cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.27611192.v1
title: Additional file 2 of Clinical characteristics and short-term outcomes of patients with critical acute pulmonary embolism requiring extracorporeal membrane oxygenation: from the COMMAND VTE Registry-2

description: Additional file 2.
DOI: 10.15468/dl.wgyrgj
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{"type":"and","predicates":[{"type":"equals","key":"TAXON_KEY","value":"10771293","matchCase":false},{"type":"equals","key":"OCCURRENCE_STATUS","value":"PRESENT","matchCase":false},{"type":"equals","key":"HAS_COORDINATE","value":"true","matchCase":false},{"type":"equals","key":"HAS_GEOSPATIAL_ISSUE","value":"false","matchCase":false},{"type":"lessThan","key":"COORDINATE_UNCERTAINTY_IN_METERS","value":"10000","matchCase":false},{"type":"in","key":"YEAR","values":["2008","2009","2010","2011","2012","2013","2014","2015","2016","2017","2018","2019","2020","2021","2022","2023","2024"],"matchCase":false},{"type":"in","key":"BASIS_OF_RECORD","values":["LIVING_SPECIMEN","HUMAN OBSERVATION","OBSERVATION","OCCURRENCE","MACHINE_OBSERVATION"],"matchCase":false}]}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022309-241024112534372/datasets/export for details.
DOI: 10.15468/dl.2ze96x
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{"type":"and","predicates":[{"type":"equals","key":"TAXON_KEY","value":"10770813","matchCase":false},{"type":"equals","key":"OCCURRENCE_STATUS","value":"PRESENT","matchCase":false},{"type":"equals","key":"HAS_COORDINATE","value":"true","matchCase":false},{"type":"equals","key":"HAS_GEOSPATIAL_ISSUE","value":"false","matchCase":false},{"type":"lessThan","key":"COORDINATE_UNCERTAINTY_IN_METERS","value":"10000","matchCase":false},{"type":"in","key":"YEAR","values":["2008","2009","2010","2011","2012","2013","2014","2015","2016","2017","2018","2019","2020","2021","2022","2023","2024"],"matchCase":false},{"type":"in","key":"BASIS_OF_RECORD","values":["LIVING_SPECIMEN","HUMAN OBSERVATION","OBSERVATION","OCCURRENCE","MACHINE_OBSERVATION"],"matchCase":false}]}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022308-241024112534372/datasets/export for details.
DOI: 10.6084/m9.figshare.27611277
title: Additional file 17 of A powerful and versatile new fixation protocol for immunostaining and in situ hybridization that preserves delicate tissues

description: Additional file 17: Supplementary Table 1 – Vendor information and catalog numbers for all the reagents required to carry out NAFA fixation, WISH, and immunofluorescence.
DOI: 10.15468/dl.tnzewk
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{"type":"and","predicates":[{"type":"equals","key":"TAXON_KEY","value":"10772015","matchCase":false},{"type":"equals","key":"OCCURRENCE_STATUS","value":"PRESENT","matchCase":false},{"type":"equals","key":"HAS_COORDINATE","value":"true","matchCase":false},{"type":"equals","key":"HAS_GEOSPATIAL_ISSUE","value":"false","matchCase":false},{"type":"lessThan","key":"COORDINATE_UNCERTAINTY_IN_METERS","value":"10000","matchCase":false},{"type":"in","key":"YEAR","values":["2008","2009","2010","2011","2012","2013","2014","2015","2016","2017","2018","2019","2020","2021","2022","2023","2024"],"matchCase":false},{"type":"in","key":"BASIS_OF_RECORD","values":["LIVING_SPECIMEN","HUMAN OBSERVATION","OBSERVATION","OCCURRENCE","MACHINE_OBSERVATION"],"matchCase":false}]}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022310-241024112534372/datasets/export for details.
DOI: 10.6084/m9.figshare.27611313
title: Additional file 6 of Microprotein-encoding RNA regulation in cells treated with pro-inflammatory and pro-fibrotic stimuli

description: Supplementary Material 6
DOI: 10.15468/dl.v3u9jz
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{"type":"and","predicates":[{"type":"equals","key":"TAXON_KEY","value":"10774109","matchCase":false},{"type":"equals","key":"OCCURRENCE_STATUS","value":"PRESENT","matchCase":false},{"type":"equals","key":"HAS_COORDINATE","value":"true","matchCase":false},{"type":"equals","key":"HAS_GEOSPATIAL_ISSUE","value":"false","matchCase":false},{"type":"lessThan","key":"COORDINATE_UNCERTAINTY_IN_METERS","value":"10000","matchCase":false},{"type":"in","key":"YEAR","values":["2008","2009","2010","2011","2012","2013","2014","2015","2016","2017","2018","2019","2020","2021","2022","2023","2024"],"matchCase":false},{"type":"in","key":"BASIS_OF_RECORD","values":["LIVING_SPECIMEN","HUMAN OBSERVATION","OBSERVATION","OCCURRENCE","MACHINE_OBSERVATION"],"matchCase":false}]}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022312-241024112534372/datasets/export for details.
DOI: 10.15468/dl.hfdtkw
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{"type":"and","predicates":[{"type":"equals","key":"TAXON_KEY","value":"10773104","matchCase":false},{"type":"equals","key":"OCCURRENCE_STATUS","value":"PRESENT","matchCase":false},{"type":"equals","key":"HAS_COORDINATE","value":"true","matchCase":false},{"type":"equals","key":"HAS_GEOSPATIAL_ISSUE","value":"false","matchCase":false},{"type":"lessThan","key":"COORDINATE_UNCERTAINTY_IN_METERS","value":"10000","matchCase":false},{"type":"in","key":"YEAR","values":["2008","2009","2010","2011","2012","2013","2014","2015","2016","2017","2018","2019","2020","2021","2022","2023","2024"],"matchCase":false},{"type":"in","key":"BASIS_OF_RECORD","values":["LIVING_SPECIMEN","HUMAN OBSERVATION","OBSERVATION","OCCURRENCE","MACHINE_OBSERVATION"],"matchCase":false}]}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022311-241024112534372/datasets/export for details.
DOI: 10.6084/m9.figshare.27611304
title: Additional file 4 of Microprotein-encoding RNA regulation in cells treated with pro-inflammatory and pro-fibrotic stimuli

description: Supplementary Material 4
DOI: 10.6084/m9.figshare.27611337
title: Additional file 5 of Nepali oral microbiomes reflect a gradient of lifestyles from traditional to industrialized

description: Additional file 5: S4 Table—Results of genera tested for following the lifestyle gradient. All genera tested for following the lifestyle gradient using the Jonckheere-Terpstra test followed by the Benjamini-Hochberg method to correct for multiple tests (BHadj_p_value). Adjusted p-value &lt; 0.05 is the threshold for significance. Nine genera significantly follow the lifestyle gradient.
DOI: 10.15468/dl.fjsztu
title: Occurrence Download

description: A dataset containing 593771 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Larus marinus Linnaeus, 1758, Larus michahellis J.F.Naumann, 1840, Larus schistisagus Stejneger, 1884, Laterallus jamaicensis (Gmelin, 1789), Leiothlypis celata (Say, 1822))",
 "Country is Canada",
 "OccurrenceStatus is Present",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2000",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON ((-84.76571 41.22334, -58.93394 41.22334, -58.93394 49.85477, -84.76571 49.85477, -84.76571 41.22334))",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 1000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 593771 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022287-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.27611343.v1
title: Additional file 7 of Nepali oral microbiomes reflect a gradient of lifestyles from traditional to industrialized

description: Additional file 7: S6 Table—Predicted functional potential differential abundance results. PICRUSt2 predicted functions were analyzed for differential abundance based on lifestyle. None of the 107 tested functions were found to be significant after multiple test correction, but 21/107 pathways were significant prior to correction. Kruskal-Wallis module in ALDEx2 was utilized and p-value correction was applied using the Benjamini-Hochberg method. Both unadjusted (kw.ep) and adjusted p-values (kw.eBH) are shown. Adjusted p-value &lt; 0.05 is the threshold for significance.
DOI: 10.6084/m9.figshare.27611328
title: Additional file 2 of Nepali oral microbiomes reflect a gradient of lifestyles from traditional to industrialized

description: Additional file 2: S1 Table—Sequence, survey, population, and questionnaire info of the sampled individuals. Table S1 describes survey and sequence metadata data collected. Column abbreviations and responses are explained in greater detail in Tab 3. Column names that end with “2” contain responses that were categorized and transformed to a scale of 0-3, in which possible values for binary variables are 0 or 3 (ie. sex) and possible values for continuous variables are 0, 1, 2, or 3 (ie. fuel source). No survey data was collected for the American Industrialists. Tab 2 describes the lifestyle pertaining to each population and their sample sizes. Tab 3 contains the survey questionnaire, including the codes pertaining to each question asked and list of possible responses.
DOI: 10.6084/m9.figshare.27611349.v1
title: Additional file 9 of Nepali oral microbiomes reflect a gradient of lifestyles from traditional to industrialized

description: Additional file 9: S8 Table—Gut microbiome differential abundance results from ALDEx2.  Gut microbiome genera analyzed for differential abundance based on lifestyle via ALDEx2. Overall, 37/136 genera were identified as significantly differentially abundant. Kruskal-Wallis module was utilized and p-value correction was applied using the Benjamini-Hochberg method. Both unadjusted (kw.ep) and adjusted p-values (kw.eBH) are shown. Adjusted p-value &lt; 0.05 is the threshold for significance.
DOI: 10.6084/m9.figshare.27611334.v1
title: Additional file 4 of Nepali oral microbiomes reflect a gradient of lifestyles from traditional to industrialized

description: Additional file 4: S3 Table—Oral microbiome differential abundance results from ALDEx2 with covariates age and sex. Oral microbiome genera tested for differential abundance across lifestyle with age and sex as covariates. Due to the lack of age data for the American Industrialists, only sex was included in the model tested with all individuals, whereas both sex and age were included in the model tested across the Nepali individuals. The glm module was utilized and p-value correction was applied using the Benjamini-Hochberg method. Both unadjusted (kw.ep) and adjusted p-values (kw.eBH) are shown, and adjusted p-value &lt; 0.05 is the threshold for significance. Tab 1 shows the output for the glm model with no covariates and all individuals. Tab 2 shows the output for the glm model with sex as a covariate and all individuals. Tab 3 shows the output for the glm model with no covariates and only Nepali individuals. Tab 4 shows the output for the glm model with both sex and age as covariates and only Nepali individuals.
DOI: 10.6084/m9.figshare.27611328.v1
title: Additional file 2 of Nepali oral microbiomes reflect a gradient of lifestyles from traditional to industrialized

description: Additional file 2: S1 Table—Sequence, survey, population, and questionnaire info of the sampled individuals. Table S1 describes survey and sequence metadata data collected. Column abbreviations and responses are explained in greater detail in Tab 3. Column names that end with “2” contain responses that were categorized and transformed to a scale of 0-3, in which possible values for binary variables are 0 or 3 (ie. sex) and possible values for continuous variables are 0, 1, 2, or 3 (ie. fuel source). No survey data was collected for the American Industrialists. Tab 2 describes the lifestyle pertaining to each population and their sample sizes. Tab 3 contains the survey questionnaire, including the codes pertaining to each question asked and list of possible responses.
DOI: 10.6084/m9.figshare.27611346
title: Additional file 8 of Nepali oral microbiomes reflect a gradient of lifestyles from traditional to industrialized

description: Additional file 8: S7 Table—Samples overlapping between the gut and oral microbiome studies. List of samples overlapping between the gut and oral microbiome studies, along with the samples unique to each microbiome study. The first column “both” lists sample IDs that are associated with both gut and oral samples. The second column “gut_only” lists sample IDs that are associated with only gut samples. The third column “oral_only” lists sample IDs that are associated with only oral samples.
DOI: 10.6084/m9.figshare.27611334
title: Additional file 4 of Nepali oral microbiomes reflect a gradient of lifestyles from traditional to industrialized

description: Additional file 4: S3 Table—Oral microbiome differential abundance results from ALDEx2 with covariates age and sex. Oral microbiome genera tested for differential abundance across lifestyle with age and sex as covariates. Due to the lack of age data for the American Industrialists, only sex was included in the model tested with all individuals, whereas both sex and age were included in the model tested across the Nepali individuals. The glm module was utilized and p-value correction was applied using the Benjamini-Hochberg method. Both unadjusted (kw.ep) and adjusted p-values (kw.eBH) are shown, and adjusted p-value &lt; 0.05 is the threshold for significance. Tab 1 shows the output for the glm model with no covariates and all individuals. Tab 2 shows the output for the glm model with sex as a covariate and all individuals. Tab 3 shows the output for the glm model with no covariates and only Nepali individuals. Tab 4 shows the output for the glm model with both sex and age as covariates and only Nepali individuals.
DOI: 10.6084/m9.figshare.27611346.v1
title: Additional file 8 of Nepali oral microbiomes reflect a gradient of lifestyles from traditional to industrialized

description: Additional file 8: S7 Table—Samples overlapping between the gut and oral microbiome studies. List of samples overlapping between the gut and oral microbiome studies, along with the samples unique to each microbiome study. The first column “both” lists sample IDs that are associated with both gut and oral samples. The second column “gut_only” lists sample IDs that are associated with only gut samples. The third column “oral_only” lists sample IDs that are associated with only oral samples.
DOI: 10.15468/dl.kxp5nd
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{"type":"and","predicates":[{"type":"equals","key":"TAXON_KEY","value":"10774506","matchCase":false},{"type":"equals","key":"OCCURRENCE_STATUS","value":"PRESENT","matchCase":false},{"type":"equals","key":"HAS_COORDINATE","value":"true","matchCase":false},{"type":"equals","key":"HAS_GEOSPATIAL_ISSUE","value":"false","matchCase":false},{"type":"lessThan","key":"COORDINATE_UNCERTAINTY_IN_METERS","value":"10000","matchCase":false},{"type":"in","key":"YEAR","values":["2008","2009","2010","2011","2012","2013","2014","2015","2016","2017","2018","2019","2020","2021","2022","2023","2024"],"matchCase":false},{"type":"in","key":"BASIS_OF_RECORD","values":["LIVING_SPECIMEN","HUMAN OBSERVATION","OBSERVATION","OCCURRENCE","MACHINE_OBSERVATION"],"matchCase":false}]}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022313-241024112534372/datasets/export for details.
DOI: 10.5281/zenodo.11390865
title: Hybrid Model Training Weights

description: The weights of the trained hybrid ML/physics-based model used in "Exploring The Potential of Hybrid Machine-Learning/Physics-based Modeling for Atmospheric/Oceanic Prediction Beyond the Medium Range" by Patel et al.
DOI: 10.5281/zenodo.11390866
title: Hybrid Model Training Weights

description: The weights of the trained hybrid ML/physics-based model used in "Exploring The Potential of Hybrid Machine-Learning/Physics-based Modeling for Atmospheric/Oceanic Prediction Beyond the Medium Range" by Patel et al.
DOI: 10.15468/dl.6mwqjh
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{"type":"and","predicates":[{"type":"equals","key":"TAXON_KEY","value":"10776055","matchCase":false},{"type":"equals","key":"OCCURRENCE_STATUS","value":"PRESENT","matchCase":false},{"type":"equals","key":"HAS_COORDINATE","value":"true","matchCase":false},{"type":"equals","key":"HAS_GEOSPATIAL_ISSUE","value":"false","matchCase":false},{"type":"lessThan","key":"COORDINATE_UNCERTAINTY_IN_METERS","value":"10000","matchCase":false},{"type":"in","key":"YEAR","values":["2008","2009","2010","2011","2012","2013","2014","2015","2016","2017","2018","2019","2020","2021","2022","2023","2024"],"matchCase":false},{"type":"in","key":"BASIS_OF_RECORD","values":["LIVING_SPECIMEN","HUMAN OBSERVATION","OBSERVATION","OCCURRENCE","MACHINE_OBSERVATION"],"matchCase":false}]}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022316-241024112534372/datasets/export for details.
DOI: 10.15468/dl.ems3ma
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{"type":"and","predicates":[{"type":"equals","key":"TAXON_KEY","value":"10775906","matchCase":false},{"type":"equals","key":"OCCURRENCE_STATUS","value":"PRESENT","matchCase":false},{"type":"equals","key":"HAS_COORDINATE","value":"true","matchCase":false},{"type":"equals","key":"HAS_GEOSPATIAL_ISSUE","value":"false","matchCase":false},{"type":"lessThan","key":"COORDINATE_UNCERTAINTY_IN_METERS","value":"10000","matchCase":false},{"type":"in","key":"YEAR","values":["2008","2009","2010","2011","2012","2013","2014","2015","2016","2017","2018","2019","2020","2021","2022","2023","2024"],"matchCase":false},{"type":"in","key":"BASIS_OF_RECORD","values":["LIVING_SPECIMEN","HUMAN OBSERVATION","OBSERVATION","OCCURRENCE","MACHINE_OBSERVATION"],"matchCase":false}]}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022315-241024112534372/datasets/export for details.
DOI: 10.6084/m9.figshare.27611277.v1
title: Additional file 17 of A powerful and versatile new fixation protocol for immunostaining and in situ hybridization that preserves delicate tissues

description: Additional file 17: Supplementary Table 1 – Vendor information and catalog numbers for all the reagents required to carry out NAFA fixation, WISH, and immunofluorescence.
DOI: 10.6084/m9.figshare.27611298
title: Additional file 2 of Microprotein-encoding RNA regulation in cells treated with pro-inflammatory and pro-fibrotic stimuli

description: Supplementary Material 2
DOI: 10.6084/m9.figshare.27611301.v1
title: Additional file 3 of Microprotein-encoding RNA regulation in cells treated with pro-inflammatory and pro-fibrotic stimuli

description: Supplementary Material 3
DOI: 10.6084/m9.figshare.27611310
title: Additional file 5 of Microprotein-encoding RNA regulation in cells treated with pro-inflammatory and pro-fibrotic stimuli

description: Supplementary Material 5
DOI: 10.6084/m9.figshare.27611322
title: Additional file 2 of Dissecting genomic regions and underlying candidate genes in groundnut MAGIC population for drought tolerance

description: Supplementary Material 2.
DOI: 10.6084/m9.figshare.27611322.v1
title: Additional file 2 of Dissecting genomic regions and underlying candidate genes in groundnut MAGIC population for drought tolerance

description: Supplementary Material 2.
DOI: 10.6084/m9.figshare.27611331.v1
title: Additional file 3 of Nepali oral microbiomes reflect a gradient of lifestyles from traditional to industrialized

description: Additional 3: S2 Table—Oral microbiome differential abundance results from ALDEx2. Oral microbiome genera tested for differential abundance across lifestyle. Overall, 2/111 genera were identified as significantly differentially abundant. Kruskal-Wallis module was utilized and p-value correction was applied using the Benjamini-Hochberg method. Both unadjusted (kw.ep) and adjusted p-values (kw.eBH) are shown, and adjusted p-value &lt; 0.05 is the threshold for significance.
DOI: 10.6084/m9.figshare.27611352.v1
title: Additional file 10 of Nepali oral microbiomes reflect a gradient of lifestyles from traditional to industrialized

description: Additional file 10: S9 Table—Read counts through each sequence processing step. Read counts at each step of sequence processing, starting with raw demultiplexed reads and all the way through DADA2, merging, and chimera removal. “Input” column refers to the number of raw reads obtained per sample after sequencing, “filtered” refers to the number of reads remaining after initial read QC, “denoised” refers to the number of reads remaining after denoising in DADA2, “nochim” refers to the number of reads remaining after chimeric sequences were removed, and “retained_overall” is the total proportion of reads retained following all QC steps from the input amount. Table does not include the samples that failed to pass initial read QC.
DOI: 10.6084/m9.figshare.27611301
title: Additional file 3 of Microprotein-encoding RNA regulation in cells treated with pro-inflammatory and pro-fibrotic stimuli

description: Supplementary Material 3
DOI: 10.6084/m9.figshare.27611310.v1
title: Additional file 5 of Microprotein-encoding RNA regulation in cells treated with pro-inflammatory and pro-fibrotic stimuli

description: Supplementary Material 5
DOI: 10.6084/m9.figshare.27611340
title: Additional file 6 of Nepali oral microbiomes reflect a gradient of lifestyles from traditional to industrialized

description: Additional file 6: S5 Table—Associations between differentially abundant microbes and lifestyle factors. Associations between differentially abundant microbes from the Jonckheere-Terpstra test and lifestyle factors were tested via linear models. Linear models were generated between each microbe and each lifestyle factor and then tested for significance, for a total of 333 tested associations. P-value correction was applied using the Benjamini-Hochberg method. Both unadjusted and adjusted p-values are shown. Adjusted p-value &lt; 0.05 is the threshold for significance.
DOI: 10.6084/m9.figshare.27611340.v1
title: Additional file 6 of Nepali oral microbiomes reflect a gradient of lifestyles from traditional to industrialized

description: Additional file 6: S5 Table—Associations between differentially abundant microbes and lifestyle factors. Associations between differentially abundant microbes from the Jonckheere-Terpstra test and lifestyle factors were tested via linear models. Linear models were generated between each microbe and each lifestyle factor and then tested for significance, for a total of 333 tested associations. P-value correction was applied using the Benjamini-Hochberg method. Both unadjusted and adjusted p-values are shown. Adjusted p-value &lt; 0.05 is the threshold for significance.