cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.13398065.v3
title: Expression of 197 surface markers and 462 mRNAs in 15281 cells from blood and bone marrow from a young healthy donor

description: seurat v3 object
<strong><br>
ASSAYS</strong>:
AB: Antibody expression data
RNA: mRNA expression data
BOTH: Antibody and mRNA expression matrices concatenated
<br>
<strong>DIMENSIONALITY REDUCTION</strong>
<strong>Projected</strong>: Data was projected on the reference dataset MOFAUMAP coordinates.
<br>
<strong>METADATA</strong>
Batch: Sample1 (Bone marrow) or Sample2 (Blood)<br>

<strong>ct</strong>: Projected cell type (cell type labels from the reference dataset are used).
Idents(object) uses an unsupervised clustering performed on this dataset.<br>

<br>
For the reference dataset, see https://doi.org/10.6084/m9.figshare.13397651.v2
<br>
<strong>Changelog</strong>
v3: Compared to the previous version of the file, projected UMAP coordinates and projected cell type labels were added.<br>
v4: Objects were slimmed to correspond to the information described in our study. Data now only contains relevant dimensions reductions and metadata columns; unused RNA and antibody targets were excluded from the objects.
DOI: 10.6084/m9.figshare.11959935
title: Additional file 3 of Trend analysis of the role of circular RNA in goat skeletal muscle development

description: Additional file 3: Table S1. The summary information of transcriptome.
DOI: 10.6084/m9.figshare.11959941
title: Additional file 4 of Trend analysis of the role of circular RNA in goat skeletal muscle development

description: Additional file 4: Table S2. Identification of all circRNAs and their annotations.
DOI: 10.6084/m9.figshare.11959941.v1
title: Additional file 4 of Trend analysis of the role of circular RNA in goat skeletal muscle development

description: Additional file 4: Table S2. Identification of all circRNAs and their annotations.
DOI: 10.6084/m9.figshare.11959935.v1
title: Additional file 3 of Trend analysis of the role of circular RNA in goat skeletal muscle development

description: Additional file 3: Table S1. The summary information of transcriptome.
DOI: 10.6084/m9.figshare.18230443
title: Additional file 1 of Omics analysis coupled with gene editing revealed potential transporters and regulators related to levoglucosan metabolism efficiency of the engineered Escherichia coli

description: Additional file 1. A total of 2749 proteins identified in the study.
DOI: 10.6084/m9.figshare.18230443.v1
title: Additional file 1 of Omics analysis coupled with gene editing revealed potential transporters and regulators related to levoglucosan metabolism efficiency of the engineered Escherichia coli

description: Additional file 1. A total of 2749 proteins identified in the study.
DOI: 10.5281/zenodo.7514663
title: Mapping the global distribution of C4 vegetation using observations and optimality theory

description: This dataset includes annual C4 vegetation distribution and its uncertainty from 2001 to 2019. We also provide the distribution of C4 natural grasses and C4 crops during the same period, as well as the code and interim dataset to generate the main figures. Please refer to manuscript for more details:

Luo, X., Zhou, H., Satriawan, T.W., Tian, J., Zhao, R., Keenan, T.F., Griffith, D. M., Sitch, S. Smith, N.G. & Still, C.J. (2024). Mapping the global distribution of C4 vegetation using observations and optimality theory. Nature Communications. https://doi.org/10.1038/s41467-024-45606-3.

Update (Nov 2023): we have updated the observational constraint from a linear model to a non-linear model - logistic curve, to better depict how C4 photosynthetic advantage translates into C4 grass coverage changes (C4_distribution_NUS_v2.2.nc).

Update (August 2023): we corrected the issue caused by a bias in the remote sensing grassland base map, and released the version 2 of the C4 vmap (C4_distribution_NUS_v2.nc).

Update (June 2023): we noticed there is a critical issue in the version 1 of our C4 map, due to the quality of remote sensing grassland base map used. We are now working on providing a new version (V2) in the next few months (Jun 2023).
DOI: 10.5281/zenodo.7514664
title: Global C4 distribution estimate constrained by observations and optimality theory

description: (NOTE: please refer to https://zenodo.org/record/8271847 for an updated version). This dataset includes annual C4 distribution and its uncertainty from 1992 to 2016. We also provide the distribution of C4 natural grasses and C4 crops during the same period. Please refer to manuscript for more details (currently in review): Luo, X., Zhou, H., Satriawan, T.W., Tian, J., Keenan, T.F., Sitch, S. & Smith, N.G. Global C4 distribution estimate constrained by observations and optimality theory. In revision. <strong>Correction: </strong>we noticed there is an important error in previous version of our C4 map, due to the quality of remote sensing grassland map used. We are now working on providing a new version (V2) in the next few months (Jun 2023).
DOI: 10.5281/zenodo.8271847
title: Global C4 distribution estimate constrained by observations and optimality theory

description: This dataset includes annual C4 distribution and its uncertainty from 2001 to 2019. We also provide the distribution of C4 natural grasses and C4 crops during the same period. Please refer to manuscript for more details:


Luo, X., Zhou, H., Satriawan, T.W., Tian, J., Zhao, R., Keenan, T.F., Griffith, D. M., Sitch, S. Smith, N.G. & Still, C.J. Global C4 distribution estimate constrained by observations and optimality theory. In revision.


Update (August 2023): we have corrected the issue caused by a bias in the remote sensing grassland based map, and released the version 2 of the C4 map (C4_distribution_NUS_v2.nc)


Update (June 2023): we noticed there is an important error in the version 1 of our C4 map, due to the quality of remote sensing grassland map used. We are now working on providing a new version (V2) in the next few months (Jun 2023).
DOI: 10.6084/m9.figshare.11959947
title: Additional file 5 of Trend analysis of the role of circular RNA in goat skeletal muscle development

description: Additional file 5: Table S3. Differently expressed circRNAs and their annotations during the seven stages.
DOI: 10.6084/m9.figshare.11959947.v1
title: Additional file 5 of Trend analysis of the role of circular RNA in goat skeletal muscle development

description: Additional file 5: Table S3. Differently expressed circRNAs and their annotations during the seven stages.
DOI: 10.20381/ruor-21351
title: On the ecological significance of pollen color: a case study in American trout lily (Erythronium americanum). DATA ARCHIVE

description: Evolutionary ecologists seek to explain the processes that maintain variation within populations. In plants, petal color variation can affect pollinator visitation, environmental tolerance, and herbivore deterrence. Variation in sexual organs may similarly affect plant performance. Within-population variation in pollen color, as occurs in the eastern North American spring ephemeral Erythronium americanum, provides an excellent opportunity to investigate the maintenance of variation in this trait. Although the red/yellow pollen-color polymorphism of E. americanum is widely recognized, it has been poorly documented. Our goals were thus (1) to determine the geographic distribution of the color morphs, and (2) to test the effects of pollen color on components of pollen performance. Data provided by citizen scientists indicated that populations range from monomorphic red, to polymorphic, to monomorphic yellow, but there was no detectable geographic pattern in morph distribution, suggesting morph occurrence cannot be explained by a broad-scale ecological cline. In field experiments, we found no effect of pollen color on the probability of predation by the pollen-feeding beetle Asclera ruficollis, on the ability of pollen to tolerate UV-B radiation, or on siring success (as measured by the fruit set of hand-pollinated flowers). Pollinators, however, exhibited site-specific pollen-color preferences, suggesting they may act as agents of selection on this trait, and, depending on the constancy of their preferences, could contribute to the maintenance of variation. Collectively, our results eliminate some hypothesized ecological effects of pollen color in E. americanum, and identify effects of pollen color on pollinator attraction as a promising direction for future investigation.
DOI: 10.20381/ruor-21043
title: Getting "Beyond the Fence" (ATI reference 17)

description: In 2015, Correctional Service Canada launched a virtual tour promising a 'first-hand' and 'realistic' depiction of life and work inside a federal penitentiary titled Beyond the Fence. Based on an analysis of Access to Information disclosures, we examine the backstage activities that went into the production, marketing, and evaluation of the tour. Drawing on Goffman's (1959) notions of frontstage and backstage, as well as MacCannell's (1973) idea of staged authenticity, we reveal how representations of incarceration and punishment were sanitized to build legitimacy and consent for carceralism. We conclude by reflecting on the need to study the content and form of state representations of penality, and the challenges that representations pose to working toward a future without carceral institutions.
DOI: 10.6084/m9.figshare.12463292.v1
title: Additional file 3 of Whole-genome sequencing of Chinese centenarians reveals important genetic variants in aging WGS of centenarian for genetic analysis of aging

description: Additional file 3: Supplementary Table 2. Significantly correlated genes obtained through SKAT analysis.
DOI: 10.6084/m9.figshare.12463286
title: Additional file 2 of Whole-genome sequencing of Chinese centenarians reveals important genetic variants in aging WGS of centenarian for genetic analysis of aging

description: Additional file 2: Supplementary Table 1. Sequencing quality metrics
DOI: 10.6084/m9.figshare.12463286.v1
title: Additional file 2 of Whole-genome sequencing of Chinese centenarians reveals important genetic variants in aging WGS of centenarian for genetic analysis of aging

description: Additional file 2: Supplementary Table 1. Sequencing quality metrics
DOI: 10.6084/m9.figshare.12463292
title: Additional file 3 of Whole-genome sequencing of Chinese centenarians reveals important genetic variants in aging WGS of centenarian for genetic analysis of aging

description: Additional file 3: Supplementary Table 2. Significantly correlated genes obtained through SKAT analysis.
DOI: 10.6084/m9.figshare.11959953
title: Additional file 6 of Trend analysis of the role of circular RNA in goat skeletal muscle development

description: Additional file 6: Table S4. Stringent conditions differential expression of circRNAs and their annotations identified during the seven stages.
DOI: 10.6084/m9.figshare.11959953.v1
title: Additional file 6 of Trend analysis of the role of circular RNA in goat skeletal muscle development

description: Additional file 6: Table S4. Stringent conditions differential expression of circRNAs and their annotations identified during the seven stages.
DOI: 10.20381/ruor-27566
title: Prison Pandemic Papers - Alberta

description: This dataset was collected through Access to Information requests submitted to the Government of Alberta as part of the "COVID-19: Investigating Canada's Carceral Response to the Coronavirus through the Prison Pandemic Partnership" led by Kevin Walby (Associate Professor, Criminal Justice, University of Winnipeg), Justin Piché (Associate Professor, Criminology, University of Ottawa), and Abby Deshman (Director, Criminal Justice Program, Canadian Civil Liberties Association). Initial triage of this dataset was undertaken by Sarah Speight (PhD Candidate, Geography, University of Ottawa) and Justin Piché.
DOI: 10.20381/ruor-27411
title: Ontario Solicitor General - Response to COVID-19 Information Notes - April 2020 to January 2022

description: This dataset was primarily collected through Freedom of Information requests SOLGEN-2021-02458 and SOLGEN-2021-03323 submitted to the Ontario Ministry of the Solicitor General as part of the "COVID-19: Investigating Canada's Carceral Response to the Coronavirus through the Prison Pandemic Partnership" led by Kevin Walby (Associate Professor, Criminal Justice, University of Winnipeg), Justin Piché (Associate Professor, Criminology, University of Ottawa), and Abby Deshman (Director, Criminal Justice Program, Canadian Civil Liberties Association). Initial triage of this dataset was undertaken by Sarah Speight (PhD Candidate, Geography, University of Ottawa).
DOI: 10.20381/ruor-22609
title: KP Tours (ATI records)

description: In October 2013, Correctional Service Canada (CSC) decommissioned Kingston Penitentiary (KP) in Kingston, Ontario. To commemorate KP’s closing, CSC organized facility tours for staff members and their families, journalists, and the public. Based on an analysis of Access to Information disclosures informed by Goffman’s (1959) conceptualization of impression management, we examine CSC’s backstage work integral to the organization of KP tours. Our analysis reveals how CSC sought to elevate positive stories of penitentiary staff, as well as the organization’s contribution to public safety and the local community as a means of neutralizing opposition to the closure of the facility expressed by stakeholders. We conclude by discussing the implications of carceral symbolism and the form it takes when punishment memorialization is driven by the imperatives of ‘correctional’ agencies.
DOI: 10.6084/m9.figshare.21376233
title: Additional file 1 of Neoplastic cell enrichment of tumor tissues using coring and laser microdissection for proteomic and genomic analyses of pancreatic ductal adenocarcinoma

description: Additional file 1: Table S1. Clinical information of study cases. Table S2. Expression of proteins from the PDAC tumors and NATs
DOI: 10.6084/m9.figshare.21376233.v1
title: Additional file 1 of Neoplastic cell enrichment of tumor tissues using coring and laser microdissection for proteomic and genomic analyses of pancreatic ductal adenocarcinoma

description: Additional file 1: Table S1. Clinical information of study cases. Table S2. Expression of proteins from the PDAC tumors and NATs
DOI: 10.20381/ruor-27560
title: Prison Pandemic Papers - Québec

description: Cet ensemble de données a été recueilli par le biais de demandes d'accès à l'information soumises au Gouvernement du Québec dans le cadre du projet "COVID-19: Investigating Canada's Carceral Response to the Coronavirus through the Prison Pandemic Partnership" dirigé par Kevin Walby (Associate Professor, Criminal Justice, University of Winnipeg), Justin Piché (professeur agrégé, criminologie, Université d'Ottawa) et Abby Deshman (directrice, Programme de justice pénale, Association canadienne des libertés civiles). Le triage initial de cet ensemble de données a été effectué par Sarah Speight (candidate au doctorat, géographie, Université d'Ottawa) et Justin Piché.
DOI: 10.6084/m9.figshare.21376240.v1
title: Additional file 1 of CASA: a comprehensive database resource for the COVID-19 Alternative Splicing Atlas

description: Additional file 1: Table S1. Summary of samples in CASA.
DOI: 10.6084/m9.figshare.21376243
title: Additional file 2 of CASA: a comprehensive database resource for the COVID-19 Alternative Splicing Atlas

description: Additional file 2: Table S2. Summary of alternative splicing records in CASA.
DOI: 10.6084/m9.figshare.21376243.v1
title: Additional file 2 of CASA: a comprehensive database resource for the COVID-19 Alternative Splicing Atlas

description: Additional file 2: Table S2. Summary of alternative splicing records in CASA.
DOI: 10.20381/ruor-27569
title: Prison Pandemic Papers – British Columbia

description: This dataset was collected through Freedom of Information requests submitted to the Government of British Columbia as part of the "COVID-19: Investigating Canada's Carceral Response to the Coronavirus through the Prison Pandemic Partnership" led by Kevin Walby (Associate Professor, Criminal Justice, University of Winnipeg), Justin Piché (Associate Professor, Criminology, University of Ottawa), and Abby Deshman (Director, Criminal Justice Program, Canadian Civil Liberties Association). Initial triage of this dataset was undertaken by Sarah Speight (PhD Candidate, Geography, University of Ottawa) and Justin Piché.
DOI: 10.6084/m9.figshare.21376240
title: Additional file 1 of CASA: a comprehensive database resource for the COVID-19 Alternative Splicing Atlas

description: Additional file 1: Table S1. Summary of samples in CASA.
DOI: 10.6084/m9.figshare.24752103
title: Phytosanitary assessment of black and grey alder stands in Latvia

description: Black alder <i>Alnus glutinosa</i> (L.) Gaertn. and grey alder <i>Alnus incana</i> (L.) Moench, cover up to 11% of the forest area in Latvia. As alder dieback caused mainly by <i>Phytophthora</i> has been reported in several countries, we aimed to assess the distribution of <i>Phytophthora</i>-like symptomatic alders in Latvia and surveyed 208 alder-dominated forest stands. Symptomatic alders were found in 28% of stands, and in 8% of stands, the infected tree proportion comprised more than 10% of trees. Pocket Diagnostics® tests confirmed <i>Phytophthora</i> or other oomycete infection in 13% of stands, mainly in Central and Eastern Latvia. Trees that tested positive were mainly grey alder (1.0% of the overall number of surveyed grey alders), and fewer black alders tested positive (0.2% of the overall number of surveyed black alders). Grey alder had a significantly higher probability of having symptoms at both the stand level (probability 0.429) and the individual tree level (probability 0.017) in comparison to black alder (probabilities 0.185 and 0.004, respectively). In conclusion, alders with <i>Phytophthora</i>-like symptoms were found throughout the territory of Latvia, however, infection risk for the economically important tree species black alder is low.
DOI: 10.6084/m9.figshare.24752103.v1
title: Phytosanitary assessment of black and grey alder stands in Latvia

description: Black alder <i>Alnus glutinosa</i> (L.) Gaertn. and grey alder <i>Alnus incana</i> (L.) Moench, cover up to 11% of the forest area in Latvia. As alder dieback caused mainly by <i>Phytophthora</i> has been reported in several countries, we aimed to assess the distribution of <i>Phytophthora</i>-like symptomatic alders in Latvia and surveyed 208 alder-dominated forest stands. Symptomatic alders were found in 28% of stands, and in 8% of stands, the infected tree proportion comprised more than 10% of trees. Pocket Diagnostics® tests confirmed <i>Phytophthora</i> or other oomycete infection in 13% of stands, mainly in Central and Eastern Latvia. Trees that tested positive were mainly grey alder (1.0% of the overall number of surveyed grey alders), and fewer black alders tested positive (0.2% of the overall number of surveyed black alders). Grey alder had a significantly higher probability of having symptoms at both the stand level (probability 0.429) and the individual tree level (probability 0.017) in comparison to black alder (probabilities 0.185 and 0.004, respectively). In conclusion, alders with <i>Phytophthora</i>-like symptoms were found throughout the territory of Latvia, however, infection risk for the economically important tree species black alder is low.
DOI: 10.6084/m9.figshare.21376239.v1
title: Additional file 2 of Replication stress generates distinctive landscapes of DNA copy number alterations and chromosome scale losses

description: Additional file 2. Contains CNAs for RPE1 after treatment with DMSO, Aphidicolin or siRNA.
DOI: 10.6084/m9.figshare.21376242
title: Additional file 3 of Replication stress generates distinctive landscapes of DNA copy number alterations and chromosome scale losses

description: Additional file 3. Replication Timing factor derived from RPE1 single cells after treatment with DMSO or aphidicolin.
DOI: 10.6084/m9.figshare.21376242.v1
title: Additional file 3 of Replication stress generates distinctive landscapes of DNA copy number alterations and chromosome scale losses

description: Additional file 3. Replication Timing factor derived from RPE1 single cells after treatment with DMSO or aphidicolin.
DOI: 10.6084/m9.figshare.11959965
title: Additional file 7 of Trend analysis of the role of circular RNA in goat skeletal muscle development

description: Additional file 7: Table S5. Functional analysis of cluster 0.
DOI: 10.15468/dl.x76mzp
title: Occurrence Download

description: A dataset containing 594 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Syrian Arab Republic, Tunisia, Türkiye, Armenia, Azerbaijan, Georgia, Russian Federation, Kazakhstan, Kyrgyzstan, Tajikistan, Turkmenistan, Uzbekistan, Bahrain, Iran (Islamic Republic of), Iraq, Jordan, Kuwait, Oman, Palestine, State of, Israel, Saudi Arabia, Qatar, United Arab Emirates, Libya, Malta, Monaco, Montenegro, Morocco, Italy, Spain, Lebanon, Slovenia, France, Cyprus, Algeria, Gibraltar, Greece, Albania, Croatia, Yemen)",
 "TaxonKey is Lathyrus blepharicarpus Boiss."
 ]
}

 The dataset includes 594 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0198476-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g8sjws
title: Occurrence Download

description: A dataset containing 103 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Zizania latifolia (Griseb.) Stapf",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "BasisOfRecord is Specimen"
 ]
}

 The dataset includes 103 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004479-160822134323880/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.lbw9iz
title: Occurrence Download

description: A dataset containing 3027 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Asclepias oenotheroides Cham. & Schltdl."
 ]
}

 The dataset includes 3027 records from 79 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007774-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tmsb8t
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Calophyllum apetalum Willd."
 ]
}

 The dataset includes 14 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047536-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4pkmpv
title: Occurrence Download

description: A dataset containing 1143 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Observation",
 "BasisOfRecord is Literature Occurrence",
 "BasisOfRecord is Specimen",
 "BasisOfRecord is Living Specimen",
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Material sample"
 ]
 },
 {
 "or" : [
 "Country is Canada",
 "Country is Mexico",
 "Country is United States of America"
 ]
 },
 "HasCoordinate is true",
 "TaxonKey is Hyphantria cunea (Drury, 1773)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1143 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004479-171113114016250/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.