cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.23638370
title: Data and Code for "Exploring the criticality hypothesis using programmable swarm robots with Vicsek-like interactions"

description: A widely mentioned but not experimentally confirmed view (known as the ‘criticality hypothesis’) argues that biological swarm systems gain optimal responsiveness to perturbations and information processing capabilities by operating near the critical state where an ordered-to-disordered state transition occurs. However, various factors can induce the ordered–disordered transition, and the explicit relationship between these factors and the criticality is still unclear. Here, we present an experimental validation for criticality hypothesis by employing real programmable swarm-robotic systems (up to 50 robots) governed by Vicsek-like interactions, subject to time-varying stimulus-response and hazard avoidance. We find that (i) not all ordered–disordered motion transitions correspond to the functional advantages for groups; (ii) collective response of groups is maximized near the critical state induced by alignment weight or scale rather than noise and other non-alignment factors; and (iii) those non-alignment factors act to highlight the functional advantages of alignment-induced criticality. These results suggest that the adjustability of velocity or directional coupling between individuals plays an essential role in the acquisition of maximizing collective response by criticality. Our results contribute to understanding the adjustment strategies of animal interactions from a perspective of criticality and provide insights into the design and control of swarm robotics.
DOI: 10.6084/m9.figshare.23638370.v1
title: Data and Code for "Exploring the criticality hypothesis using programmable swarm robots with Vicsek-like interactions"

description: A widely mentioned but not experimentally confirmed view (known as the ‘criticality hypothesis’) argues that biological swarm systems gain optimal responsiveness to perturbations and information processing capabilities by operating near the critical state where an ordered-to-disordered state transition occurs. However, various factors can induce the ordered–disordered transition, and the explicit relationship between these factors and the criticality is still unclear. Here, we present an experimental validation for criticality hypothesis by employing real programmable swarm-robotic systems (up to 50 robots) governed by Vicsek-like interactions, subject to time-varying stimulus-response and hazard avoidance. We find that (i) not all ordered–disordered motion transitions correspond to the functional advantages for groups; (ii) collective response of groups is maximized near the critical state induced by alignment weight or scale rather than noise and other non-alignment factors; and (iii) those non-alignment factors act to highlight the functional advantages of alignment-induced criticality. These results suggest that the adjustability of velocity or directional coupling between individuals plays an essential role in the acquisition of maximizing collective response by criticality. Our results contribute to understanding the adjustment strategies of animal interactions from a perspective of criticality and provide insights into the design and control of swarm robotics.
DOI: 10.5281/zenodo.8121741
title: Gangu biodiversity offset plot data

description: The data set constitutes of plot data collected during forest inventories in Gangu biodiversity offset sites in Uganda.
DOI: 10.5281/zenodo.8121742
title: Gangu biodiversity offset plot data

description: The data set constitutes of plot data collected during forest inventories in Gangu biodiversity offset sites in Uganda.
DOI: 10.6084/m9.figshare.23638379
title: Supplemental Data 1 from Allometric wing growth links parental care to pterosaur giantism

description: Measurements of skeletal dimensions of individual specimens
DOI: 10.6084/m9.figshare.23635169
title: Data and code from The reliability of regional ecological knowledge to build local interaction networks: a test using seed-dispersal networks across land-bridge islands

description: Original data and codes
DOI: 10.6084/m9.figshare.23635169.v1
title: Data and code from The reliability of regional ecological knowledge to build local interaction networks: a test using seed-dispersal networks across land-bridge islands

description: Original data and codes
DOI: 10.5281/zenodo.8121697
title: Bioc2023mariner

description: Data originally published in, "Chromatin loop dynamics during cellular differentiation are associated with changes to both anchor and internal regulatory features". Full data available at GEO (https://www.ncbi.nlm.nih.gov/geo/) under SuperSeries 213909. These data are used as sample data for a Bioconductor workshop. The files were filtered for just chromosome 1.
DOI: 10.5281/zenodo.8121696
title: Bioc2023mariner

description: Data originally published in, "Chromatin loop dynamics during cellular differentiation are associated with changes to both anchor and internal regulatory features". Full data available at GEO (https://www.ncbi.nlm.nih.gov/geo/) under SuperSeries 213909. These data are used as sample data for a Bioconductor workshop. The files were filtered for just chromosome 1.
DOI: 10.5281/zenodo.8121802
title: Bioc2023mariner

description: Data originally published in, "Chromatin loop dynamics during cellular differentiation are associated with changes to both anchor and internal regulatory features". Full data available at GEO (https://www.ncbi.nlm.nih.gov/geo/) under SuperSeries 213909. These data are used as sample data for a Bioconductor workshop. The files were filtered for just chromosome 1.
DOI: 10.5066/p9u0ghlu
title: MODFLOW-NWT and MODPATH5 used to evaluate groundwater availability, geochemistry, and flow pathways to public-supply wells in the Atlantic Coastal Plain and bedrock aquifers, Aiken County and part of Lexington County, South Carolina, 2015-2019

description: The U.S. Geological Survey, in cooperation with Aiken County; City of Aiken; Breezy Hill Water and Sewer Company, Inc.; Montmorenci-Couchton Water and Sewer District, Inc.; and Gilbert-Summit Rural Water District developed a model for use with MODFLOW-NWT and MODPATH5 to evaluate groundwater flow and advective transport under pre- and post-development conditions in the Atlantic Coastal Plain (ACP) and bedrock crystalline-rock aquifer in the Aiken County, SC area. Groundwater availability, geochemistry, and flow pathways to public-supply wells (PSW) were assessed between 2015 and 2019. A population increase by about 17.6 percent from 2000 to 2015 in Aiken County, as well as the current (2022) and potential economic development in the area, has led to an increased demand for water to meet drinking- or process-water needs. Most water demands, including public supply, domestic supply, irrigation, and industrial, are met by groundwater. To address the various concerns of public, private, and governmental users related to groundwater availability and geochemistry in the study area, a 3-dimensional, numerical groundwater-flow model, in conjunction with a groundwater-recharge model using the Soil-Water-Balance (SWB) model (https://doi.org/10.5066/P9WEOGCS), was constructed, and calibrated using historical groundwater levels and measurements of stream baseflows. The groundwater geochemistry investigation included the collection of groundwater samples, between 2015 and 2016, from 16 PSWs and 4 monitoring wells screened in the ACP aquifers or entirely or partially open to the bedrock aquifer. Basic physical properties and the chemical composition of the groundwater samples are reported along with the concentration of radium isotopes 226Ra and 228Ra, volatile organic compounds (VOC), stable isotopic composition of the groundwater, nitrates, and concentrations of CFCs and dissolved gases. A base simulation and water budgets for dry (2012) and wet (2015) year conditions, future (2017–2065) groundwater-demand scenarios based on three general circulation models (GCMs) of future climates, and future agricultural irrigation demands were simulated. The calibrated groundwater-flow model, and geochemical results of groundwater ages, were used in conjunction to simulate groundwater particle tracks to determine the direction and travel time of groundwater to a particular PSW. Model simulations are used in this study to provide information to facilitate the best management of the groundwater resources in Aiken County and part of Lexington County. This data release contains all the input and output files for the simulations described in the associated model documentation report. (https://doi.org/10.3133/sir20225036).
DOI: 10.6084/m9.figshare.23635812
title: Data for a reference genome for the long-term kleptoplast-retaining sea slug Elysia crispata morphotype clarki

description: Genome assembly and annotation for Elysia crispata and accompanying data from gene expression and comparative genomic analyses
DOI: 10.25345/c5q52fp8q
title: MassIVE MSV000092358 - Palaeoproteomics and microanalysis reveal techniques of production of animal based metal threads in medieval textiles part II
title: Protein-based or animal-based metal threads were largely used between the 10th and the 15th centuries, in European, Middle Eastern and Far Eastern textile productions for the decoration of textiles and cloths to make a display of wealth, power and status. A total of 94 samples were collected from a corpus of 67 textile fragments belonging to 53 catalogued objects. Proteomics analysis allowed to determine the origin of the animal substrates, which were found to be from bovine membranes (possibly from gastrointestinal organs or bladder) in membrane strips, while in leather strips (possibly made from the corium or grain skin layer of the animals), goat (exclusively in Spanish samples) and sheep (in Middle Eastern/Italian and Far Eastern samples) were identified. Other protein-based components that made the strips were identified and associated to the adhesive binders.
DOI: 10.5281/zenodo.6712829
title: Sterically Driven Current Reversal in a Molecular Motor Model

description: This repository contains the code, data, and scripts to reproduce the results found in "Sterically Driven Current Reversal in a Molecular Motor Model" (https://arxiv.org/abs/2206.09006) by A. Albaugh, G. Gu, and T. R. Gingrich. The following is the abstract for that manuscript: <br> "Simulations can help unravel the complicated ways in which molecular structure determines function. Here, we use molecular simulations to show how slight alterations of a molecular motor's structure can cause the motor's typical dynamical behavior to reverse directions. Inspired by autonomous synthetic catenane motors, we study the molecular dynamics of a minimal motor model, consisting of a shuttling ring that moves along a track containing interspersed binding sites and catalytic sites. The binding sites attract the shuttling ring while the catalytic sites speed up a reaction between molecular species, which can be thought of as fuel and waste. When that fuel and waste are held in a nonequilibrium steady-state concentration, the free energy from the reaction drives directed motion of the shuttling ring along the track. Using this model and nonequilibrium molecular dynamics, we show that the shuttling ring's direction can be reversed by simply adjusting the spacing between binding and catalytic sites on the track. We present a steric mechanism behind the current reversal, supported by kinetic measurements from the simulations. These results demonstrate how molecular simulation can guide future development of artificial molecular motors."
DOI: 10.5281/zenodo.6712828
title: Sterically Driven Current Reversal in a Molecular Motor Model

description: This repository contains the code, data, and scripts to reproduce the results found in "Sterically Driven Current Reversal in a Molecular Motor Model" (https://arxiv.org/abs/2206.09006) by A. Albaugh, G. Gu, and T. R. Gingrich. The following is the abstract for that manuscript: <br> "Simulations can help unravel the complicated ways in which molecular structure determines function. Here, we use molecular simulations to show how slight alterations of a molecular motor's structure can cause the motor's typical dynamical behavior to reverse directions. Inspired by autonomous synthetic catenane motors, we study the molecular dynamics of a minimal motor model, consisting of a shuttling ring that moves along a track containing interspersed binding sites and catalytic sites. The binding sites attract the shuttling ring while the catalytic sites speed up a reaction between molecular species, which can be thought of as fuel and waste. When that fuel and waste are held in a nonequilibrium steady-state concentration, the free energy from the reaction drives directed motion of the shuttling ring along the track. Using this model and nonequilibrium molecular dynamics, we show that the shuttling ring's direction can be reversed by simply adjusting the spacing between binding and catalytic sites on the track. We present a steric mechanism behind the current reversal, supported by kinetic measurements from the simulations. These results demonstrate how molecular simulation can guide future development of artificial molecular motors."
DOI: 10.34740/kaggle/dsv/6083413
title: Bikeshare excel dataset
DOI: 10.6084/m9.figshare.23638764
title: GC and life experiences data from Continuities and discontinuities in the cultural evolution of global consciousness

description: .txt file contains data for the Mplus analyses
DOI: 10.6084/m9.figshare.23638764.v1
title: GC and life experiences data from Continuities and discontinuities in the cultural evolution of global consciousness

description: .txt file contains data for the Mplus analyses
DOI: 10.7294/19522195
title: Data from: Let’s stick together: infection enhances preferences for social settings in a songbird species

description: In this paper we investigated how social preferences of a gregarious songbird shift during infection. Data for all analyses were taken from a behavioural experiment in which a house finch (either infected with a pathogen or uninfected control) was given the choice to spend more time eating or perching with a flock. All data is provided in the file ‘Inf_Social.csv’ and analyses are provided in the file ‘Langager_Sociality_Code.R’.
DOI: 10.7294/19522195.v2
title: Data from: Let’s stick together: infection enhances preferences for social settings in a songbird species

description: In this paper we investigated how social preferences of a gregarious songbird shift during infection. Data for all analyses were taken from a behavioural experiment in which a house finch (either infected with a pathogen or uninfected control) was given the choice to spend more time eating or perching with a flock. All data is provided in the file ‘Inf_Social.csv’ and analyses are provided in the file ‘Langager_Sociality_Code.R’.
DOI: 10.7294/19522195.v1
title: Data from: Let’s stick together: infection enhances preferences for social settings in a songbird species

description: In this paper we investigated how social preferences of a gregarious songbird shift during infection. Data for all analyses were taken from a behavioural experiment in which a house finch (either infected with a pathogen or uninfected control) was given the choice to spend more time eating or perching with a flock. All data is provided in the file ‘Inf_Social.csv’ and analyses are provided in the file ‘Langager_Sociality_Code.R’.
DOI: 10.25934/pr00009084
title: AMR Challenge

description: Antimicrobial resistance is a global problem that has so far resisted modern therapeutic interventions. Infections caused by gram-negative pathogens are a serious threat to public health worldwide, especially in Africa. The increasing incidence of multi-drug resistant (MDR) bacteria and the failure of carbapenem antimicrobial agents have triggered a shift to the use of colistin which is usually the last drug of choice for the treatment of serious bacterial infections. Colistin resistance has been reported in different regions of the world, particularly in Africa. Understanding the prevalence or trend of colistin resistance in pathogens from Africa will be crucial for developing new therapeutic interventions and for optimizing key regulatory policies, strengthening surveillance and stewardship for overall infection control. Without a doubt, colistin resistance is a critical medical issue that requires serious attention and proper monitoring, particularly in our setting. However, the trend and evolution of colistin resistance still remain elusive to date. 
Herein, we intend to leverage the ATLAS, Venatorx-GEAR, and other publicly available datasets to critically evaluate and model the evolution of resistance to colistin over time in Africa using the Bayesian hierarchical Gaussian mixture model. Firstly, we analyzed the percentage distribution and prevalence of antimicrobial resistance in different gram-negative pathogens (especially those of urgent priority according to WHO) to different antimicrobial agents. Thereafter, we analyzed and model the evolution of colistin resistance in Africa by evaluating the trends over the years in different clinical samples and different selected gram-negative pathogens. This study is very critical to modelling and tracking colistin resistance in Africa, and crucial in generating data that could aid in precision health care, inferring better treatment approaches for certain pathogens and strengthening baseline public health systems.
DOI: 10.34740/kaggle/dsv/6091222
title: Balochi Language to English Translation Dataset
DOI: 10.5517/ccdc.csd.cc2fb9qt
title: CCDC 2244236: Experimental Crystal Structure Determination

description: Related Article: Daria Budzikur-Maciąg, Vasyl Kinzhybalo, Katarzyna Ślepokura|2023|CrystEngComm|25|3826|doi:10.1039/D3CE00186E
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.cc2fb9rv
title: CCDC 2244237: Experimental Crystal Structure Determination

description: Related Article: Daria Budzikur-Maciąg, Vasyl Kinzhybalo, Katarzyna Ślepokura|2023|CrystEngComm|25|3826|doi:10.1039/D3CE00186E
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.cc2ddcmt
title: CCDC 2216426: Experimental Crystal Structure Determination

description: Related Article: shiyan guo|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.cc2ffm8s
title: CCDC 2247415: Experimental Crystal Structure Determination

description: Related Article: Xiaochuan Li|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.cc2fftpd
title: CCDC 2247614: Experimental Crystal Structure Determination

description: Related Article: Brendan F. Abrahams, Christopher J. Commons, Timothy A. Hudson|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.cc2ffxng
title: CCDC 2247706: Experimental Crystal Structure Determination

description: Related Article: Husni Wahyu Wijaya, I Wayan Dasna|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.cc2ffxsl
title: CCDC 2247710: Experimental Crystal Structure Determination

description: Related Article: Husni Wahyu Wijaya, I Wayan Dasna|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.cc2fljf0
title: CCDC 2252132: Experimental Crystal Structure Determination

description: Related Article: C MY|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.cc2fllm8
title: CCDC 2252200: Experimental Crystal Structure Determination

description: Related Article: Matthias  Weil|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.cc2flln9
title: CCDC 2252201: Experimental Crystal Structure Determination

description: Related Article: Matthias  Weil|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.cc2fllpb
title: CCDC 2252202: Experimental Crystal Structure Determination

description: Related Article: Matthias  Weil|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.