cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.au7vpv
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Indotyphlops meszoelyi (Wallach, 1999)"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0277265-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ng3dqs
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cattleya ×tenuata V.P.Castro & Campacci ex Braem"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0127860-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4exidm
title: Occurrence Download

description: A dataset containing 3278 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lacerta bilineata Daudin, 1802"
 ]
}

 The dataset includes 3278 records from 30 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034088-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3gv2ve
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heterodactylus imbricatus Spix, 1825"
 ]
}

 The dataset includes 27 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0280189-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9vb4zj
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cattleya ×verelii (Rolfe) Van den Berg"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0127882-230224095556074/datasets/export for details.
DOI: 10.15468/dl.aexkan
title: Occurrence Download

description: A dataset containing 374 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Amauropelta retusa (Sw.) Pic.Serm."
 ]
}

 The dataset includes 374 records from 54 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020540-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wvsddw
title: Occurrence Download

description: A dataset containing 5713426 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is China",
 "Year 1960-2023"
 ]
}

 The dataset includes 5713426 records from 3494 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0127887-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.24fbdu
title: Occurrence Download

description: A dataset containing 84819 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 {
 "or" : [
 "TaxonKey is Aparatrigona impunctata (Ducke, 1916)",
 "TaxonKey is Camargoia Moure, 1989",
 "TaxonKey is Celetrigona Moure, 1950",
 "TaxonKey is Cephalotrigona Schwarz, 1940",
 "TaxonKey is Dolichotrigona Moure, 1950",
 "TaxonKey is Duckeola Moure, 1944",
 "TaxonKey is Friesella Moure, 1946",
 "TaxonKey is Frieseomelitta Ihering, 1912",
 "TaxonKey is Geotrigona Moure, 1943",
 "TaxonKey is Nannotrigona Cockerell, 1922",
 "TaxonKey is Nogueirapis Moure, 1953",
 "TaxonKey is Oxytrigona Cockerell, 1917",
 "TaxonKey is Parapartamona Schwarz, 1948",
 "TaxonKey is Paratrigona Schwarz, 1938",
 "TaxonKey is Paratrigonoides Camargo & Roubik, 2005",
 "TaxonKey is Partamona Schwarz, 1939",
 "TaxonKey is Plebeia Schwarz, 1938",
 "TaxonKey is Proplebeia Michener, 1982",
 "TaxonKey is Ptilotrigona Moure, 1951",
 "TaxonKey is Scaptotrigona Moure, 1942",
 "TaxonKey is Scaura Schwarz, 1938",
 "TaxonKey is Schwarziana Moure, 1943",
 "TaxonKey is Schwarzula Moure, 1946",
 "TaxonKey is Tetragona Lepeletier & Audinet-Serville, 1828",
 "TaxonKey is Tetragonisca Moure, 1946",
 "TaxonKey is Trichotrigona Camargo & Moure, 1983",
 "TaxonKey is Trigona Jurine, 1807",
 "TaxonKey is Trigonisca Moure, 1950"
 ]
 }
 ]
}

 The dataset includes 84819 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038122-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6gyj8d
title: Occurrence Download

description: A dataset containing 112 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "DatasetKey is iNaturalist Research-grade Observations",
 "GadmGid is CHE.9_1",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Animalia"
 ]
}

 The dataset includes 112 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0332615-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.0ykmue
title: Occurrence Download

description: A dataset containing 1277 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lloydia serotina (L.) Rchb."
 ]
}

 The dataset includes 1277 records from 63 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002444-160430102343922/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rfvdcg
title: Occurrence Download

description: A dataset containing 109908 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Lolium multiflorum Lam.)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 109908 records from 1502 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0054426-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9ezusl
title: Occurrence Download

description: A dataset containing 2956 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Humulus japonicus Siebold & Zucc."
 ]
}

 The dataset includes 2956 records from 131 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0030918-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cyfe8k
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cephalotes persimplex De Andrade, 1999"
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024486-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s88ycn
title: Occurrence Download

description: A dataset containing 752674 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is North America",
 "TaxonKey is Orchidaceae"
 ]
}

 The dataset includes 752674 records from 588 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024431-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13819640
title: Landscape Education at University: A Quasi-Experimental Study on the Effectiveness of an Outdoor Lab for Trainee Teachers

description: The European Landscape Convention of 2000 identifies landscape education as a fundamental action for the protection and enhancement of landscapes. Pedagogical literature emphasizes that landscape education should aim to foster a positive attitude towards the landscape and should be pursued through education “in” the landscape, conducted via field-based experiential strategies. This study examines the impact of a landscape education approach on the attitudes of primary school teachers in training towards the landscape. A quasi-experimental study with pre-test and post-test was conducted, involving an experimental group (N = 102) in an outdoor digital storytelling lab and a control group (N = 114) in an indoor edition. Pre-test results showed no significant differences between the two groups in attitudes toward rural/natural landscapes, urban landscapes, and active engagement with the landscape. Post-test results revealed significant increases in scores only for the experimental group. These findings suggest that active, field-based landscape education can promote an appreciation of landscapes among future teachers. Future research should investigate whether teachers can promote similar attitudes in their students using analogous teaching strategies.
DOI: 10.5281/zenodo.13819641
title: Landscape Education at University: A Quasi-Experimental Study on the Effectiveness of an Outdoor Lab for Trainee Teachers

description: The European Landscape Convention of 2000 identifies landscape education as a fundamental action for the protection and enhancement of landscapes. Pedagogical literature emphasizes that landscape education should aim to foster a positive attitude towards the landscape and should be pursued through education “in” the landscape, conducted via field-based experiential strategies. This study examines the impact of a landscape education approach on the attitudes of primary school teachers in training towards the landscape. A quasi-experimental study with pre-test and post-test was conducted, involving an experimental group (N = 102) in an outdoor digital storytelling lab and a control group (N = 114) in an indoor edition. Pre-test results showed no significant differences between the two groups in attitudes toward rural/natural landscapes, urban landscapes, and active engagement with the landscape. Post-test results revealed significant increases in scores only for the experimental group. These findings suggest that active, field-based landscape education can promote an appreciation of landscapes among future teachers. Future research should investigate whether teachers can promote similar attitudes in their students using analogous teaching strategies.
DOI: 10.15468/dl.mmputk
title: Occurrence Download

description: A dataset containing 3698 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is India",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Panthera Oken, 1816",
 "Year 2014-2024"
 ]
}

 The dataset includes 3698 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024488-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.57754/fdat.8h9cd-p4024
title: Eye-tracking during reading study "Manx"

description: The aim of the study is to determine whether the copula's situational argument is undespecified (Underspecification Account) or whether it is specified to a stative interpretation (State Account). In some contexts, e.g. in combination with particular adjectives, the copula can have an agentive interpretation. The study had a 2x2 design with factors verb type (so ... sein vs. sich verhalten) and conjunction type (weil vs. um zu).
60 items were combined with 246 fillers and distributed over 4 pseudorandomised lists via the Latin square design. The order of the sentences was counterballanced. The experiment was preceeded by 9 exercise trials. There were at least two fillers between any two items. The experimental session included a break in the middle of the experiment. The first 3 sentences at the start of the experiment and after the break were fillers After a third of the sentences, a simple comprehension question appeard (Wer oder was wurde im Satz erwähnt? "Who or what was mentioned in the sentence?"). The sentences were divided into 7 IAs.
The participants were seated in a quiet lab in front of a computer screen with their heads in a headrest. They used the keyboard and a gamepad to navigate in the experiment. After the main session, a second procedure measured the participants' reading span task. The reading time data was recorded with an SR Research Eye Link 1000.
description: Research carried out in work package A01 of the SFB 833.
DOI: 10.15468/dl.2k29e4
title: Occurrence Download

description: A dataset containing 179585 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is ABV - Common breeding birds in Flanders, Belgium (post 2016)"
 ]
}

 The dataset includes 179585 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024433-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.peyg32
title: Occurrence Download

description: A dataset containing 737947 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Oceania",
 "TaxonKey is Orchidaceae"
 ]
}

 The dataset includes 737947 records from 248 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024432-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13819608
title: Deep learning for rapid analysis of cell divisions in vivo during epithelial morphogenesis and repair

description: Database for paper:

doi.org/10.7554/eLife.87949.2

The scripts for using our deep learning algrithm to detect cell divisions via a napari plugin can be found here:

https://github.com/turleyjm/cell-division-dl-plugin

The notebooks and analysis for training and evaluating the model are also given in this repository.
DOI: 10.5281/zenodo.13819609
title: Deep learning for rapid analysis of cell divisions in vivo during epithelial morphogenesis and repair

description: Database for paper:

doi.org/10.7554/eLife.87949.2

The scripts for using our deep learning algrithm to detect cell divisions via a napari plugin can be found here:

https://github.com/turleyjm/cell-division-dl-plugin

The notebooks and analysis for training and evaluating the model are also given in this repository.
DOI: 10.6084/m9.figshare.26319010
title: Matrix Completion When Missing Is Not at Random and Its Applications in Causal Panel Data Models

description: This article develops an inferential framework for matrix completion when missing is not at random and without the requirement of strong signals. Our development is based on the observation that if the number of missing entries is small enough compared to the panel size, then they can be estimated well even when missing is not at random. Taking advantage of this fact, we divide the missing entries into smaller groups and estimate each group via nuclear norm regularization. In addition, we show that with appropriate debiasing, our proposed estimate is asymptotically normal even for fairly weak signals. Our work is motivated by recent research on the Tick Size Pilot Program, an experiment conducted by the Security and Exchange Commission (SEC) to evaluate the impact of widening the tick size on the market quality of stocks from 2016 to 2018. While previous studies were based on traditional regression or difference-in-difference methods by assuming that the treatment effect is invariant with respect to time and unit, our analyses suggest significant heterogeneity across units and intriguing dynamics over time during the pilot program. Supplementary materials for this article are available online, including a standardized description of the materials available for reproducing the work.
DOI: 10.6084/m9.figshare.26319010.v1
title: Matrix Completion When Missing Is Not at Random and Its Applications in Causal Panel Data Models*

description: This paper develops an inferential framework for matrix completion when missing is not at random and without the requirement of strong signals. Our development is based on the observation that if the number of missing entries is small enough compared to the panel size, then they can be estimated well even when missing is not at random. Taking advantage of this fact, we divide the missing entries into smaller groups and estimate each group via nuclear norm regularization. In addition, we show that with appropriate debiasing, our proposed estimate is asymptotically normal even for fairly weak signals. Our work is motivated by recent research on the Tick Size Pilot Program, an experiment conducted by the Security and Exchange Commission (SEC) to evaluate the impact of widening the tick size on the market quality of stocks from 2016 to 2018. While previous studies were based on traditional regression or difference-in-difference methods by assuming that the treatment effect is invariant with respect to time and unit, our analyses suggest significant heterogeneity across units and intriguing dynamics over time during the pilot program.
DOI: 10.6084/m9.figshare.26359686
title: Statistical Inference of Cell-Type Proportions Estimated from Bulk Expression Data

description: There is a growing interest in cell-type-specific analysis from bulk samples with a mixture of different cell types. A critical first step in such analyses is the accurate estimation of cell-type proportions in a bulk sample. Although many methods have been proposed recently, quantifying the uncertainties associated with the estimated cell-type proportions has not been well studied. Lack of consideration of these uncertainties can lead to missed or false findings in downstream analyses. In this article, we introduce a flexible statistical deconvolution framework that allows a general and subject-specific covariance of bulk gene expressions. Under this framework, we propose a decorrelated constrained least squares method called DECALS that estimates cell-type proportions as well as the sampling distribution of the estimates. Simulation studies demonstrate that DECALS can accurately quantify the uncertainties in the estimated proportions whereas other methods fail. Applying DECALS to analyze bulk gene expression data of post mortem brain samples from the ROSMAP and GTEx projects, we show that taking into account the uncertainties in the estimated cell-type proportions can lead to more accurate identifications of cell-type-specific differentially expressed genes and transcripts between different subject groups, such as between Alzheimer’s disease patients and controls and between males and females. Supplementary materials for this article are available online, including a standardized description of the materials available for reproducing the work.
DOI: 10.6084/m9.figshare.26359686.v2
title: Statistical Inference of Cell-Type Proportions Estimated from Bulk Expression Data

description: There is a growing interest in cell-type-specific analysis from bulk samples with a mixture of different cell types. A critical first step in such analyses is the accurate estimation of cell-type proportions in a bulk sample. Although many methods have been proposed recently, quantifying the uncertainties associated with the estimated cell-type proportions has not been well studied. Lack of consideration of these uncertainties can lead to missed or false findings in downstream analyses. In this article, we introduce a flexible statistical deconvolution framework that allows a general and subject-specific covariance of bulk gene expressions. Under this framework, we propose a decorrelated constrained least squares method called DECALS that estimates cell-type proportions as well as the sampling distribution of the estimates. Simulation studies demonstrate that DECALS can accurately quantify the uncertainties in the estimated proportions whereas other methods fail. Applying DECALS to analyze bulk gene expression data of post mortem brain samples from the ROSMAP and GTEx projects, we show that taking into account the uncertainties in the estimated cell-type proportions can lead to more accurate identifications of cell-type-specific differentially expressed genes and transcripts between different subject groups, such as between Alzheimer’s disease patients and controls and between males and females. Supplementary materials for this article are available online, including a standardized description of the materials available for reproducing the work.
DOI: 10.6084/m9.figshare.26359686.v1
title: Statistical Inference of Cell-type Proportions Estimated from Bulk Expression Data

description: There is a growing interest in cell-type-specific analysis from bulk samples with a mixture of different cell types. A critical first step in such analyses is the accurate estimation of cell-type proportions in a bulk sample. Although many methods have been proposed recently, quantifying the uncertainties associated with the estimated cell-type proportions has not been well studied. Lack of consideration of these uncertainties can lead to missed or false findings in downstream analyses. In this article, we introduce a flexible statistical deconvolution framework that allows a general and subject-specific covariance of bulk gene expressions. Under this framework, we propose a decorrelated constrained least squares method called DECALS that estimates cell-type proportions as well as the sampling distribution of the estimates. Simulation studies demonstrate that DECALS can accurately quantify the uncertainties in the estimated proportions whereas other methods fail. Applying DECALS to analyze bulk gene expression data of post mortem brain samples from the ROSMAP and GTEx projects, we show that taking into account the uncertainties in the estimated cell-type proportions can lead to more accurate identifications of cell-type-specific differentially expressed genes and transcripts between different subject groups, such as between Alzheimer’s disease patients and controls and between males and females.
DOI: 10.15468/dl.r47qng
title: Occurrence Download

description: A dataset containing 181973 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is North America",
 "TaxonKey is Iridaceae"
 ]
}

 The dataset includes 181973 records from 476 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024450-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.