cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7515204
title: GRAND-SLAM analysis of simulated and real SLAM-seq datasets for grandRescue

description: These are several processed datasets for the purpose of investigating 4sU-induced toxicity, mapping impairment and the potential of grandRescue to alleviate these effects. Published dataset: Narain dataset (Narain, et al.): https://doi.org/10.1016/j.molcel.2021.06.016 The zip files contain the full output from the processing pipeline (including the mapped reads, the scripts to run the pipeline and the output). The json file is required if you want to start from scratch. The *.tsv.gz files are the GRAND-SLAM output tables. <br> To generate the GRAND-SLAM output yourself, first prepare the mouse & human genomes. Then run the following command with the respective cit-files, prefixes (*.cit) and genomes (e.g. h.ens90 or m.ens102): gedi -e Slam -trim5p 15 -reads *.cit -genomic m.ens102 -prefix grandslam_t15/* -plot -D -modelall To generate the cit file you have to modify the first lines in start.bash to match the paths on your file system, and then run it. You can also start from scratch (i.e., the json file): Prepare the human/mouse genome and their rRNA sequence<br> Run: gedi -e Pipeline -r parallel -j *.json rnaseq_mapping.sh report.sh grandslam.sh Software versions: gedi toolkit 1.0.5<br> GRAND-SLAM 2.0.7<br> STAR version 2.7.10b
DOI: 10.5281/zenodo.7753473
title: GRAND-SLAM analysis of simulated and real SLAM-seq datasets for grandRescue

description: These are several processed datasets for the purpose of investigating 4sU-induced toxicity, mapping impairment and the potential of grandRescue to alleviate these effects. Published dataset: Narain dataset (Narain, et al.): https://doi.org/10.1016/j.molcel.2021.06.016 The zip files contain the full output from the processing pipeline (including the mapped reads, the scripts to run the pipeline and the output). The json file is required if you want to start from scratch. The *.tsv.gz files are the GRAND-SLAM output tables. <br> To generate the GRAND-SLAM output yourself, first prepare the mouse & human genomes. Then run the following command with the respective cit-files, prefixes (*.cit) and genomes (e.g. h.ens90 or m.ens102): gedi -e Slam -trim5p 15 -reads *.cit -genomic m.ens102 -prefix grandslam_t15/* -plot -D -modelall To generate the cit file you have to modify the first lines in start.bash to match the paths on your file system, and then run it. You can also start from scratch (i.e., the json file): Prepare the human/mouse genome and their rRNA sequence<br> Run: gedi -e Pipeline -r parallel -j *.json rnaseq_mapping.sh report.sh grandslam.sh Software versions: gedi toolkit 1.0.5<br> GRAND-SLAM 2.0.7<br> STAR version 2.7.10b
DOI: 10.5281/zenodo.7805929
title: GRAND-SLAM analysis of simulated and real SLAM-seq datasets for grandRescue

description: These are several processed datasets for the purpose of investigating 4sU-induced toxicity, mapping impairment and the potential of grandRescue to alleviate these effects. Published dataset: Narain dataset (Narain, et al.): https://doi.org/10.1016/j.molcel.2021.06.016 The zip files contain the full output from the processing pipeline (including the mapped reads, the scripts to run the pipeline and the output). The json file is required if you want to start from scratch. The *.tsv.gz files are the GRAND-SLAM output tables. <br> To generate the GRAND-SLAM output yourself, first prepare the mouse & human genomes. Then run the following command with the respective cit-files, prefixes (*.cit) and genomes (e.g. h.ens90 or m.ens102): gedi -e Slam -trim5p 15 -reads *.cit -genomic m.ens102 -prefix grandslam_t15/* -plot -D -modelall To generate the cit file you have to modify the first lines in start.bash to match the paths on your file system, and then run it. You can also start from scratch (i.e., the json file): Prepare the human/mouse genome and their rRNA sequence<br> Run: gedi -e Pipeline -r parallel -j *.json rnaseq_mapping.sh report.sh grandslam.sh Software versions: gedi toolkit 1.0.5<br> GRAND-SLAM 2.0.7<br> STAR version 2.7.10b
DOI: 10.34740/kaggle/dsv/5331608
title: Mahanagar Yatayat Dataset
DOI: 10.7924/r4320481d
title: Data from: Assessing the effects of management activities on biodiversity and carbon storage on public and private lands and waters in the United States

description: Natural and working lands (NWLs) provide many benefits to people, including storing greenhouse gases (GHGs), supporting biodiversity, and other ecosystem services. Management of NWLs can influence their condition and function and therefore the benefits they provide. This project surveys the synthesis literature to assess how different management actions on various types of NWLs affect biodiversity and GHG outcomes. This information can help to determine how to best manage these lands to contribute to both biodiversity and climate solutions in the United States.
DOI: 10.5281/zenodo.7805858
title: MEGAFAUNA_Pole2Pole_eDNA_data

description: This dataset contains fish eDNA sequences from the 12S mitochondrial gene. eDNA has been collected in 263 stations, 68 sites, in 11 marine regions. Data collection was performed between 2017 and 2020. Raw sequences have been processed through a bioinformatic pipeline, merged, demultiplexed, dereplicated, clustered as OTUs (operational taxonomic units) and assigned to a taxa. The codes to analyse the data can be found at : https://github.com/lmathon/Pole2Pole_eDNA. The data are used to study the distribution of fish eDNA sequences at a large spatial scale, and study the influence of environmental, socioeconomic and geographic factors on sequence diversity and distribution.
DOI: 10.5281/zenodo.7805859
title: MEGAFAUNA_Pole2Pole_eDNA_data

description: This dataset contains fish eDNA sequences from the 12S mitochondrial gene. eDNA has been collected in 263 stations, 68 sites, in 11 marine regions. Data collection was performed between 2017 and 2020. Raw sequences have been processed through a bioinformatic pipeline, merged, demultiplexed, dereplicated, clustered as OTUs (operational taxonomic units) and assigned to a taxa. The codes to analyse the data can be found at : https://github.com/lmathon/Pole2Pole_eDNA. The data are used to study the distribution of fish eDNA sequences at a large spatial scale, and study the influence of environmental, socioeconomic and geographic factors on sequence diversity and distribution.
DOI: 10.6084/m9.figshare.22568524
title: Insect_data

description: Raw data used in the analysis of how HPS → LED affects insects in Singapore
DOI: 10.6084/m9.figshare.22568524.v1
title: Insect_data

description: Raw data used in the analysis of how HPS → LED affects insects in Singapore
DOI: 10.17869/enu.2023.3064076
title: UMC-in-FP Dataset
DOI: 10.5281/zenodo.7805955
title: Data for FUV to MIR R(V) relationship paper

description: Extinction curves used for the analysis presented in the paper titled "One Relation for All Wavelengths: The Far-Ultraviolet to Mid-Infrared Milky Way Spectroscopic R(V) Dependent Dust Extinction Relationship" by Gordon et al. (2023, ApJ, in press).
DOI: 10.5281/zenodo.7805954
title: Data for FUV to MIR R(V) relationship paper

description: Extinction curves used for the analysis presented in the paper titled "One Relation for All Wavelengths: The Far-Ultraviolet to Mid-Infrared Milky Way Spectroscopic R(V) Dependent Dust Extinction Relationship" by Gordon et al. (2023, ApJ, in press).
DOI: 10.6084/m9.figshare.21566028.v1
title: Paramecium: RNA sequence-structure phylogenetics

description: Supplementary material for '<em>Paramecium</em>: RNA sequence-structure phylogenetics', as published in <em>International Journal of Systematic and Evolutionary Microbiology.</em>
DOI: 10.6084/m9.figshare.21566028
title: Paramecium: RNA sequence-structure phylogenetics

description: Supplementary material for '<em>Paramecium</em>: RNA sequence-structure phylogenetics', as published in <em>International Journal of Systematic and Evolutionary Microbiology.</em>
DOI: 10.5519/qd.cgk4h6dn
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (51 records)
DOI: 10.5281/zenodo.7805568
title: trajectory 61 ice nucleus in supercooled water tip4p/ice

description: Gromacs MD trajectories of the evolution of ice nuclei in supercooled water with the tip4p/ice model. Also included center of mass of the nucleus (length units in nm) in long range corrections to the pressure (in bar).
DOI: 10.5281/zenodo.7805567
title: trajectory 61 ice nucleus in supercooled water tip4p/ice

description: Gromacs MD trajectories of the evolution of ice nuclei in supercooled water with the tip4p/ice model. Also included center of mass of the nucleus (length units in nm) in long range corrections to the pressure (in bar).
DOI: 10.6084/m9.figshare.22568539
title: SXO-LIT-COV-GAZI-021-03-REPOSITORY.xlsx

description: Dataset for study of Leukocyte ImmunoTest (LIT) in COVID-ICU patients in Gazi Univ Hospital, Ankara Turkey
DOI: 10.6084/m9.figshare.22568539.v1
title: SXO-LIT-COV-GAZI-021-03-REPOSITORY.xlsx

description: Dataset for study of Leukocyte ImmunoTest (LIT) in COVID-ICU patients in Gazi Univ Hospital, Ankara Turkey
DOI: 10.6084/m9.figshare.22568260
title: The mNGS result of the first BALF sample (the second day) and the second BALF sample (the ninth day).

description: The patient we reported was finally diagnosed with endobronchial tuberculosis after two mNGS of BALF, narrowing of the opening of the left upper lobe bronchusand under fiberoptic bronchoscope and chest CT scans. BALF specimen was directly sent to Clinical Genome Center, Guangxi Kingmed Diagnostics, for mNGS via Illumina platform. The methods of mNGS were the same as that described in previously published mNGS articles(1, 2). The mNGS result of the first BALF indicated 1091, 267 and one sequence readings of Haemophilus influenzae, Streptococcus pneumoniae and MTB, with coverage of 11.16%, 2.45%, 0.001577% respectively. And two sequences of MTB were detected by the mNGS of the second BALF with a coverage of &lt;0.01%. <br> 1.Shi Y, Chen J, Shi X, Hu J, Li H, Li X, et al. A case of chlamydia psittaci caused severe pneumonia and meningitis diagnosed by metagenome next-generation sequencing and clinical analysis: a case report and literature review. BMC infectious diseases. 2021; 21:621. 2. Qin Z, Zou Y, Huang Z, Yu N, Deng Z, Chen Z, et al. Metagenomic next-generation sequencing contributes to the diagnosis of mixed pulmonary infection: a case report. Annals of clinical microbiology and antimicrobials. 2022; 21:52. <br>
DOI: 10.6084/m9.figshare.22568260.v1
title: The mNGS result of the first BALF sample (the second day) and the second BALF sample (the ninth day).

description: The patient we reported was finally diagnosed with endobronchial tuberculosis after two mNGS of BALF, narrowing of the opening of the left upper lobe bronchusand under fiberoptic bronchoscope and chest CT scans. BALF specimen was directly sent to Clinical Genome Center, Guangxi Kingmed Diagnostics, for mNGS via Illumina platform. The methods of mNGS were the same as that described in previously published mNGS articles(1, 2). The mNGS result of the first BALF indicated 1091, 267 and one sequence readings of Haemophilus influenzae, Streptococcus pneumoniae and MTB, with coverage of 11.16%, 2.45%, 0.001577% respectively. And two sequences of MTB were detected by the mNGS of the second BALF with a coverage of &lt;0.01%. <br> 1.Shi Y, Chen J, Shi X, Hu J, Li H, Li X, et al. A case of chlamydia psittaci caused severe pneumonia and meningitis diagnosed by metagenome next-generation sequencing and clinical analysis: a case report and literature review. BMC infectious diseases. 2021; 21:621. 2. Qin Z, Zou Y, Huang Z, Yu N, Deng Z, Chen Z, et al. Metagenomic next-generation sequencing contributes to the diagnosis of mixed pulmonary infection: a case report. Annals of clinical microbiology and antimicrobials. 2022; 21:52. <br>
DOI: 10.17909/ff75-av94
title: Data from SPARCS Calibration Research

description: The Star-Planet Activity Research CubeSat (SPARCS) is an upcoming NASA mission to understand the impact of low-mass stellar radiation on exoplanets. SPARCS will obtain photometric observations of low-mass stars in two bands: 153-171 nm (Far-UV; FUV) and 258-308 nm (Near-UV; NUV). SPARCS’ absolute calibration will be derived by observing White Dwarfs (WDs). WD selected as SPARCS calibrators should vary ≤7%. Here we present a study of UV variability of potential WD calibrators, based on GALEX and HST/UVIS photometric observations. We collected data on a sample of 29 WDs from the Mikulski Archive for Space Telescopes (MAST) and identified 8 potential SPARCS calibration targets in the NUV and 5 in the FUV, for a total of 10 distinct targets. Statistical analysis shows variability <3% in both bands. For some stars, the intrinsic astrophysical variability is smaller than these limits.
DOI: 10.6084/m9.figshare.22568609
title: Finding Emilio Fernández: Mexican Extras and Latinx Representation in Early Sound Era Hollywood

description: Emilio Fernández is well known as one of the biggest directors of classical Mexican cinema in the 1940s, who made a string of critical successes that attracted global critical attention and acclaim, including <i>María Candelaria</i> (1943), <i>Flor Silvestre</i> (1943), and <i>Las abandonadas</i> (1944). What is less well known is that, as a young man between 1926 and 1933, he lived and worked in Los Angeles as a Hollywood extra and bit player. Using textual analysis of his small appearances in five key films, this article shifts the focus onto the under-studied figure of the extra to explore Fernández’s little known sojourn in Hollywood. It argues that allowing attention to be drawn away from the centre of the films to Fernández on the margins makes space for a centering of Latinx experiences in early sound era Hollywood otherwise ignored in scholarship, and for a greater understanding of the role extras played in shifting representational imperatives as the film industry made its transition to sound.
DOI: 10.6084/m9.figshare.22568609.v1
title: Finding Emilio Fernández: Mexican Extras and Latinx Representation in Early Sound Era Hollywood

description: Emilio Fernández is well known as one of the biggest directors of classical Mexican cinema in the 1940s, who made a string of critical successes that attracted global critical attention and acclaim, including <i>María Candelaria</i> (1943), <i>Flor Silvestre</i> (1943), and <i>Las abandonadas</i> (1944). What is less well known is that, as a young man between 1926 and 1933, he lived and worked in Los Angeles as a Hollywood extra and bit player. Using textual analysis of his small appearances in five key films, this article shifts the focus onto the under-studied figure of the extra to explore Fernández’s little known sojourn in Hollywood. It argues that allowing attention to be drawn away from the centre of the films to Fernández on the margins makes space for a centering of Latinx experiences in early sound era Hollywood otherwise ignored in scholarship, and for a greater understanding of the role extras played in shifting representational imperatives as the film industry made its transition to sound.
DOI: 10.6084/m9.figshare.22568612
title: Buñuel’s Messy Law and the “Extimate” Image in <i>El ángel exterminador</i> and <i>La Mort en ce jardin</i>

description: Luis Buñuel’s notable Mexican film <i>El ángel exterminador</i> (1962) and his less familiar Mexican–French film <i>La Mort en ce jardin</i> (1956) coincide in their interest in portraying overbearing spaces of entrapment within which customs and rules of order reach points of exhaustion. With readings informed by elements of Lacanian thought, this paper explores the emergence of a messy, defective law and its implications for the mediatory qualities of language and the experience of subjectivity. I begin by arguing that the films make use of failures in communication to disrupt the paternal myth and the law of the signifier as these concepts are discussed in Lacanian thought. I then examine how these same disorienting forces also affect the imaginary support of the unified subject: Buñuel’s camera often reduces the prefigured image of subjects into piecemeal assemblages of partial objects or blends these images with surroundings. This paper concludes with a discussion of how <i>El ángel</i> generates visual lacunae that respond to this disorder. Unlike in <i>La Mort</i>, which portrays an authority that attempts to impose order in response to these gaps, <i>El ángel</i> produces sense <i>through</i> them, in a function understood by the term “extimacy.” This concept describes a foundation that is simultaneously intimate and exterior, and it is crucial to affirm the singularity of the subject before the mechanical operations of the signifier.
DOI: 10.6084/m9.figshare.22568612.v1
title: Buñuel’s Messy Law and the “Extimate” Image in <i>El ángel exterminador</i> and <i>La Mort en ce jardin</i>

description: Luis Buñuel’s notable Mexican film <i>El ángel exterminador</i> (1962) and his less familiar Mexican–French film <i>La Mort en ce jardin</i> (1956) coincide in their interest in portraying overbearing spaces of entrapment within which customs and rules of order reach points of exhaustion. With readings informed by elements of Lacanian thought, this paper explores the emergence of a messy, defective law and its implications for the mediatory qualities of language and the experience of subjectivity. I begin by arguing that the films make use of failures in communication to disrupt the paternal myth and the law of the signifier as these concepts are discussed in Lacanian thought. I then examine how these same disorienting forces also affect the imaginary support of the unified subject: Buñuel’s camera often reduces the prefigured image of subjects into piecemeal assemblages of partial objects or blends these images with surroundings. This paper concludes with a discussion of how <i>El ángel</i> generates visual lacunae that respond to this disorder. Unlike in <i>La Mort</i>, which portrays an authority that attempts to impose order in response to these gaps, <i>El ángel</i> produces sense <i>through</i> them, in a function understood by the term “extimacy.” This concept describes a foundation that is simultaneously intimate and exterior, and it is crucial to affirm the singularity of the subject before the mechanical operations of the signifier.
DOI: 10.15468/dl.2nshqu
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Eufriesea flaviventris (Friese, 1899)"
 ]
}

 The dataset includes 13 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0084861-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vt2pwu
title: Occurrence Download

description: A dataset containing 50849 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Observation, Living Specimen)",
 "Continent is Asia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Quercus L."
 ]
}

 The dataset includes 50849 records from 84 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051504-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.n92pkv
title: Occurrence Download

description: A dataset containing 2421 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Urochloa brizantha (A.Rich.) R.D.Webster"
 ]
}

 The dataset includes 2421 records from 140 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0305392-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vvah99
title: Occurrence Download

description: A dataset containing 3605 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Spodoptera frugiperda J.E.Smith, 1797"
 ]
}

 The dataset includes 3605 records from 46 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0230082-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sj7b4k
title: Occurrence Download

description: A dataset containing 232 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Teratohyla spinosa (Taylor, 1949)"
 ]
}

 The dataset includes 232 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002392-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2ipjug
title: Occurrence Download

description: A dataset containing 106 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Echinopsis pachanoi (Britton & Rose) H.Friedrich & G.D.Rowley"
 ]
}

 The dataset includes 106 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008914-180412121330197/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.n3vugx
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Stemodia verticillata (Mill.) Sprague"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0297626-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pkhc7c
title: Occurrence Download

description: A dataset containing 242 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "TaxonKey is Cycas armstrongii Miq.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 242 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0055902-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xt65vg
title: Occurrence Download

description: A dataset containing 23562 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Arctic Species Trend Index (ASTI) : Marine"
 ]
}

 The dataset includes 23562 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0301953-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jqlxtr
title: Occurrence Download

description: A dataset containing 88748 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lilium Tourn. ex L."
 ]
}

 The dataset includes 88748 records from 514 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008914-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.