cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.dncjsxm7t
title: Data from: Antibiotic legacies shape the temperature response of soil microbial communities

description: Soil microbial communities are vulnerable to global change factors and
 land management decisions; these factors can therefore affect
 microbially-mediated ecosystem functions. Increasingly, multiple stressors
 are considered in investigations of ecological response to disturbances.
 Here, we investigate how historical exposure to antibiotics affects the
 soil microbial response to a subsequent temperature change. In-situ
 antibiotic exposure initially increased soil respiration; however, this
 effect diminished over time. A subsequent incubation experiment showed
 that historical antibiotic exposure caused an acclimation-like response to
 increasing temperature. This response was likely driven by a differential
 response in the microbial community of antibiotic-exposed soils. Microbial
 communities exposed to antibiotics tended to be dominated by
 slower-growing, oligotrophic taxa at higher temperatures. Therefore,
 historical exposure to one stressor is likely to influence the microbial
 community to subsequent stressors. To predict the response of soils to
 future stress, particularly increasing soil temperatures, historical
 context is necessary.
description: # Data from: Antibiotic legacies shape the temperature response of soil
 microbial communities
 [https://doi.org/10.5061/dryad.dncjsxm7t.](https://doi.org/10.5061/dryad.dncjsxm7t) This dataset stems from a multi-year field experiment and subsequent incubation experiment with experimentally manipulated soils. ## Description of the data and file structure Data (Wepking_et_al_2024_STARSII.xlsx) are structured by incubation microcosm and subsequent soil respiration measurements that took place over approximately two months. Integrals of respiration measurements were subsequently calculated to estimate the total amount of carbon respired over the course of the incubation experiment. Some individual respiration measurements were absent; as a result, those time points were omitted from integration. Null = missing measurement at that time point. ID – Sample identifier (e.g., 1-A, 2-A). Each row is one experimental unit. Temp – Temperature value used in the experiment (numeric, e.g., 15). TempC – Temperature condition label (e.g., C15 = 15 °C). Treatment – Treatment applied to the sample (e.g., NMC, Con (control), Ceph, Pir, RawCeph, RawPir). Block – Experimental block (e.g., B1, B2), used to control variability. TechRep – Technical replicate number within a block. AUC (Area Under the Curve) for respective days SAT (Sequential Accumulated Total) metrics for the respective day SIR measured before/after treatment/event
DOI: 10.5061/dryad.2bvq83c09
title: Data from: A new, large Permian Parelmoidae (Insecta, Megasecopteromorpha, Diaphanopterodea) found in Shanxi Province (China)

description: The Parelmoidae is an insect family belonging to the extinct order
 Diaphanopterodea, itself belonging to the larger taxon
 Megasecopteromorpha. Although generally rare, representatives of this
 family are a typical component of Permian environments, and more
 particularly in the Cisuralian, with occurrence in classical localities
 such as Obora, Elmo & Midco, and Chekarda. Here we describe a new
 Parelmoidae, Grandelmoa jingqii n. gen., sp. nov. known from a
 well-preserved, isolated wing discovered from a new locality, namely the
 Zhiyu Village (Shanxi Formation; Shanxi Province, China). Its wing
 venation is best explained by a translocation (as it is, of MP branches
 onto CuA), a phenomenon yet rarely documented among palaeopteran taxa. The
 new species occurs to be, by a small amount, the largest Permian
 Diaphanopterodea known to date.
description: # Data from: A new, large Permian Parelmoidae (Insecta,
 Megasecopteromorpha, Diaphanopterodea) found in Shanxi Province (China)
 [https://doi.org/10.5061/dryad.2bvq83c09](https://doi.org/10.5061/dryad.2bvq83c09) ## Description of the data and file structure The dataset contains four RTI (Reflectance Transformation Imaging) files of the whole right forewing and its basal part of the fossil insect specimen CNU-DIA-SS-2024001 (Zhiyu Village, China), holotype of *Grandelmoa jingqii* Xu, Yang, Oyama, Ren & Béthoux sp. nov. in this study. The RTI files (CNU-DIA-SS-2024001a_base.rti, CNU-DIA-SS-2024001a.rti, CNU-DIA-SS-2024001b_base.rti, and CNU-DIA-SS-2024001b.rti) composing this dataset were derived from 4 different sets of 42 (side a base), 54 (side a), 42 (side b base), and 42 (side b) photographs obtained using a light dome of about 30 cm in diameter and equipped with 42, 54, 42, and 42 LEDs, respectively. All the light dome and camera (a Canon EOS 5DS equipped with a MP-E 65 mm macro lens, all Canon, Tokyo, Japan) were driven by a control box (dome and control box, Flydome, Paris, France). Obtained images were then batch-optimized using Adobe Photoshop CS6 and were further compiled into an RTI file using the RTI Builder software v. 2.0.2 using the HSH fitter (software freely available from Cultural Heritage Imaging, San Francisco, CA, USA). ## Code/Software The RTI file composing this dataset can be opened using RTIviewer (software freely available from Cultural Heritage Imaging, San Francisco, CA, USA).
DOI: 10.5061/dryad.jq2bvq8jk
title: Text understanding in GPT-4 vs humans

description: We examine whether a leading AI system GPT-4 understands text as well as
 humans do, first using a well-established standardized test of discourse
 comprehension. On this test, GPT-4 performs slightly, but not
 statistically significantly, better than humans given the very high level
 of human performance. Both GPT-4 and humans make correct inferences about
 information that is not explicitly stated in the text, a critical test of
 understanding. Next, we use more difficult passages to determine whether
 that could allow larger differences between GPT-4 and humans. GPT-4 does
 considerably better on this more difficult text than do the high school
 and university students for whom these passages are designed, as admission
 tests of student reading comprehension. Deeper exploration of GPT-4’s
 performance on material from one of these admission tests reveals
 generally accepted signatures of genuine understanding, namely
 generalization and inference.
description: The dataset is comprised of text responses from GPT-4 after
 reading passages of text. It is scored and organized in
 folders. 
description: # Stored data from GPT-4 [https://doi.org/10.5061/dryad.jq2bvq8jk(opens in
 new window)](https://doi.org/10.5061/dryad.jq2bvq8jk) The top-level folder
 holds two subfolders, Section 2 and Section 3, referring to sections of
 the results in the manuscript.  ## Description of the data and file
 structure ### section 2 The Section 2 folder has 2 subfolders, one
 (`discourse comprehension data main expt`) dealing with an experiment
 wherein GPT-4 reads 11 stories from the Discourse Comprehension Test and
 responds with textual answers to 8 yes/no questions per story. This
 subfolder contains a Word document for each of the 11 stories which
 includes the prompt and questions given to GPT-4, the question types and
 correct answers, and the answers given by GPT-4. There is also a Word
 document describing abbreviations (`Abbreviations in the score correct
 file of section 2 data`) used in the scoring of the responses and another
 file describing the scoring (`score correct.xlsx`). The second subfolder
 (`implicit main ideas expt`) concerns an experiment in which GPT-4 is
 encouraged to summarize the story and make inferences from the text. There
 is a Word file for each of the 11 stories presenting GPT-4’s textual
 responses. We note each inference in yellow background and count the
 number of inferences. Another file (`inferences mean sd range.xlsx`)
 presents a statistical analysis of the numbers of inferences. ### section
 3 The Section 3 subfolder concerns GPT responses to 14 multiple-choice
 questions from an LSAT test, used for students applying for admission to
 top US law schools. The topics are pop art, climate change, aboriginal
 rights, and potential speculative bubbles in tulip markets. GPT-4 gets all
 14 questions correct but is also asked to justify its answers. The
 resulting GPT-4 responses are scored for going beyond the stated literal
 text, in the form of the processes of generalization and inference; these
 are identified with yellow backing.
DOI: 10.5061/dryad.z8w9ghxnr
title: Data from: Anisogamy and the Darwin-Bateman paradigm

description: The Darwin-Bateman paradigm advanced as the central concept to explain the
 evolutionary origin of sex differences. However, debates regarding its
 theoretical underpinnings persist, particularly with respect to the role
 of anisogamy in sexual selection. The theoretical work presented by
 Lehtonen and Parker (2024) suggests that the initial split in gamete
 production rate drives sex differences in sexual selection but that any
 further variation in the degree of anisogamy is not expected to alter the
 strength of sexual selection in males and females. Here, I discuss the
 historical background of a recently emerged controversy and present
 empirical data that corroborate the theoretical predictions. Lehtonen and
 Parker’s contribution refines our understanding of the Darwin-Bateman
 paradigm by providing a broad theory for large-scale patterns of sex
 differences that can be observed in nature. Further understanding of how
 demographic and environmental factors influence sexual selection is
 essential to predict the vast diversity of sex differences across the tree
 of life, beyond the primordial impact of anisogamy.
description: This dataset combines information obtained from two pervious
 studies: Mokos, J., Scheuring, I., Liker, A.,
 Freckleton, R.P. & Székely, T. (2021) Degree of anisogamy is
 unrelated to the intensity of sexual selection. Scientific Reports, 11,
 19424. Janicke, T., Häderer, I.K., Lajeunesse, M.J.
 & Anthes, N. (2016) Darwinian sex roles confirmed across the
 animal kingdom. Science Advances, 2, e1500983. Only the
 Bateman gradient data can be published here. Data on gametic investment
 bias (GIB) and gametic size bias (GSB) can be requested from the author of
 this article or from the authors of Mokos et al. (2021).
description: # Data from: Anisogamy and the Darwin-Bateman paradigm
 [https://doi.org/10.5061/dryad.z8w9ghxnr](https://doi.org/10.5061/dryad.z8w9ghxnr) The dataset combines previously published data by Janicke et al. (2016) and Mokos et al. (2021). Files include one data file containing estimates of Bateman gradients (Janicke_2024_Dataset_A.csv), the phylogeny of all sampled species in NEWICK format (Janicke_2024_Phylogeny.nwk) and the R script (Janicke_2024_RScript.R) used to run the meta-analysis. ## Description of the data and file structure The data file 'Janicke*_*2024_Dataset_A.csv' contains the following variables: Obs_ID: Observation identifier Study_ID: Study identifier Species_Phylo: Species name Male_r: Pearson correlation coefficient of male Bateman gradient Male_r_var: Sampling variance of Male_r Female_r: Pearson correlation coefficient of female Bateman gradient Female_r_var: Sampling variance of Female_r Data on Gametic investment bias (GIB) and Gamete size bias (GSB) can be requested by the author of Janicke (2024) or the authors of Mokos et al. (2021).
DOI: 10.15468/dl.scfujx
title: Occurrence Download

description: A dataset containing 24734 records in GBIF matching the query:
SELECT
 '494' AS fish_cell,
 GBIF_MGRSCode(1000, decimalLatitude, decimalLongitude, 0) AS cell, -- NO randomization
 COUNT(DISTINCT speciesKey) AS species_richness
 FROM occurrence
 WHERE hasCoordinate = TRUE
 AND speciesKey IS NOT NULL
 AND NOT ARRAY_CONTAINS(issue, 'ZERO_COORDINATE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_OUT_OF_RANGE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_INVALID')
 AND NOT ARRAY_CONTAINS(issue, 'COUNTRY_COORDINATE_MISMATCH')
 AND decimalLatitude &gt;= 51.21395264452012
 AND decimalLatitude &lt;= 56.135291543055025
 AND decimalLongitude &gt;= -136.71469357869645
 AND decimalLongitude &lt;= -120.26588429503694
 AND "year" &gt;= 2015
 AND "year" &lt;= 2026
 AND (coordinateUncertaintyInMeters &lt;= 100 OR coordinateUncertaintyInMeters IS NULL)
 GROUP BY fish_cell, cell

 The dataset's 24734 records were derived from 123 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004082-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.w3r228112
title: Dataset 1 of 5 from: Atomistic mechanisms of the regulation of small conductance Ca 2+ -activated K + channel (SK2) by PIP2

description: Dataset submission 1 of 5. Please see the parent dataset for more
 details: https://doi.org/10.5061/dryad.ksn02v7dj
description: Dataset submission 1 of 5. Please see the parent dataset or
 published manuscript for more details: https://doi.org/10.5061/dryad.ksn02v7dj 
description: # Dataset 1 of 5 from: Atomistic mechanisms of the regulation of small
 conductance Ca 2+ -activated K + channel (SK2) by PIP2
 [https://doi.org/10.5061/dryad.w3r228112](https://doi.org/10.5061/dryad.w3r228112) ## Description of the data and file structure This is a child dataset 1 of 5. Please refer to the parent dataset for a detailed description: https://doi.org/10.5061/dryad.ksn02v7dj
DOI: 10.5061/dryad.z34tmpgp8
title: Phylogenetic analysis of 218 protein sequences that bear sequence similarity to F. prausnitzii FAAH

description: Here we characterize a fatty acid amide hydrolase (FAAH) from
 Faecalibacterium prausnitzii (Fp), an organism whose abundance increases
 in the gut microbiota of undernourished Bangladeshi children
 treated with a microbiota-directed complementary food (MDCF) that
 improves their ponderal and linear growth. Assays of purified Fp FAAH
 revealed bidirectional activity, with hydrolysis of multiple
 N-acylamides (including quorum-sensing N-acyl homoserine
 lactones) and synthesis of N-acyl amino acids. Fp FAAH is structurally
 unrelated to its human counterpart, and insensitive to inhibitors
 of the mammalian enzyme. Oleoylarginine/oleoylhistidine, the
 major N-acyl amino acid products of oleoylethanolamide metabolism
 by Fp FAAH, were characterized for their effects on intestinal gene
 expression in gnotobiotic mice. Analyses of fecal samples from
 MDCF-treated children disclosed significant negative correlations
 between levels of an Fp strain encoding this FAAH, Fp FAAH
 gene expression, and levels of oleoylethanolamide/oleoylarginine.
 These results suggest Fp FAAH regulates intestinal levels of
 N-acylated amine signaling molecules, with potential
 therapeutic implications.
description: # Phylogenetic analysis of 218 protein sequences that bear sequence
 similarity to *F. prausnitzii* FAAH
 [https://doi.org/10.5061/dryad.z34tmpgp8](https://doi.org/10.5061/dryad.z34tmpgp8) **Phylogenetic analysis of *Faecalibacterium prausnitzii* FAAH orthologs** Sequence similarity (BLASTP) searches were conducted using *Faecalibacterium prausnitzii* FAAH (*CGOBPECO_01956*) as a query and strict thresholds (Score≥400, Identity≥50%, e-value≤1E-6). A multiple sequence alignment of the resulting 218 proteins was generated using MUSCLE and a phylogenetic tree was estimated using pairwise distances and the neighbor-joining method. Node repeatability in the tree was assessed via 100 bootstrap replicates, and the tree was visualized using the *plot.phylo* function implemented in the ape package in R. ## Description of the data and file structure **A)** **20240509 CGOBPECO_01956 FASTA Score 400 Identity 50percent EDITED.txt:** This file contains the 218 protein sequences with strict thresholds (Score&gt;400, identity&gt;=50% and e-value&lt;1E-6). **B)** **Fp_FAAH_NJ_Tree_with_100_bootstraps.nexus:** This NEXUS file is the phylo object that comprises the phylogenetic tree with 218 tips and 216 internal nodes. ## Sharing/Access information The protein sequences were obtained by BLASTP searches using NCBI's non-redundant database.
DOI: 10.18112/openneuro.ds006444.v1.0.10
title: Benchmarking the Impact of Anatomical Segmentation on In Vivo Magnetic Resonance Spectroscopy
DOI: 10.18150/mrkbny
title: Data for manuscript entitled 'Cavity-enhanced spectroscopy in the deep cryogenic regime for quantum sensing and metrology'

description: The contents of this dataset allows one to recreate the results from aforementioned article.
DOI: 10.5061/dryad.wpzgmsbx5
title: Data and code for: Carnivore exclosures to protect sheep affect the distribution of a wild cervid

description: In southeast Norway, two carnivore exclosures were set up to protect sheep
 from large carnivores. The fences consisted of wire strands that were
 powered during the summer grazing months. While one of the fences (study
 area Trysil) was put to the ground from fall to spring, the other (study
 area Grue) was still mounted, but now powered during non-grazing season.
 We tested whether moose (Alces alces) distribution and density was
 affected by the exclosures, by counting fecal pellet groups inside and
 outside of the exclosures (treatment) during spring and fall 2022. The
 dataset contains the number of fecal pellet groups of different cervid
 species and domestic sheep inside and outside of the exclosures during two
 seasons in both study areas, and some habitat covariates.
description: Fecal pellet groups were counted on sample squares consisting of
 five sample plots each. Sample plots were 10 m<sup>2</sup> for
 roe deer (<em>Capreolus capreolus</em>) and 100
 m<sup>2</sup> for moose, red deer (<em>Cervus
 elaphus</em>) and sheep. For each sample square, the main predictor
 variables describe the season (winter 2021/22 or summer 2022), study area
 (Trysil or Grue), and the treatment (inside or outside of the carnivore
 exclosure). In addition, there are several covariates describing the
 habitat of the square. A more detailed description of the study areas,
 sampling methods and variables is available in the publication (https://doi.org/10.1002/wlb3.01301).
description: # Data and code for: Carnivore exclosures to protect sheep affect the
 distribution of a wild cervid ### File List Data_Forti_Dryad.csv
 Code_Forti_Dryad.R ### File Descriptions **Data_Forti_Dryad.csv**
 Variables: Square_id: Unique identifier of the sample squares StudyArea:
 The name of the Norwegian municipality where the carnivore exclosure was
 situated (Trysil, Grue) Season: The season of fecal pellet group
 accumulation (Winter, Summer) Treatment: The placement of the square in
 relation to the carnivore exclosure (Inside, Outside) N_Moose: Count of
 fecal pellet groups of moose N_Sheep: Count of fecal pellet groups of
 sheep N_Red: Count of fecal pellet groups of red deer N_Roe: Count of
 fecal pellet groups of roe deer Days: Length of season (in days) bog:
 Number of sample plots dominated by bog (integer, 0 to 5) young_forest:
 Number of sample plots dominated by young forest stands (integer, 0 to 5)
 mean_northness: Northness averaged across sample plots (continuous, -1 to
 +1) mean_eastness: Eastness averaged across sample plots (continuous, -1
 to +1) mean_slope: Slope averaged across sample plots (continuous,
 degrees) elevdev: Elevation (m a.s.l.) relative to average elevation of
 the study area, averaged across sample plots (continuous, meters)
 **Code_Forti_Dryad.R** Code applied to analyse the data for the
 manuscript.
DOI: 10.15468/dl.qdn5fx
title: Occurrence Download

description: A dataset containing 6438453 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Spatula clypeata"
 ]
}

 The dataset includes 6438453 records from 1787 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004069-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wem4t9
title: Occurrence Download

description: A dataset containing 524 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Human Observation, Machine Observation, Occurrence evidence, Observation)",
 "TaxonKey is one of (Masticophis flagellum (Shaw, 1802))",
 "Country is one of (Anguilla, Antigua and Barbuda, Argentina, Aruba, Bahamas, Barbados, Belize, Bolivia (Plurinational State of), Bonaire, Sint Eustatius and Saba, Bouvet Island, Brazil, Cayman Islands, Chile, Colombia, Costa Rica, Cuba, Curaçao, Dominica, Dominican Republic, Ecuador, El Salvador, Falkland Islands (Malvinas), French Guiana, Grenada, Guadeloupe, Guatemala, Guyana, Haiti, Honduras, Jamaica, Martinique, Mexico, Montserrat, Nicaragua, Panama, Paraguay, Peru, Puerto Rico, Saint Barthélemy, Saint Kitts and Nevis, Saint Lucia, Saint Martin (French part), Saint Vincent and the Grenadines, Sint Maarten (Dutch part), South Georgia and the South Sandwich Islands, Suriname, Trinidad and Tobago, Turks and Caicos Islands, Uruguay, Venezuela (Bolivarian Republic of), Virgin Islands (British), Virgin Islands (U.S.))"
 ]
}

 The dataset includes 524 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016779-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8yr79e
title: Occurrence Download

description: A dataset containing 8633 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Human Observation, Machine Observation, Occurrence evidence, Observation)",
 "TaxonKey is one of (Masticophis flagellum (Shaw, 1802))",
 "Country is one of (Bermuda, Canada, Greenland, Saint Pierre and Miquelon, United States of America)"
 ]
}

 The dataset includes 8633 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016777-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7y3wdt
title: Occurrence Download

description: A dataset containing 4538 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (China, Chinese Taipei, Macao, Hong Kong)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Phyllostachys Siebold & Zucc.",
 "Year 1000-2025"
 ]
}

 The dataset includes 4538 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016780-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wcjwys
title: Occurrence Download

description: A dataset containing 95548 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is India",
 "TaxonKey is Sterna aurantia J.E.Gray, 1831"
 ]
}

 The dataset includes 95548 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016754-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.j5ejyb
title: Occurrence Download

description: A dataset containing 36448 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Streptomyces Waksman & Henrici, 1943"
 ]
}

 The dataset includes 36448 records from 425 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016776-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.