: flight_rasters.npy

description: This is a 3D array of 13x13 rasters (stacked together), each of which is a 2D representation of a Von Mises distribution corresponding to a different flight angle. The Von Mises distribution is parameterized from observed flight angles.<br>
DOI: 10.6084/m9.figshare.25403530
title: road_mask.npy

description: A 2D array indicating locations within 30km of a road.
DOI: 10.6084/m9.figshare.25403530.v1
title: road_mask.npy

description: A 2D array indicating locations within 30km of a road.
DOI: 10.17606/m6159z
title: Kogod Made in America Auto Index - 2014

description: The Kogod Made in America Auto Index was assembled by Associate Professor Frank DuBois, an expert in global supply chain management, at American University's Kogod School of Business. Among other sources, the data was compiled from publicly-disclosed American Automobile Labeling Act (AALA) reports as of February 2014.
DOI: 10.25422/azu.data.24512896.v1
title: VCF file for "Little Evidence for Homoeologous Gene Conversion and Homoeologous Exchange Events in Gossypium Allopolyploids"

description: This is the filtered VCF file that was used in the manuscript "Little Evidence for Homoeologous Gene Conversion and Homoeologous Exchange Events in <i>Gossypium</i> Allopolyploids" by Conover et al., 2023. See the Methods of the manuscript for details on how this VCF file was generated and filtered.<br><i>For inquiries regarding the contents of this dataset, please contact the Corresponding Author listed in the README.txt file. Administrative inquiries (e.g., removal requests, trouble downloading, etc.) can be directed to data-management@arizona.edu</i>
DOI: 10.25422/azu.data.24512896
title: VCF file for "Little Evidence for Homoeologous Gene Conversion and Homoeologous Exchange Events in Gossypium Allopolyploids"

description: This is the filtered VCF file that was used in the manuscript "Little Evidence for Homoeologous Gene Conversion and Homoeologous Exchange Events in <i>Gossypium</i> Allopolyploids" by Conover et al., 2023. See the Methods of the manuscript for details on how this VCF file was generated and filtered.<br><i>For inquiries regarding the contents of this dataset, please contact the Corresponding Author listed in the README.txt file. Administrative inquiries (e.g., removal requests, trouble downloading, etc.) can be directed to data-management@arizona.edu</i>
DOI: 10.25422/azu.data.24514306
title: Whole genome alignments for "Little Evidence for Homoeologous Gene Conversion and Homoeologous Exchange Events in Gossypium Allopolyploids"

description: Whole genome alignments used in "Little Evidence for Homoeologous Gene Conversion and Homoeologous Exchange Events in <i>Gossypium</i> Allopolyploids" by Conover et al. Alignments were generated via Anchorwave.Whole Genome Alignments, aligned to either the G. raimondii (D5ref) reference genome or the G. arboreum (A2ref) genome. Species are listed by their letter/number codes and subgenome assignments (for example, an alignment between the G. raimondii diploid reference genome and the At subgenome of G. barbdense is represented by AD2.At.D5ref_alignment.maf).<br><i>For inquiries regarding the contents of this dataset, please contact the Corresponding Author listed in the README.txt file. Administrative inquiries (e.g., removal requests, trouble downloading, etc.) can be directed to data-management@arizona.edu</i>
DOI: 10.25422/azu.data.24514306.v1
title: Whole genome alignments for "Little Evidence for Homoeologous Gene Conversion and Homoeologous Exchange Events in Gossypium Allopolyploids"

description: Whole genome alignments used in "Little Evidence for Homoeologous Gene Conversion and Homoeologous Exchange Events in <i>Gossypium</i> Allopolyploids" by Conover et al. Alignments were generated via Anchorwave.Whole Genome Alignments, aligned to either the G. raimondii (D5ref) reference genome or the G. arboreum (A2ref) genome. Species are listed by their letter/number codes and subgenome assignments (for example, an alignment between the G. raimondii diploid reference genome and the At subgenome of G. barbdense is represented by AD2.At.D5ref_alignment.maf).<br><i>For inquiries regarding the contents of this dataset, please contact the Corresponding Author listed in the README.txt file. Administrative inquiries (e.g., removal requests, trouble downloading, etc.) can be directed to data-management@arizona.edu</i>
DOI: 10.6084/m9.figshare.23110259.v2
title: Raw data for 'Fruit-frugivore dependencies are important in<i> </i><i>Ebolavirus</i> outbreaks in Sub-Saharan Africa'

description: Files include the raw data collected for the paper titled 'Fruit-frugivore dependencies are important in <i>Ebolavirus</i> outbreaks in Sub-Saharan Africa'. Sub-files include data on outbreak locations ('Outbreaks'), Ficus species coordinates ('gbif_Ficus'), and shapefiles of Ficus species digitized from figweb.org ('figshapefiles.zip'). Analyses with R code and other processed input files are in 'Analyses.zip'. More details are provided in the full paper.
DOI: 10.6084/m9.figshare.23110259.v1
title: Raw data for 'Fruit-frugivore dependencies explain <i>Ebolavirus</i> outbreaks in Sub-Saharan Africa'

description: Files include the raw data collected for the paper titled 'Fruit-frugivore dependencies explain <i>Ebolavirus</i> outbreaks in Sub-Saharan Africa'. Sub-files include data on outbreak locations ('Outbreaks'), Ficus species coordinates ('gbif_Ficus'), and shapefiles of Ficus species digitized from figweb.org ('figshapefiles.zip'). Analyses with R code and other processed input files are in 'Analyses.zip'. More details are provided in the full paper.
DOI: 10.3886/e171701
title: Census Linkage Crosswalks for US Censuses 1850-1940

description: This package contains census linkage crosswalks for all US censuses 1850-1940. The linkage method is described in the README. The package also includes the code needed to create these links from the restricted IPUMS-Ancestry.com data.<br><br>The crosswalks are based on the histid variable provided by IPUMS, and can be merged with the unrestricted IPUMS-USA data using that.<br><br>The data of V2 are identical to those of V1. The only difference between the versions are some inconsequential edits to the README.<br><br>The V3 data add the strict links and the code necessary to create them.
DOI: 10.3886/e171701v3-146963
title: Census Linkage Crosswalks for US Censuses 1850-1940

description: This package contains census linkage crosswalks for all US censuses 1850-1940. The linkage method is described in the README. The package also includes the code needed to create these links from the restricted IPUMS-Ancestry.com data.<br><br>The crosswalks are based on the histid variable provided by IPUMS, and can be merged with the unrestricted IPUMS-USA data using that.<br><br>The data of V2 are identical to those of V1. The only difference between the versions are some inconsequential edits to the README.<br><br>The V3 data add the strict links and the code necessary to create them.
DOI: 10.5517/ccdc.csd.cc2f052q
title: CCDC 2234482: Experimental Crystal Structure Determination

description: Related Article: Huayun Shi, Fortuna Ponte, Jaspreet S. Grewal, Guy J. Clarkson, Cinzia Imberti, Ian Hands-Portman, Robert Dallmann, Emilia Sicilia, Peter J. Sadler|2024|Chemical Science|15|4121|doi:10.1039/D3SC03092J
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.cc2f0qkr
title: CCDC 2235024: Experimental Crystal Structure Determination

description: Related Article: Xin-Ping Gao, Shun-Xi Li, Kui Hu, Cheng-Long Deng, Shu-Fen Bai, Yan-Lan Wang, Hao-Tian Xie, Shuang Lü, Yu-Long Li, Qian-Li Li|2024|J.Mol.Struct.|1306|137881|doi:10.1016/j.molstruc.2024.137881
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.cc2f0qls
title: CCDC 2235025: Experimental Crystal Structure Determination

description: Related Article: Xin-Ping Gao, Shun-Xi Li, Kui Hu, Cheng-Long Deng, Shu-Fen Bai, Yan-Lan Wang, Hao-Tian Xie, Shuang Lü, Yu-Long Li, Qian-Li Li|2024|J.Mol.Struct.|1306|137881|doi:10.1016/j.molstruc.2024.137881
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.