cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/573bwb
title: A new divergent lineage of Daphnia (Cladocera: Anomopoda) and its morphological and genetical differentiation from Daphnia curvirostris Eylmann, 1887

description: This dataset contains the digitized treatments in Plazi based on the original journal article Ishida, S., Kotov, A. A., Taylor, D. J. (2006): A new divergent lineage of Daphnia (Cladocera: Anomopoda) and its morphological and genetical differentiation from Daphnia curvirostris Eylmann, 1887. Zoological Journal of the Linnean Society 146 (3): 385-405, DOI: 10.1111/j.1096-3642.2006.00214.x, URL: https://academic.oup.com/zoolinnean/article-lookup/doi/10.1111/j.1096-3642.2006.00214.x
DOI: 10.6073/pasta/3bd2c920cf431442d34227f3f5fc7c2a
title: Food Web of Sarracenia Purpurea in United States and Canada since 1999

description: How food webs are structured and how their structure and dynamics vary through time and space is a central focus of research in community ecology. We documented structural variation in the aquatic food web inhabiting pitcher-shaped leaves of the carnivorous pitcher plant Sarracenia purpurea across the geographic range of the plant (from Florida north to Labrador and west to British Columbia); examined temporal variation in this food web with detailed experiments in Massachusetts and Vermont; experimentally manipulated top-down and bottom-up processes in this food web in Massachusetts; and developed a dynamic simulation model of this food web that incorporates metacommunity dynamics.
DOI: 10.6073/pasta/37ee70bbf38b3f95bc955dc555c63188
title: Moths, Ants and Pitcher Plants in Bogs at Harvard Forest and Belchertown MA 2007-2013

description: Ecologists have long recognized that coexistence of interacting species depends on a diversity of separate, but linked habitats. Most models of species coexistence treat these habitat "patches" as unchanging elements of the landscape, but in reality, they are constantly changing in size and shape. The structure and dynamics of the food webs that inhabit them both control and depend on these changes. In this five-year (2006-2011) collaborative project, we are using a combination of extensive field surveys and intensive field experiments to understand how species interactions change the spatial distribution of dynamic habitat patches across the landscape, and to determine how food webs are structured within and among these patches. The experimental system for this five-year research project is the Sarracenia "microecosystem": the northern pitcher-plant Sarracenia purpurea; the unique food web of bacteria, protozoa, rotifers, mites, and fly larvae that live within its rainwater-filled leaves; three species of bog-inhabiting ants that are the primary prey for this carnivorous plant; and larvae of the pitcher-plant moth, Exyra fax, which cut and drain pitchers and remove food web habitat. Results from surveys of bogs in all six New England state and field experiments conducted at bogs at Harvard Forest and Belchertown, Massachusetts will be used to parameterize a simulation model to predict changes in spatial structure of ant, moth, and plant populations, and the structure and composition of the aquatic food web associated with the plant. This work is funded by the U.S. National Science Foundation, through collaborative awards 0541680 and 0541936.
DOI: 10.6073/pasta/b27053aaabbff61248819a7396b9dad2
title: Density of Acanthocyclops vernalis, Leptodiaptomus tyrelli and Daphnia pulicaria in Hidden Lake (Banff, AB, Canada) from 2014 to 2020

description: This data file is the combination of two data sets of two different methodology (The Derry lab and Fisher lab; see method section for differences). The density of three dominant species were assessed every summer during the same week from 2014 to 2020 by the Fisher lab in Hidden Lake, Banff National Park, Canada: the cyclopoid Acanthocyclops vernalis, the calanoid Leptodiaptomus tyrelli and the cladocera Daphnia pulicaria. An extra sampling effort was done by the Derry lab around the rotenone treatments. The objective of this study was to assess the effect of two rotenone application (in summer 2018 and 2019) on zooplankton populations.
DOI: 10.6073/pasta/3bc27eeccd0f943fe7d19678bd67a6ad
title: Macroinvertebrates communities from 14 lakes of the Canadian Rockies in summer and fall 2018.

description: Benthic macroinvertebrates communities from 8 samples stations per lake in 14 lakes (9 with fish, 4 fishless and one treated with rotenone) of the Canadian Rockies distributed along an elevation gradient. Sampling was done in 2018 for all lakes except Hidden Lake (treated with rotenone), which was sampled in 2018 and 2019. All lakes were sampled twice per year (mid-July and early September). The objective of this study was to assess the effect of rotenone application in Hidden lake during summer 2018 on macroinvertebrates communities.
DOI: 10.5517/ccdc.csd.cc24zhvh
title: CCDC 1995527: Experimental Crystal Structure Determination

description: Related Article: Chihiro Kachi-Terajima, Naoya Mutoh, Yuta Sasada, Kaori Anjo|2020|J.Organomet.Chem.|928|121548|doi:10.1016/j.jorganchem.2020.121548
DOI: 10.5517/ccdc.csd.cc24zhwj
title: CCDC 1995528: Experimental Crystal Structure Determination

description: Related Article: Chihiro Kachi-Terajima, Naoya Mutoh, Yuta Sasada, Kaori Anjo|2020|J.Organomet.Chem.|928|121548|doi:10.1016/j.jorganchem.2020.121548
DOI: 10.5517/ccdc.csd.cc24zhxk
title: CCDC 1995529: Experimental Crystal Structure Determination

description: Related Article: Chihiro Kachi-Terajima, Naoya Mutoh, Yuta Sasada, Kaori Anjo|2020|J.Organomet.Chem.|928|121548|doi:10.1016/j.jorganchem.2020.121548
DOI: 10.5517/ccdc.csd.cc24zhyl
title: CCDC 1995530: Experimental Crystal Structure Determination

description: Related Article: Chihiro Kachi-Terajima, Naoya Mutoh, Yuta Sasada, Kaori Anjo|2020|J.Organomet.Chem.|928|121548|doi:10.1016/j.jorganchem.2020.121548
DOI: 10.3886/e155481v1
title: Is Teacher-Student and Student-Principal Racial/Ethnic Matching Related to Elementary School Grade Retention?

description: This study uses data from the Early Childhood Longitudinal Study, 2010-2011 to better understand the rates of grade retention during elementary school and the factors associated with this grade retention. Using matched student-teacher and student-principal data, I apply within-student comparisons to examine the extent to which students with a teacher or principal of the same race/ethnicity had a lower probability of being retained. No evidence of a relationship is found between student-teacher and student-principal racial/ethnic matching and reduced grade retention for Black, Latinx, or White students.
DOI: 10.3886/e155381v1
title: Risk and protective factors of college students’ psychological well-being during the COVID-19 pandemic: emotional stability, mental health, and household resources

description: This is the data deposit file for the article "Risk and protective factors of college students’ psychological well-being during the COVID-19 pandemic: emotional stability, mental health, and household resources", published by the journal AERA OPEN.<br><br>The P.I. of the project is Richard Arum. <br>The authors of this article are: Julia Moeller, Luise von Keyserlingk, Marion Spengler, Hanna Gaspard, Hye Rin Lee, Katsumi Yamaguchi-Pedroza; Renzhe Yu, Christian Fischer, & Richard Arum.<br><br>We used the following data in this study: <b>A pilot study of experience sampling method data, combined with pre- and a post- online surveys collected as part of the UCI Measuring Undergraduate Success Trajectories project (UCI-MUST).</b> <br><br>These data were provided upon a request to the authors of this study, all of whom were part of the research team at a time. <br><br>We are grateful to the MUST study team and, in particular to the principal investigator of the MUST study, Richard Arum, for allowing us to use the dataset. <br><b></b><br>The agreement we signed with the principal investigator and the consent forms provided to our participants prevent us from sharing these data, due to these data belonging to a pilot study that was not originally intended to be published as an openly available data set. <br><br>To make (partially) up for this limitation in sharing the data openly, we have opted to making all outputs openly available to give other researchers the opportunity to check our analyses and results. The Mplus outputs can be found here: https://osf.io/s29a8/<br><br>It is planned to make other datasets collected by this research project openly available at a later time point. <br><br>For further information on this research project, please visit the project website https://education.uci.edu/next-gen-ug-success-project.html
description: Experience Sampling Method in combination with online pre- and post-test surveys.
DOI: 10.6073/pasta/27afcea3bab0adc058457705506248f8
title: Saltwater Coastal Carbon Flux Synthesis

description: We collated published and unpublished data from studies that measured net ecosystem exchange as carbon dioxide (CO2) fluxes (and methane, CH4, where available) from wetlands that varied in surface water and porewater salinity concentrations (both manipulative experiments and observations). Studies were selected to minimize the influence of exogenous covariates such as land-use, hydrologic, and water quality changes. We calculated minimum, maximum, and median values from time series of gross ecosystem productivity (GEP), ecosystem respiration (ERCO2, ERCH4), and net ecosystem productivity (NEP). We included data that were measured at daily and monthly scales. Whenever possible, we used measured porewater salinities. If porewater data were not available, we used measured surface water salinities. We calculated the change in salinity as the difference between ambient and elevated concentrations from experimental salinity additions, or as the differences in observed salinities between freshwater and brackish marshes or freshwater and saltwater marshes. We calculated the % difference of change in median values of GEP, ERCO2, ERCH4, and NEP using the following equation: Percent (%) Difference in Median = [(elevated-ambient) / |ambient|] x 100
DOI: 10.6073/pasta/c4bea94f100f39a6b73c7b9a577df214
title: Systematic review of near-term ecological forecasting literature published between 1932 and 2020

description: This data publication includes results and code from a systematic review of near-term ecological forecasting literature. The study had two primary goals: (1) analyze the state of near-term ecological forecasting literature, and (2) compare forecast skill across ecosystems and variables. We began by conducting a Web of Science search for “forecast*” in the title, abstract, and keywords of all papers published in ecological journals, then screened all papers from this search to identify near-term ecological forecasts. We defined a near-term ecological forecast as future predictions of community, population, or biogeochemical variables ≤ 10 years from the forecast date. To more broadly survey the literature, we then searched all papers that cited or were cited by the near-term ecological forecasts we identified. We performed an in-depth review of all near-term ecological forecasting papers identified through this search process, and recorded forecast skill data for all papers that reported R or R2. Our results indicate that the rate of publication of near-term ecological forecasts is increasing over time and the field is becoming increasingly open and automated. Across published forecasts, we find that forecast skill decreases in predictable patterns and these patterns differ between forecast variables. This data publication includes three products from this analysis: (1) a database of all papers identified in the two searches, including our assessment of whether they included an ecological focal variable, included a forecast, and whether the forecast was near-term (≤10 years), (2) a matrix of all data collected on the near-term ecological forecasts we identified, and (3) a database of R2 values for papers that reported R or R2.
DOI: 10.15468/2ubxzb
title: Notes on New Caledonian Pandanaceae: identity and typifications of Pandanus decumbens (Brongn.) Solms and Pandanus reticulatus Vieill., with the new species Pandanus letocartiorum Callm. & Buerki

description: This dataset contains the digitized treatments in Plazi based on the original journal article Callmander, Martin W., Buerki, Sven (2013): Notes on New Caledonian Pandanaceae: identity and typifications of Pandanus decumbens (Brongn.) Solms and Pandanus reticulatus Vieill., with the new species Pandanus letocartiorum Callm. & Buerki. Candollea 68 (1): 51-60, DOI: 10.15553/c2013v681a4
DOI: 10.15468/g3pw99
title: A phylogenetic review of the genus Hexabathynella Schminke, 1972 (Crustacea, Malacostraca, Bathynellacea): with a description of four new species

description: This dataset contains the digitized treatments in Plazi based on the original journal article Cho, Joo-Lae, Schminke, Horst Kurt (2006): A phylogenetic review of the genus Hexabathynella Schminke, 1972 (Crustacea, Malacostraca, Bathynellacea): with a description of four new species. Zoological Journal of the Linnean Society 147 (1): 71-96, DOI: 10.1111/j.1096-3642.2006.00215.x, URL: https://academic.oup.com/zoolinnean/article-lookup/doi/10.1111/j.1096-3642.2006.00215.x
DOI: 10.18119/n97s4d
title: Non redundant interactome (Yeast)
DOI: 10.18119/n94302
title: Non redundant interactome (Human)
DOI: 10.6073/pasta/4d2e92ec343d716eb6ee3ee7cadec5ef
title: Evaluation of Mask R-CNN Model for Counting Reproductive Structures of Six Plant Species

description: Phenology––the timing of life-history events––is a key trait for understanding responses of organisms to climate. The digitization and online mobilization of herbarium specimens is rapidly advancing our understanding of plant phenological response to climate and climatic change. The current common practice of manually harvesting data from individual specimens greatly restricts our ability to scale data collection to entire collections. Recent investigations have demonstrated that machine-learning models can facilitate data collection from herbarium specimens. However, present attempts have focused largely on simplistic binary coding of reproductive phenology (e.g., flowering or not). Here, we use crowd-sourced phenological data of numbers of buds, flowers, and fruits of more than 3000 specimens of six common wildflower species of the eastern United States (Anemone canadensis, A. hepatica, A. quinquefolia, Trillium erectum, T. grandiflorum, and T. undulatum} to train a model using Mask R-CNN to segment and count phenological features. A single global model was able to automate the binary coding of reproductive stage with greater than 90% accuracy. Segmenting and counting features were also successful, but accuracy varied with phenological stage and taxon. Counting buds was significantly more accurate than flowers or fruits. Moreover, botanical experts provided more reliable data than either crowd-sourcers or our Mask R-CNN model, highlighting the importance of high-quality human training data. Finally, we also demonstrated the transferability of our model to automated phenophase detection and counting of the three Trillium species, which have large and conspicuously-shaped reproductive organs. These results highlight the promise of our two-phase crowd-sourcing and machine-learning pipeline to segment and count reproductive features of herbarium specimens, providing high-quality data with which to study responses of plants to ongoing climatic change.
DOI: 10.15468/gamjkz
title: A taxonomic review of the genus Amicta Heylaerts, 1881 in North Africa, Near and Middle East (Lepidoptera, Psychidae, Oiketicinae, Acanthopsychini)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Arnscheid, Wilfried R., Rajaei, Hossein, Sobczyk, Thomas (2021): A taxonomic review of the genus Amicta Heylaerts, 1881 in North Africa, Near and Middle East (Lepidoptera, Psychidae, Oiketicinae, Acanthopsychini). Zootaxa 5071 (3): 349-368, DOI: https://doi.org/10.11646/zootaxa.5071.3.3
DOI: 10.6084/m9.figshare.17096630
title: Adaptation of limb dynamics based solely on explicit visual feedback demonstrates savings, but is less stable

description: The data was recorded by Kinarm and crunched into Matlab data structure for analysis.
DOI: 10.6084/m9.figshare.17096630.v1
title: Adaptation of limb dynamics based solely on explicit visual feedback demonstrates savings, but is less stable

description: The data was recorded by Kinarm and crunched into Matlab data structure for analysis.
DOI: 10.6073/pasta/5d94cd77d20121090c72bb81154ac302
title: LTREB: Aboveground biomass, plant density, annual aboveground productivity, and plant heights in control and fertilized plots in a Spartina alterniflora-dominated salt marsh, North Inlet, Georgetown, SC: 1984-2020

description: Aboveground biomass and plant density were measured non-destructively as a component of a long-term project seeking to understand how salt marsh primary production and sediment chemistry respond to anthropogenic (e.g. eutrophication) and natural (e.g. sea-level rise) environmental change. Feedbacks between plants, sediments, nutrients and flooding were investigated with particular attention to mechanisms that keep marshes in equilibrium with sea level. Biomass was calculated from plant height measurements using allometric equations. Annual productivity was calculated from approximately-monthly biomass estimates. Other data collected as part of the project include marsh surface elevation and porewater nutrient concentrations. These data have been used to develop the Marsh Equilibrium Model, an important tool for coastal resource managers. Sampling occurred at Spartina alterniflora-dominated salt marsh sites in North Inlet, a relatively pristine estuary near Georgetown, SC on the SE coast of the United States. North Inlet is a tidally-dominated, bar-built estuary, with a semi-diurnal mixed tide and a tidal range of 1.4m. The 25-km2 estuary is comprised of about 20.5 km2 of intertidal salt marsh and mudflats, and 4.5 km2 of open water. Sampling began at one location in 1984, and at three additional locations in 1986. Sampling occurred approximately monthly through 2020. The study is on-going. There are four sampling locations at two sites. Two locations are in the low marsh; two locations are in the high marsh. One high marsh location had control sampling plots in addition to plots fertilized with nitrogen and phosphorus.
DOI: 10.6073/pasta/6222e47f2eaca962c922f39e3fc2711a
title: Chemistry and isotopic composition of resource pools in lakes of the Sierra Nevada, CA

description: The extent to which terrestrial organic matter supports aquatic consumers remains uncertain because factors regulating resource flows are poorly understood. We sampled 12 lakes throughout the Sierra Nevada (California, USA) spanning large gradients in elevation and size to evaluate how watershed attributes and lake morphometry influence resource flows to lake carbon pools and zooplankton. We found that the size and composition of carbon pools in lakes were often more strongly determined by watershed or lake features rather than by elevational position. Using three different tracers of resource origin (δ13C, Δ14C, C:N ratio), we found terrestrial contributions to most lake resource pools (DOC, POM, sediments) and pelagic consumers (zooplankton) were more strongly related to local-scale watershed features such as vegetation cover or watershed area:lake area rather than to elevation. Landscape patterns in multiple tracers indicated consistent contribution of within-lake C sources to bulk resource pools across elevations (POM, sediments, zooplankton). δ13C-enrichment of lake C pools and overlap with δ13C of terrestrial resources can arise due to reduced fractionation of 13C by phytoplankton under CO2 limitation, therefore we recommend careful consideration of potential environmental drivers when interpreting among-lake patterns in δ13C. Our findings emphasize the importance of local-scale variation in mediating terrestrial contributions to lake food webs.
DOI: 10.6084/m9.figshare.16863572
title: Distribution of gold nanoparticles into the brain: a systematic review and meta-analysis

description: Despite the widespread use of gold nanoparticles (GNPs), there is no consensus on their distribution to different tissues and organs. The present systematic review and meta-analysis addresses the accumulation of GNPs in brain tissue. Extensive searches were conducted in electronic databases, Medline, Web of Science, EMBASE, and Scopus. Based on inclusion and exclusion criteria, primary and secondary screening was performed. The value of brain accumulation of gold nanoparticle (the percentage of the injection dose of GNPs/gram of brain tissue that applied as effect size (ES) in analysis) and the standard error of the mean were extracted from articles and analyzed by calculating the pooled ES and the pooled confidence interval (CI) using STATA software. <i>p</i><b> </b>≤ 0.05 was considered significant. Thirty-eight studies were included in the meta-analysis. The results showed that the amount of GNPs was 0.06% of the injection dose/gram of brain tissue (ES = 0.06, � CI: 0.06–0.06, <i>p</i> p p
DOI: 10.5281/zenodo.5549501
title: Integer topological defects organize stresses driving tissue morphogenesis

description: Raw data files
DOI: 10.5281/zenodo.5549500
title: Integer topological defects organize stresses driving tissue morphogenesis

description: Raw data files
DOI: 10.5281/zenodo.5734967
title: NDVI, nocturnal road traffic noise and traffic flow over the canton of Geneva

description: This dataset relates the spatial distribution of several environmental variables (including NDVI and nocturnal road traffic noise) over the territory of the canton of Geneva (Switzerland) with the aim of studying the potential attenuation effect of vegetation on road traffic noise. Traffic flow measurement points are in this regard also included. The dataset contains two distinct group of files. The first one (hec_grid_ge) contains the hectometric vector grid discretization of the canton of Geneva excluding Lake Geneva. Each cell is characterized by the mean, median and standard deviation of several environmental variables (NDVI, nocturnal road traffic noise, daily road traffic noise and land surface temperature). In addition, BiLISA local Moran's I, p-value and spatial association type for the spatial correlation of median NDVI and spatial lag of median nocturnal road traffic noise are defined for each cell. The second group of files (traffic_ge) contains the traffic flow measurements points which are characterized with "hec_grid_ge" layer variables of the hectometric cell to which they belong to.
DOI: 10.5281/zenodo.5734966
title: NDVI, nocturnal road traffic noise and traffic flow over the canton of Geneva

description: This dataset relates the spatial distribution of several environmental variables (including NDVI and nocturnal road traffic noise) over the territory of the canton of Geneva (Switzerland) with the aim of studying the potential attenuation effect of vegetation on road traffic noise. Traffic flow measurement points are in this regard also included. The dataset contains two distinct group of files. The first one (hec_grid_ge) contains the hectometric vector grid discretization of the canton of Geneva excluding Lake Geneva. Each cell is characterized by the mean, median and standard deviation of several environmental variables (NDVI, nocturnal road traffic noise, daily road traffic noise and land surface temperature). In addition, BiLISA local Moran's I, p-value and spatial association type for the spatial correlation of median NDVI and spatial lag of median nocturnal road traffic noise are defined for each cell. The second group of files (traffic_ge) contains the traffic flow measurements points which are characterized with "hec_grid_ge" layer variables of the hectometric cell to which they belong to.