cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.26322064
title: Supplementary Files: Liver transcriptomic profiles of ruminant species fed spent hemp biomass containing cannabinoids

description: The inclusion of spent hemp biomass (SHB), an extracted byproduct from industrial cannabidiol (CBD) production, in the diets of dairy cows and lambs appear to be safe with minor effects on the metabolism, including a decrease of circulating cholesterol and increase bilirubinemia, both associated with liver metabolism. Those effects could be consequence of the presence of cannabinoids, particularly Δ<sup>9</sup>-tetrahydrocannabinol (THC) and CBD in the SHB. This study aimed to study the transcriptional profile of the liver of dairy cows and lambs fed SHB. Dairy cows received SHB or alfalfa pellet for four weeks of intervention (IP) and four weeks of withdrawal periods (WP). Finishing lambs were fed a control diet (CON), 10% (LH2) or 20% (HH2) SHB for 2 months or 1 month followed by 1-month SHB withdrawal (LH1 and HH1, respectively). RNA sequencing was performed, and the mRNA was annotated using the latest reference genomes. The RNAseq data were filtered, normalized for library size and composition, and statistically analyzed by DESeq2. The bioinformatic analysis was performed by using DAVID, Gene Set Enrichment Analysis (GSEA), and the Dynamic Impact Approach. Using a 0.2 FDR cut-off, we identified only ≤24 differentially expressed genes (DEG) in the liver by feeding SHB in dairy cows and a larger number of DEG in lambs (from 71 in HH1 vs. CON to 552 in LH1 vs. CON). The KEGG analysis demonstrated that feeding SHB in dairy cows and lambs had relatively minor to moderate metabolic alterations in dairy cows and lambs mainly associated with amino acids and lipid metabolism whereas cholesterol synthesis was overall activated in lambs. GSEA identified activation of PPAR signaling pathway only in dairy cows. We found an opposite effect on activation of metabolism of drug and xenobiotics by cytochrome P450 enzymes in dairy cows and lambs receiving less SHB but an inhibition in HH2 lambs. Immune system-related pathways were inhibited by feeding SHB in lambs, but the impact was minor. Cumulatively, inclusion of SHB containing cannabinoids in dairy and lambs demonstrate very little effects on the alteration of transcriptomic profile of the liver.
DOI: 10.6084/m9.figshare.26322064.v1
title: Supplementary Files: Liver transcriptomic profiles of ruminant species fed spent hemp biomass containing cannabinoids

description: The inclusion of spent hemp biomass (SHB), an extracted byproduct from industrial cannabidiol (CBD) production, in the diets of dairy cows and lambs appear to be safe with minor effects on the metabolism, including a decrease of circulating cholesterol and increase bilirubinemia, both associated with liver metabolism. Those effects could be consequence of the presence of cannabinoids, particularly Δ<sup>9</sup>-tetrahydrocannabinol (THC) and CBD in the SHB. This study aimed to study the transcriptional profile of the liver of dairy cows and lambs fed SHB. Dairy cows received SHB or alfalfa pellet for four weeks of intervention (IP) and four weeks of withdrawal periods (WP). Finishing lambs were fed a control diet (CON), 10% (LH2) or 20% (HH2) SHB for 2 months or 1 month followed by 1-month SHB withdrawal (LH1 and HH1, respectively). RNA sequencing was performed, and the mRNA was annotated using the latest reference genomes. The RNAseq data were filtered, normalized for library size and composition, and statistically analyzed by DESeq2. The bioinformatic analysis was performed by using DAVID, Gene Set Enrichment Analysis (GSEA), and the Dynamic Impact Approach. Using a 0.2 FDR cut-off, we identified only ≤24 differentially expressed genes (DEG) in the liver by feeding SHB in dairy cows and a larger number of DEG in lambs (from 71 in HH1 vs. CON to 552 in LH1 vs. CON). The KEGG analysis demonstrated that feeding SHB in dairy cows and lambs had relatively minor to moderate metabolic alterations in dairy cows and lambs mainly associated with amino acids and lipid metabolism whereas cholesterol synthesis was overall activated in lambs. GSEA identified activation of PPAR signaling pathway only in dairy cows. We found an opposite effect on activation of metabolism of drug and xenobiotics by cytochrome P450 enzymes in dairy cows and lambs receiving less SHB but an inhibition in HH2 lambs. Immune system-related pathways were inhibited by feeding SHB in lambs, but the impact was minor. Cumulatively, inclusion of SHB containing cannabinoids in dairy and lambs demonstrate very little effects on the alteration of transcriptomic profile of the liver.
DOI: 10.15468/dl.7sx8cg
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ecuador",
 "TaxonKey is Sciurus granatensis Humboldt, 1811"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028299-240626123714530/datasets/export for details.
DOI: 10.15482/usda.adc/26195387
title: Data from: Alkaline hydrolysis of poultry carcasses and health risk assessment of exposure to target volatile organic compounds

description: This dataset was used in the generation of the paper titled: Alkaline hydrolysis of poultry carcasses and health risk assessment of exposure to target volatile organic compounds, published in the Journal of the ASABE, 2024, 67(2), 373-384.Animal carcass management is an essential part of a livestock production system. Alkaline hydrolysis is a relatively new disposal method used to digest and break down animal tissues. Despite the effectiveness of inactivating pathogens, alkaline hydrolysis has not been widely accepted as a disposal method because of high capital and operating costs, especially when done at high temperatures and pressure. The objectives of this research were 1) to test the efficacy of alkaline hydrolysis treatment of poultry carcasses at ambient temperature and pressure, and 2) to identify odor-causing volatile organic compounds (VOCs) emitted from the carcasses during the process and to calculate the health risks of exposure to these VOCs. 1M, 2M, and 4M potassium hydroxide solutions were used to hydrolysate chicken carcasses, and the headspace was sampled using 85 µm Carboxen/polydimethylsiloxane (CAR/PDMS) solid phase microextraction (SPME) fibers. The pH of the hydrolysates stayed above 13.1 during the study, which was a promising result in eliminating pathogens of concern. Concentrations of target VOCs fluctuated over 10 weeks, and concentrations of trimethyl amine, acetic acid, and propionic acid exceeded their recommended exposure limits. It was found that more than 17% of the workers exposed to the headspace gases 3h a day are at a high risk of developing serious chronic health problems. The results of this study indicated that alkaline hydrolysis of chicken carcasses at ambient conditions is feasible, but the exposure to headspace gases should be limited to less than 1h.All data was generated from lab-based experiments by co-authors.
DOI: 10.15482/usda.adc/26195387.v1
title: Data from: Alkaline hydrolysis of poultry carcasses and health risk assessment of exposure to target volatile organic compounds

description: This dataset was used in the generation of the paper titled: Alkaline hydrolysis of poultry carcasses and health risk assessment of exposure to target volatile organic compounds, published in the Journal of the ASABE, 2024, 67(2), 373-384.Animal carcass management is an essential part of a livestock production system. Alkaline hydrolysis is a relatively new disposal method used to digest and break down animal tissues. Despite the effectiveness of inactivating pathogens, alkaline hydrolysis has not been widely accepted as a disposal method because of high capital and operating costs, especially when done at high temperatures and pressure. The objectives of this research were 1) to test the efficacy of alkaline hydrolysis treatment of poultry carcasses at ambient temperature and pressure, and 2) to identify odor-causing volatile organic compounds (VOCs) emitted from the carcasses during the process and to calculate the health risks of exposure to these VOCs. 1M, 2M, and 4M potassium hydroxide solutions were used to hydrolysate chicken carcasses, and the headspace was sampled using 85 µm Carboxen/polydimethylsiloxane (CAR/PDMS) solid phase microextraction (SPME) fibers. The pH of the hydrolysates stayed above 13.1 during the study, which was a promising result in eliminating pathogens of concern. Concentrations of target VOCs fluctuated over 10 weeks, and concentrations of trimethyl amine, acetic acid, and propionic acid exceeded their recommended exposure limits. It was found that more than 17% of the workers exposed to the headspace gases 3h a day are at a high risk of developing serious chronic health problems. The results of this study indicated that alkaline hydrolysis of chicken carcasses at ambient conditions is feasible, but the exposure to headspace gases should be limited to less than 1h.All data was generated from lab-based experiments by co-authors.
DOI: 10.15468/dl.cydue9
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is BOLD:ABA2373"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028302-240626123714530/datasets/export for details.
DOI: 10.15468/dl.w6m4ph
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Penaeus monodon Fabricius, 1798"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028301-240626123714530/datasets/export for details.
DOI: 10.15468/dl.bcekbv
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Bats of Penang Island, Malaysia"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028303-240626123714530/datasets/export for details.
DOI: 10.6084/m9.figshare.26322076
title: BaikalSealDiveData.xlsx

description: Data used in the paper "Experience-based optimal foraging on planktonic prey in Baikal seals"
DOI: 10.6084/m9.figshare.26322076.v1
title: BaikalSealDiveData.xlsx

description: Data used in the paper "Experience-based optimal foraging on planktonic prey in Baikal seals"
DOI: 10.60688/lsuhs.26264273
title: Peak files from ChIPseq focusing on chromatin modifications

description: These files can be directly visualized by IGV. These peaks were called using "broad-peaks" using MACS.
DOI: 10.60688/lsuhs.26264273.v1
title: Peak files from ChIPseq focusing on chromatin modifications

description: These files can be directly visualized by IGV. These peaks were called using "broad-peaks" using MACS.
DOI: 10.60688/lsuhs.26264216
title: Peak files from ChIPseq data focusing on transcription factors

description: Peak files from ChIPseq data focusing on transcription factors. These files can be visualized using IGV.These peaks were called using "narrow-peaks" by MACS
DOI: 10.60688/lsuhs.26264216.v1
title: Peak files from ChIPseq data focusing on transcription factors

description: Peak files from ChIPseq data focusing on transcription factors. These files can be visualized using IGV.These peaks were called using "narrow-peaks" by MACS
DOI: 10.60688/lsuhs.26262245
title: bigWig files from ChIPseq

description: These bigWig files can be directly visualized through IGV and can be used to generate heatmaps through deeptools
DOI: 10.60688/lsuhs.26262245.v1
title: bigWig files from ChIPseq

description: These bigWig files can be directly visualized through IGV and can be used to generate heatmaps through deeptools
DOI: 10.60688/lsuhs.26254769
title: RNAseq data

description: This contains the read count, TPM, and metadata included in the LNCaP-ADT project. The calculated differential expressed result (CS-FBS vs Control) is also attached. <br>The TSV file can be opened by EXCEL and the .rds files are for R.
DOI: 10.60688/lsuhs.26254769.v1
title: RNAseq data

description: This contains the read count, TPM, and metadata included in the LNCaP-ADT project. The calculated differential expressed result (CS-FBS vs Control) is also attached. <br>The TSV file can be opened by EXCEL and the .rds files are for R.
DOI: 10.60688/lsuhs.26254559
title: ATACseq peak files

description: These are peak files/ annotated peak files from ATACseq experiments
DOI: 10.60688/lsuhs.26254559.v1
title: ATACseq peak files

description: These are peak files/ annotated peak files from ATACseq experiments
DOI: 10.60688/lsuhs.26254280
title: Scaled bigWig files from ATACseq

description: These are the scaled bigWig files generated from the original bigWig files. These were used for generating heatmaps while for the IGV tracks, please use the original bigWigs. <br>The LNCaP_w/woAndrogen.bw were generated by averaging all scaled bw files and they were used for heatmaps.
DOI: 10.60688/lsuhs.26254280.v1
title: Scaled bigWig files from ATACseq

description: These are the scaled bigWig files generated from the original bigWig files. These were used for generating heatmaps while for the IGV tracks, please use the original bigWigs. <br>The LNCaP_w/woAndrogen.bw were generated by averaging all scaled bw files and they were used for heatmaps.
DOI: 10.15468/dl.qjmqta
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Anogeissus leiocarpa (DC.) Guill. & Perr.",
 "Year 1904-2024"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028304-240626123714530/datasets/export for details.
DOI: 10.60688/lsuhs.26253572
title: Origianl bigWig files from ATACseq

description: All files were normalized. Although all ATACseq bigWig files were initially normalized as RPKM, strong batch effects were still detected during heatmap generation. To better compare samples, the experiments were further scaled. All samples within the same experiment were scaled to a certain scale factor and converted to new bigWig files, named with the ".bw" extension to differentiate them from the originals. The scale function and scale factors were also uploaded to GitHub as "scale_bigwigs.sh". The original records and accession IDs can be found in the "original_data_collection.csv" file from this project and in the manuscript. "E" stands for experiment.<br>
DOI: 10.60688/lsuhs.26253572.v1
title: Origianl bigWig files from ATACseq

description: All files were normalized. Although all ATACseq bigWig files were initially normalized as RPKM, strong batch effects were still detected during heatmap generation. To better compare samples, the experiments were further scaled. All samples within the same experiment were scaled to a certain scale factor and converted to new bigWig files, named with the ".bw" extension to differentiate them from the originals. The scale function and scale factors were also uploaded to GitHub as "scale_bigwigs.sh". The original records and accession IDs can be found in the "original_data_collection.csv" file from this project and in the manuscript. "E" stands for experiment.<br>
DOI: 10.15468/dl.d96zpm
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ecuador",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028289-240626123714530/datasets/export for details.
DOI: 10.15468/dl.786kbu
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Germany",
 "PublishingOrg is c8d737e0-2ff8-42e8-b8fc-6b805d26fc5f",
 "TaxonKey is Lepidoptera",
 "Year 2024-2024"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028305-240626123714530/datasets/export for details.
DOI: 10.15468/dl.6s8kss
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "PublishingCountry is Colombia",
 {
 "and" : [
 "Country is Colombia",
 {
 "not" : {
 "Issue" : [
 "is Country coordinate mismatch"
 ]
 }
 }
 ]
 }
 ]
 },
 "StateProvince is one of (caldas)"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028287-240626123714530/datasets/export for details.
DOI: 10.15468/dl.5y5dgr
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "CoordinateUncertaintyInMeters 0.0-10000.0",
 "Country is United States of America",
 "Geometry POLYGON((-98.94293 31.47644,-71.62376 31.47644,-71.62376 47.63039,-98.94293 47.63039,-98.94293 31.47644))",
 "TaxonKey is Dreissena polymorpha (Pallas, 1771)"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028307-240626123714530/datasets/export for details.
DOI: 10.15468/dl.ey85t7
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Continent is North America",
 "Geometry POLYGON((-102.11308 19.96247,-102.1423 19.88176,-102.04742 19.83576,-101.94179 19.83668,-101.8831 19.91579,-101.94151 19.99457,-102.11308 19.96247))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028308-240626123714530/datasets/export for details.
DOI: 10.15468/dl.yayh4n
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ecuador",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028297-240626123714530/datasets/export for details.
DOI: 10.15468/dl.rtwpzd
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ecuador",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028288-240626123714530/datasets/export for details.
DOI: 10.15468/dl.b26mqn
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Dominican Republic, Cuba, Haiti, Puerto Rico, Jamaica)",
 "Depth 256.0-9999.0m",
 "TaxonKey is one of (Cnidaria, Anthozoa)"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028309-240626123714530/datasets/export for details.
DOI: 10.5517/ccdc.csd.cc24rj6n
title: CCDC 1988811: Experimental Crystal Structure Determination

description: Related Article: Briana R. Schrage, Victor N. Nemykin, Christopher J. Ziegler|2020|Chem.Commun.|56|6628|doi:10.1039/D0CC03060K
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc24txkg
title: CCDC 1991116: Experimental Crystal Structure Determination

description: Related Article: Amalia García-García, Estitxu Echenique-Errandonea, Javier Cepeda, Duane Choquesillo-Lazarte, José M. Seco, Alfonso Salinas-Castillo, Manuel Sánchez-Moreno, José M. Méndez-Arriaga, Antonio Rodríguez-Diéguez|2020|Inorg.Chim.Acta|509|119708|doi:10.1016/j.ica.2020.119708
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc24w9r3
title: CCDC 1992455: Experimental Crystal Structure Determination

description: Related Article: Marta Guembe-García, Saúl Vallejos, Israel Carreira-Barral, Saturnino Ibeas, Félix C. García, Victoria Santaolalla-García, Natalia Moradillo-Renuncio, José M. García|2020|React.Funct.Polym.|154|104685|doi:10.1016/j.reactfunctpolym.2020.104685
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc24x90d
title: CCDC 1993393: Experimental Crystal Structure Determination

description: Related Article: Arkalekha Mandal, Bhaskar Nath, Bhisma Kumar Patel|2020|Polyhedron|189|114730|doi:10.1016/j.poly.2020.114730
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc24xjsd
title: CCDC 1993634: Experimental Crystal Structure Determination

description: Related Article: John J. Kiernicki, Matthias Zeller, Nathaniel K. Szymczak|2020|Inorg.Chem.|59|9279|doi:10.1021/acs.inorgchem.0c01163
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc24xxtt
title: CCDC 1994007: Experimental Crystal Structure Determination

description: Related Article: Marko Stojičkov, Sabrina Sturm, Božidar Čobeljić, Andrej Pevec, Mima Jevtović, Andreas Scheitler, Dušanka Radanović, Laura Senft, Iztok Turel, Katarina Andjelković, Matthias Miehlich, Karsten Meyer, Ivana Ivanović‐Burmazović|2020|Eur.J.Inorg.Chem.|2020|3347|doi:10.1002/ejic.202000415
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc21c9mc
title: CCDC 1887702: Experimental Crystal Structure Determination

description: Related Article: Avinash Kumar Sonkar, Abhishek Rai, Kamini Tripathi, Richa Yadav, Manjari Shukla, Brijesh Singh Chauhan, S. Srikrishna, Lallan Mishra|2020|Sens.Actuators,B|327|129011|doi:10.1016/j.snb.2020.129011
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.