cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.geyq9e
title: Occurrence Download

description: A dataset containing 66897 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-74.91072 39.00102,-72.16268 40.90894,-70.49145 41.4897,-69.687 41.62111,-69.4407 43.97436,-67.00524 44.74152,-67.71395 45.72795,-68.16863 47.26237,-69.09872 47.3604,-70.51966 45.49474,-71.60591 45.03231,-74.70553 45.04482,-76.29228 44.18919,-76.32651 43.44542,-77.57644 43.24793,-77.99699 43.41711,-78.94981 43.272,-80.98217 41.85648,-81.17841 39.72385,-75.73916 39.78758,-74.91072 39.00102))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "IsInCluster is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Acer rubrum L."
 ]
}

 The dataset includes 66897 records from 53 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0179936-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gbaq4z
title: Occurrence Download

description: A dataset containing 26 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Observation, Occurrence evidence)",
 "Geometry POLYGON((108.30513 2.20184,109.39602 -3.96038,116.65284 -5.52017,119.07177 -0.73826,119.78323 2.91258,119.7358 7.44608,116.03625 7.44608,108.30513 2.20184))",
 "HasGeospatialIssue is false",
 "TaxonKey is Notochelys platynota (Gray, 1834)",
 "Year 2014-2023"
 ]
}

 The dataset includes 26 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0251464-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pjrn4t
title: Occurrence Download

description: A dataset containing 546 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lasiurus borealis (Müller, 1776)",
 "Year 2021-2023"
 ]
}

 The dataset includes 546 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0281768-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zdxmec
title: Occurrence Download

description: A dataset containing 132 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bergenia stracheyi (Hook.fil. & Thomson) Engl.",
 "HasCoordinate is true"
 ]
}

 The dataset includes 132 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035775-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v94qsu
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Asphodelus ramosus L.",
 "HasCoordinate is true",
 "Country is Japan",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0205656-220831081235567/datasets/export for details.
DOI: 10.15468/dl.9wvgcz
title: Occurrence Download

description: A dataset containing 122 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hedychium ellipticum Buch.-Ham. ex Sm."
 ]
}

 The dataset includes 122 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0237870-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ap3zk7
title: Occurrence Download

description: A dataset containing 271745 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pyrola L."
 ]
}

 The dataset includes 271745 records from 905 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0232520-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h8zkc5
title: Occurrence Download

description: A dataset containing 269 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Glaucomys sabrinus (Shaw, 1801)",
 "Year 2021-2023"
 ]
}

 The dataset includes 269 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0281773-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dbcnr4
title: Occurrence Download

description: A dataset containing 2040 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Paeonia lactiflora Pall.",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2040 records from 85 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040910-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3886/e198921
title: ECIN Replication Package for "Specialization Trends in Economics Research: A Large-Scale Study Using Natural Language Processing and Citation Analysis"

description: We conduct a comprehensive analysis of specialization trends within and across fields of economics research. We collect data on 24,273 articles published between 1970 and 2016 in general research economics outlets and employ machine learning techniques to enrich the collected data. Results indicate that theory and econometric methods papers are becoming increasingly specialized, with a narrowing scope and steady or declining citations from outside economics and from other fields of economics research. Conversely, applied papers are covering a broader range of topics, receiving more extramural citations from fields like medicine, and psychology. Trends in applied theory articles are unclear.
description: Some of the project's data is downloaded from Constellate and the Semantic Scholar API. We cannot share the raw downloaded data, but we are providing scripts to download all the data from scratch. Note that the downloaded data may differ, as APIs are updated. If you are unable to replicate the full paper, the authors can share the data they downloaded privately. Please refer to the README file for more details.<br><br>
DOI: 10.5281/zenodo.13175631
title: Wieś w Generalnym Gubernatorstwie - 59.382.18.07-99

description: Okólniki Zarządu Gminy Racławówka z roku 1943.

Źródło: Archiwum Państwowe w Rzeszowie, Akta Gminy Racławówka powiat Rzeszów, sygnatura 18.

Dane gromadzone w ramach projektu "Wieś w Generalnym Gubernatorstwie w dokumentach administracji gminnej (1939-1945) - opracowanie materiałów źródłowych" (NPRH/F/SP/0037/2024/13).

Aby zobaczyć kolejne pliki należy zejść kursorem niżej strony i kliknąć przycisk "Preview".
DOI: 10.5281/zenodo.13175632
title: Wieś w Generalnym Gubernatorstwie - 59.382.18.07-99

description: Okólniki Zarządu Gminy Racławówka z roku 1943.

Źródło: Archiwum Państwowe w Rzeszowie, Akta Gminy Racławówka powiat Rzeszów, sygnatura 18.

Dane gromadzone w ramach projektu "Wieś w Generalnym Gubernatorstwie w dokumentach administracji gminnej (1939-1945) - opracowanie materiałów źródłowych" (NPRH/F/SP/0037/2024/13).

Aby zobaczyć kolejne pliki należy zejść kursorem niżej strony i kliknąć przycisk "Preview".
DOI: 10.6084/m9.figshare.26487481
title: 4.- Encuestas Aprendizaje de salud en jóvenes.xlsx

description: Dataset use to create the manuscript, titled: <b>Youth Curiosity: Exploration of health-related topics and preferred educational avenues through videos, games, and reading.</b><br>
DOI: 10.6084/m9.figshare.26487481.v1
title: 4.- Encuestas Aprendizaje de salud en jóvenes.xlsx

description: Dataset use to create the manuscript, titled: <b>Youth Curiosity: Exploration of health-related topics and preferred educational avenues through videos, games, and reading.</b><br>
DOI: 10.5281/zenodo.7304960
title: Ruegeria pomeroyi digital microbe databases

description: These databases consolidate a variety of datasets related to the model organism Ruegeria pomeroyi DSS-3. The data were primarily generated by members of the Moran Lab at the University of Georgia, and put together in this format using anvi'o v7.1-dev through the collaborative efforts of Zac Cooper and Iva Veseli (special thanks to Christa Smith and Lidimarie Trujillo Rodriguez for their help with gene annotations). The data includes: - (R_POM_DSS3-contigs.db) the complete genome and megaplasmid sequence of R. pomeroyi, along with highly-curated gene annotations established by the Moran Lab and automatically-generated annotations from NCBI COGs, KEGG KOfam/BRITE, Pfams, and anvi'o single-copy core gene sets. - (PROFILE-VER_01.db) read-mapping data from multiple transcriptome and metatranscriptome samples generated by the Moran lab to the R. pomeroyi genome. Some coverage data is stored in the AUXILIARY-DATA.db file. This data can be visualized using anvi-interactive. Publicly-available samples are labeled with their SRA accession number. - (R_pom_reproducible_workflow.md) a reproducible workflow describing how the databases were generated.
DOI: 10.5281/zenodo.7884632
title: Ruegeria pomeroyi digital microbe databases

description: These databases consolidate a variety of datasets related to the model organism Ruegeria pomeroyi DSS-3. The data were primarily generated by members of the Moran Lab at the University of Georgia, and put together in this format using anvi'o v7.1-dev through the collaborative efforts of Zac Cooper, Sam Miller, and Iva Veseli (special thanks to Christa Smith and Lidimarie Trujillo Rodriguez for their help with gene annotations). The data includes: - (R_POM_DSS3-contigs.db) the complete genome and megaplasmid sequence of R. pomeroyi, along with highly-curated gene annotations established by the Moran Lab and automatically-generated annotations from NCBI COGs, KEGG KOfam/BRITE, Pfams, and anvi'o single-copy core gene sets. It also contains annotations for the Moran Lab's TnSeq mutant library. - (PROFILE-VER_01.db) read-mapping data from multiple transcriptome and metatranscriptome samples generated by the Moran lab to the R. pomeroyi genome. Some coverage data is stored in the AUXILIARY-DATA.db file. This data can be visualized using anvi-interactive. Publicly-available samples are labeled with their SRA accession number. - (DEFAULT-EVERYTHING.db) gene-level coverage data from the transcriptome and meta-transcriptomes samples stored in the profile database, as well as per-gene normalized spectral abundance counts from proteomes matched to a subset of the transcriptomes. This data can also be visualized using anvi-interactive (see instructions below). The proteome data layers are labeled according to their matching transcriptome samples. - (R_pom_reproducible_workflow.md) a reproducible workflow describing how the databases were generated. Instructions for <strong>visualizing the genes database</strong> in the anvi'o interactive interface: Anvi'o expects genes databases to be located in a folder called `GENES`, so in order to use the specific database included in this datapack, you must move it to the expected location by running the following commands in your terminal: mkdir GENES<br> mv DEFAULT-EVERYTHING.db GENES/<br> Once that is done, you can use the following command to visualize the gene-level information: anvi-interactive -c R_POM_DSS3-contigs.db -p PROFILE-VER_01.db -C DEFAULT -b EVERYTHING --gene-mode To view <strong>only the proteomic data</strong> and its matched transcriptomes, you can add the flag `--state-autoload proteomes` to the above command.
DOI: 10.5281/zenodo.7888446
title: Ruegeria pomeroyi digital microbe databases

description: These databases consolidate a variety of datasets related to the model organism Ruegeria pomeroyi DSS-3. The data were primarily generated by members of the Moran Lab at the University of Georgia, and put together in this format using anvi'o v7.1-dev through the collaborative efforts of Zac Cooper, Sam Miller, and Iva Veseli (special thanks to Christa Smith and Lidimarie Trujillo Rodriguez for their help with gene annotations). The data includes: - (R_POM_DSS3-contigs.db) the complete genome and megaplasmid sequence of R. pomeroyi, along with highly-curated gene annotations established by the Moran Lab and automatically-generated annotations from NCBI COGs, KEGG KOfam/BRITE, Pfams, and anvi'o single-copy core gene sets. It also contains annotations for the Moran Lab's TnSeq mutant library. - (PROFILE-VER_01.db) read-mapping data from multiple transcriptome and metatranscriptome samples generated by the Moran lab to the R. pomeroyi genome. Some coverage data is stored in the AUXILIARY-DATA.db file. This data can be visualized using anvi-interactive. Publicly-available samples are labeled with their SRA accession number. - (DEFAULT-EVERYTHING.db) gene-level coverage data from the transcriptome and meta-transcriptomes samples stored in the profile database, as well as per-gene normalized spectral abundance counts from proteomes matched to a subset of the transcriptomes. This data can also be visualized using anvi-interactive (see instructions below). The proteome data layers are labeled according to their matching transcriptome samples. - (R_pom_reproducible_workflow.md) a reproducible workflow describing how the databases were generated. Instructions for <strong>visualizing the genes database</strong> in the anvi'o interactive interface: Anvi'o expects genes databases to be located in a folder called `GENES`, so in order to use the specific database included in this datapack, you must move it to the expected location by running the following commands in your terminal: mkdir GENES<br> mv DEFAULT-EVERYTHING.db GENES/<br> Once that is done, you can use the following command to visualize the gene-level information: anvi-interactive -c R_POM_DSS3-contigs.db -p PROFILE-VER_01.db -C DEFAULT -b EVERYTHING --gene-mode To view <strong>only the proteomic data</strong> and its matched transcriptomes, you can add the flag `--state-autoload proteomes` to the above command.
DOI: 10.5281/zenodo.10402440
title: Ruegeria pomeroyi digital microbe databases

description: These databases consolidate a variety of datasets related to the model organism Ruegeria pomeroyi DSS-3. The data were primarily generated by members of the Moran Lab at the University of Georgia, and put together in this format using anvi'o v7.1-dev through the collaborative efforts of Zac Cooper, Sam Miller, and Iva Veseli (special thanks to Christa Smith and Lidimarie Trujillo Rodriguez for their help with gene annotations). The data includes:

- (R_POM_DSS3-contigs.db) the complete genome and megaplasmid sequence of R. pomeroyi, along with highly-curated gene annotations established by the Moran Lab and automatically-generated annotations from NCBI COGs, KEGG KOfam/BRITE, Pfams, and anvi'o single-copy core gene sets. It also contains annotations for the Moran Lab's TnSeq mutant library (https://doi.org/10.1101/2022.09.11.507510; https://doi.org/10.1038/s43705-023-00244-6).

- (PROFILE-VER_01.db) read-mapping data from multiple transcriptome and metatranscriptome samples generated by the Moran lab to the R. pomeroyi genome. Some coverage data is stored in the AUXILIARY-DATA.db file. This data can be visualized using anvi-interactive. Publicly-available samples are labeled with their SRA accession number.

- (DEFAULT-EVERYTHING.db) gene-level coverage data from the transcriptome and meta-transcriptomes samples stored in the profile database, as well as per-gene normalized spectral abundance counts from proteomes matched to a subset of the transcriptomes and gene mutant fitness data from https://doi.org/10.1073/pnas.2217200120. This data can also be visualized using anvi-interactive (see instructions below). The proteome data layers are labeled according to their matching transcriptome samples.

- (R_pom_reproducible_workflow.md) a reproducible workflow describing how the databases were generated.

Please note that using these databases requires the development version of anvi'o `v8-dev`, or a later version of anvi'o if available. They are not usable with anvi'o `v8` or earlier.

Instructions for visualizing the genes database in the anvi'o interactive interface: Anvi'o expects genes databases to be located in a folder called `GENES`, so in order to use the specific database included in this datapack, you must move it to the expected location by running the following commands in your terminal:



mkdir GENESmv DEFAULT-EVERYTHING.db GENES/ 


Once that is done, you can use the following command to visualize the gene-level information:



anvi-interactive -c R_POM_DSS3-contigs.db -p PROFILE-VER_01.db -C DEFAULT -b EVERYTHING --gene-mode


To view only the proteomic data and its matched transcriptomes, you can add the flag `--state-autoload proteomes` to the above command.

To view all transcriptomes and the proteomes organized by study of origin, you can add the flag `--state-autoload figure` to the above command.
DOI: 10.5281/zenodo.7304959
title: Ruegeria pomeroyi digital microbe databases

description: These databases consolidate a variety of datasets related to the model organism Ruegeria pomeroyi DSS-3. The data were primarily generated by members of the Moran Lab at the University of Georgia, and put together in this format using anvi'o v7.1-dev through the collaborative efforts of Zac Cooper, Sam Miller, and Iva Veseli (special thanks to Christa Smith and Lidimarie Trujillo Rodriguez for their help with gene annotations). The data includes:

- (R_POM_DSS3-contigs.db) the complete genome and megaplasmid sequence of R. pomeroyi, along with highly-curated gene annotations established by the Moran Lab and automatically-generated annotations from NCBI COGs, KEGG KOfam/BRITE, Pfams, and anvi'o single-copy core gene sets. It also contains annotations for the Moran Lab's TnSeq mutant library (https://doi.org/10.1101/2022.09.11.507510; https://doi.org/10.1038/s43705-023-00244-6).

- (PROFILE-VER_01.db) read-mapping data from multiple transcriptome and metatranscriptome samples generated by the Moran lab to the R. pomeroyi genome. Some coverage data is stored in the AUXILIARY-DATA.db file. This data can be visualized using anvi-interactive. Publicly-available samples are labeled with their SRA accession number.

- (DEFAULT-EVERYTHING.db) gene-level coverage data from the transcriptome and meta-transcriptomes samples stored in the profile database, as well as per-gene normalized spectral abundance counts from proteomes matched to a subset of the transcriptomes and gene mutant fitness data from https://doi.org/10.1073/pnas.2217200120. This data can also be visualized using anvi-interactive (see instructions below). The proteome data layers are labeled according to their matching transcriptome samples.

- (R_pom_reproducible_workflow.md) a reproducible workflow describing how the databases were generated.

Please note that using these databases requires the development version of anvi'o `v8-dev`, or a later version of anvi'o if available. They are not usable with anvi'o `v8` or earlier.

Instructions for visualizing the genes database in the anvi'o interactive interface: Anvi'o expects genes databases to be located in a folder called `GENES`, so in order to use the specific database included in this datapack, you must move it to the expected location by running the following commands in your terminal:



mkdir GENESmv DEFAULT-EVERYTHING.db GENES/ 


Once that is done, you can use the following command to visualize the gene-level information:



anvi-interactive -c R_POM_DSS3-contigs.db -p PROFILE-VER_01.db -C DEFAULT -b EVERYTHING --gene-mode


To view only the proteomic data and its matched transcriptomes, you can add the flag `--state-autoload proteomes` to the above command.

To view all transcriptomes and the proteomes organized by study of origin, you can add the flag `--state-autoload figure` to the above command.
DOI: 10.5281/zenodo.13175665
title: Wieś w Generalnym Gubernatorstwie - 59.382.51.35

description: Protokół spisany w kancelarii gminnej gminy Racławówka z udziałem sołtysa gromady Staroniwa w sprawie projektowanych robót drogowych na rok 1941/1942.

Źródło: Archiwum Państwowe w Rzeszowie, Akta Gminy Racławówka powiat Rzeszów, sygnatura 51, karta 35.

Dane gromadzone w ramach projektu "Wieś w Generalnym Gubernatorstwie w dokumentach administracji gminnej (1939-1945) - opracowanie materiałów źródłowych" (NPRH/F/SP/0037/2024/13).
DOI: 10.5281/zenodo.13175666
title: Wieś w Generalnym Gubernatorstwie - 59.382.51.35

description: Protokół spisany w kancelarii gminnej gminy Racławówka z udziałem sołtysa gromady Staroniwa w sprawie projektowanych robót drogowych na rok 1941/1942.

Źródło: Archiwum Państwowe w Rzeszowie, Akta Gminy Racławówka powiat Rzeszów, sygnatura 51, karta 35.

Dane gromadzone w ramach projektu "Wieś w Generalnym Gubernatorstwie w dokumentach administracji gminnej (1939-1945) - opracowanie materiałów źródłowych" (NPRH/F/SP/0037/2024/13).
DOI: 10.15468/dl.xdk9zh
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((-180 0, -40 0, -40 80, -180 80, -180 0))",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "ScientificName is Speyeria diana"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045882-240626123714530/datasets/export for details.
DOI: 10.15468/dl.vfypre
title: Occurrence Download

description: A dataset containing 1073966 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Country is one of (Canada, Mexico, United States of America)",
 "EventDate is greater than or equal to 2024-06-07",
 "EventDate is less than or equal to 2024-07-07",
 {
 "not" : {
 "Issue" : [
 "is one of (Basis of record invalid, Coordinate reprojection failed, Coordinate reprojection suspicious, Coordinate precision invalid, Coordinate uncertainty meters invalid, Country mismatch, Country invalid, Geodetic datum invalid, Presumed swapped coordinate, Presumed negated longitude, Presumed negated latitude, Country coordinate mismatch)"
 ]
 }
 }
 ]
}

 The dataset includes 1073966 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045881-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.