cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7483/opendata.delphi.6yec.bh2a
title: DELPHI simulation data xs_hzha03pyth6156hcee_e206.5_m65.0_ca0_1l_u1
DOI: 10.7483/opendata.delphi.e5nb.xerj
title: DELPHI simulation data xs_hzha03pyth6156hcnn_e205_m42.5_ka0_1l_e1
DOI: 10.7483/opendata.delphi.z0gz.oz8j
title: DELPHI simulation data xs_hzha03pyth6156hinvee_e206.5_m90_ra0_1l_u1
DOI: 10.15468/dl.agedba
title: Occurrence Download

description: A dataset containing 256 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Africa",
 "Geometry POLYGON((-22.61184 -29.53065,16.94449 -29.53065,16.94449 30.21192,-22.61184 30.21192,-22.61184 -29.53065))",
 "TaxonKey is Aetobatus Blainville, 1816"
 ]
}

 The dataset includes 256 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040527-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13830644
title: Time-Lapse Fluorescence Microphotography, LUC Activity, and Phenotypic Analysis Datasets of Novel Mechanisms of Strigolactone-Induced DWARF14 Degradation in Arabidopsis thaliana

description: Time-Lapse Fluorescence Microphotography Data

This dataset contains raw files in .lif format from time-lapse fluorescence microphotography experiments, as detailed in Sanchez et al. (2024). Each dataset includes multiple images, and to facilitate interpretation, an additional Excel file titled "Overview of Time-Lapse Fluorescence Microphotography Datasets" is provided. This file includes key information such as plant genotypes and treatment of the plants in each image/position. In most experiments, a control plant (35S:D14-GFP; Col-0) was used for quality control purposes but was excluded from the data analysis.

LUCIFERASE activity assays 

This dataset contains raw .txt files from LUCIFERASE activity assays as described in Sanchez et al. (2024). The files are organized by figure and include the counts per second (cps) values as measured by the luminometer for each experiment. In addition, each file also provides a brief description including the plant genotypes, treatment details, and the time of treatment application.

Phenotypic analysis of adult plants 

A .txt file containing measurements of plant height (cm) and the number of branches (RI/RL) for plants analyzed in Sanchez et al. (2024).
DOI: 10.5281/zenodo.13830645
title: Time-Lapse Fluorescence Microphotography, LUC Activity, and Phenotypic Analysis Datasets of Novel Mechanisms of Strigolactone-Induced DWARF14 Degradation in Arabidopsis thaliana

description: Time-Lapse Fluorescence Microphotography Data

This dataset contains raw files in .lif format from time-lapse fluorescence microphotography experiments, as detailed in Sanchez et al. (2024). Each dataset includes multiple images, and to facilitate interpretation, an additional Excel file titled "Overview of Time-Lapse Fluorescence Microphotography Datasets" is provided. This file includes key information such as plant genotypes and treatment of the plants in each image/position. In most experiments, a control plant (35S:D14-GFP; Col-0) was used for quality control purposes but was excluded from the data analysis.

LUCIFERASE activity assays 

This dataset contains raw .txt files from LUCIFERASE activity assays as described in Sanchez et al. (2024). The files are organized by figure and include the counts per second (cps) values as measured by the luminometer for each experiment. In addition, each file also provides a brief description including the plant genotypes, treatment details, and the time of treatment application.

Phenotypic analysis of adult plants 

A .txt file containing measurements of plant height (cm) and the number of branches (RI/RL) for plants analyzed in Sanchez et al. (2024).
DOI: 10.15468/dl.c6g46v
title: Occurrence Download

description: A dataset containing 1410973 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON((24.96738 22.02135,37.4884 22.02135,34.5723 27.76243,35.02794 29.7308,34.37181 31.2982,32.80441 31.1524,31.36458 31.58981,29.08638 30.78789,25.86044 31.57159,24.96738 31.58981,24.93093 31.18885,24.96738 30.71498,24.73045 30.33225,25.00383 29.20225,24.96738 22.02135))"
 ]
}

 The dataset includes 1410973 records from 677 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040523-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17028/rd.lboro.26661985
title: Research Data for "Solvent-mediated rate deceleration of Diels-Alder reactions for enhanced selectivity: quantum mechanical insights"

description: Research Data for "Solvent-mediated rate deceleration of Diels-Alder reactions for enhanced selectivity: quantum mechanical insights" by U. Rehman, A. Mansha, and F. Plasser.Contents (folders and files are given in <b>bold</b>)Data for products, reactants and transition states is present in the folders named as <b>Products</b>, <b>Reactants</b> and <b>TSs</b>. These contain subfolders for the structures as defined within the main article.Each subfolder contains further subfolders:<b>sp</b>: Single point energy calculations for respective structure<b>opt</b>: Geometry optimization calculations for respective structureIn addition to <b>sp</b> and <b>opt</b> <b>1</b>, <b>2a</b> and <b>2d</b> also contain:<b>nbo</b>: Single point energy calculation with natural bonds orbitals analysisFiles in sp and opt folders are:<b>acetone.gjf</b>: Gaussian input file for respective structure in acetone<b>acetone.log</b>: Gaussian output file for respective structure in acetone<b>gas.gjf</b>: Gaussian input file for respective structure in gas phase<b>gas.log</b>: Gaussian output file for respective structure in gas phase<b>toluene.gjf</b>: Gaussian input file for respective structure in toluene<b>toluene.log</b>: Gaussian output file for respective structure in tolueneFiles in <b>nbo</b> folders are:<b>gas_0</b><b>.gjf</b>: Gaussian input file for respective structure with zero charge in gas phase<b>gas_0.LOG</b>: Gaussian output file for respective structure with zero charge in gas phase<b>gas_+1.gjf</b>: Gaussian input file for respective structure with +1 charge in gas phase<b>gas_+1.LOG</b>: Gaussian output file for respective structure with +1 charge in gas phase<b>gas_</b><b>-</b><b>1.gjf</b>: Gaussian input file for respective structure with -1 charge in gas phase<b>gas_-1.LOG</b>: Gaussian output file for respective structure with -1 charge in gas phaseData for calculations performed in n-hexane, diethylether, DCM  and DMSO is present in the folder named <b>extra_solvents</b>. Subfolders in <b>extra_solvents</b> are <b>n-hexane</b>, <b>diethylether</b>, <b>DCM</b>  and <b>DMSO</b>. Each of these include the following sub folders: <b>1   2d   3</b><b>d  </b><b>3d</b><b>' </b><b>TSd</b><b>  </b><b>TSd</b><b>'</b><b> </b>The above folders contain: <b>sp</b>: Single point energy calculations for respective structure in corresponding solvent <b>opt</b>: Geometry optimization calculations for respective structure in corresponding solvent <b>sp</b> and <b>opt</b> contain two files: <b>gaussian</b><b>.gjf</b> : input file for respective structure in corresponding solvent <b>gaussian.log</b> : output file for respective structure in corresponding solvent
DOI: 10.17028/rd.lboro.26661985.v1
title: Research Data for "Solvent-mediated rate deceleration of Diels-Alder reactions for enhanced selectivity: quantum mechanical insights"

description: Research Data for "Solvent-mediated rate deceleration of Diels-Alder reactions for enhanced selectivity: quantum mechanical insights" by U. Rehman, A. Mansha, and F. Plasser.Contents (folders and files are given in <b>bold</b>)Data for products, reactants and transition states is present in the folders named as <b>Products</b>, <b>Reactants</b> and <b>TSs</b>. These contain subfolders for the structures as defined within the main article.Each subfolder contains further subfolders:<b>sp</b>: Single point energy calculations for respective structure<b>opt</b>: Geometry optimization calculations for respective structureIn addition to <b>sp</b> and <b>opt</b> <b>1</b>, <b>2a</b> and <b>2d</b> also contain:<b>nbo</b>: Single point energy calculation with natural bonds orbitals analysisFiles in sp and opt folders are:<b>acetone.gjf</b>: Gaussian input file for respective structure in acetone<b>acetone.log</b>: Gaussian output file for respective structure in acetone<b>gas.gjf</b>: Gaussian input file for respective structure in gas phase<b>gas.log</b>: Gaussian output file for respective structure in gas phase<b>toluene.gjf</b>: Gaussian input file for respective structure in toluene<b>toluene.log</b>: Gaussian output file for respective structure in tolueneFiles in <b>nbo</b> folders are:<b>gas_0</b><b>.gjf</b>: Gaussian input file for respective structure with zero charge in gas phase<b>gas_0.LOG</b>: Gaussian output file for respective structure with zero charge in gas phase<b>gas_+1.gjf</b>: Gaussian input file for respective structure with +1 charge in gas phase<b>gas_+1.LOG</b>: Gaussian output file for respective structure with +1 charge in gas phase<b>gas_</b><b>-</b><b>1.gjf</b>: Gaussian input file for respective structure with -1 charge in gas phase<b>gas_-1.LOG</b>: Gaussian output file for respective structure with -1 charge in gas phase
DOI: 10.17028/rd.lboro.26661985.v2
title: Research Data for "Solvent-mediated rate deceleration of Diels-Alder reactions for enhanced selectivity: quantum mechanical insights"

description: Research Data for "Solvent-mediated rate deceleration of Diels-Alder reactions for enhanced selectivity: quantum mechanical insights" by U. Rehman, A. Mansha, and F. Plasser.Contents (folders and files are given in <b>bold</b>)Data for products, reactants and transition states is present in the folders named as <b>Products</b>, <b>Reactants</b> and <b>TSs</b>. These contain subfolders for the structures as defined within the main article.Each subfolder contains further subfolders:<b>sp</b>: Single point energy calculations for respective structure<b>opt</b>: Geometry optimization calculations for respective structureIn addition to <b>sp</b> and <b>opt</b> <b>1</b>, <b>2a</b> and <b>2d</b> also contain:<b>nbo</b>: Single point energy calculation with natural bonds orbitals analysisFiles in sp and opt folders are:<b>acetone.gjf</b>: Gaussian input file for respective structure in acetone<b>acetone.log</b>: Gaussian output file for respective structure in acetone<b>gas.gjf</b>: Gaussian input file for respective structure in gas phase<b>gas.log</b>: Gaussian output file for respective structure in gas phase<b>toluene.gjf</b>: Gaussian input file for respective structure in toluene<b>toluene.log</b>: Gaussian output file for respective structure in tolueneFiles in <b>nbo</b> folders are:<b>gas_0</b><b>.gjf</b>: Gaussian input file for respective structure with zero charge in gas phase<b>gas_0.LOG</b>: Gaussian output file for respective structure with zero charge in gas phase<b>gas_+1.gjf</b>: Gaussian input file for respective structure with +1 charge in gas phase<b>gas_+1.LOG</b>: Gaussian output file for respective structure with +1 charge in gas phase<b>gas_</b><b>-</b><b>1.gjf</b>: Gaussian input file for respective structure with -1 charge in gas phase<b>gas_-1.LOG</b>: Gaussian output file for respective structure with -1 charge in gas phaseData for calculations performed in n-hexane, diethylether, DCM  and DMSO is present in the folder named <b>extra_solvents</b>. Subfolders in <b>extra_solvents</b> are <b>n-hexane</b>, <b>diethylether</b>, <b>DCM</b>  and <b>DMSO</b>. Each of these include the following sub folders: <b>1   2d   3</b><b>d  </b><b>3d</b><b>' </b><b>TSd</b><b>  </b><b>TSd</b><b>'</b><b> </b>The above folders contain: <b>sp</b>: Single point energy calculations for respective structure in corresponding solvent <b>opt</b>: Geometry optimization calculations for respective structure in corresponding solvent <b>sp</b> and <b>opt</b> contain two files: <b>gaussian</b><b>.gjf</b> : input file for respective structure in corresponding solvent <b>gaussian.log</b> : output file for respective structure in corresponding solvent
DOI: 10.13016/qxgj-ymmo
title: Dataset for "Resistance of Boron Nitride Nanotubes to Radiation-Induced Oxidation" as published in The Journal of Physical Chemistry C
DOI: 10.15468/dl.87y325
title: Occurrence Download

description: A dataset containing 98 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dolichandrone falcata (Wall. ex DC.) Seem."
 ]
}

 The dataset includes 98 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040528-240906103802322/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.27168927
title: Supplementary Material for: Analyzing the Role of Specific DAMPs-Related Genes in Osteoarthritis and Investigating the Association Between β-Amyloid and ApoE Isoforms

description: Introduction：Osteoarthritis (OA) is a prevalent chronic joint disorder. It is characterized by an immune response that maintains a low level of inflammation throughout its progression. During OA, cartilage degradation leads to the release of damage-associated molecular patterns (DAMPs), which intensify the inflammatory response. β-amyloid, is a well-recognized DAMP in OA, can interact with APOE isoforms.
Methods：This study identified DAMPs-related genes in OA using bioinformatics techniques. Additionally, we examined the expression levels of β-amyloid and ApoE isoforms by ELISA.
Results: We identified 10 key genes by machine learning techniques. Immune infiltration analysis revealed upregulation of various immune cell types in OA cartilage, underscoring the critical role of inflammation in OA pathogenesis. In the validation study, elevated serum levels of β-amyloid in Knee Osteoarthritis (KOA) patients were confirmed, showing positive correlations with APOE2 and ApoE4. Notably, ApoE3 was identified as an independent protective factor against KOA.
Conclusion: In this bioinformatics analysis, we identified the DAMPs-related genes of KOA, and explored their potential functions and regulatory networks. The high expression of β-Amyloid in KOA was confirmed by experiments, and the correlation between βAmyloid and ApoE2, ApoE4 in KOA was revealed for the first time, this provides a new way to explore the pathogenesis of KOA and to study the therapeutic targets of KOA.
DOI: 10.15468/dl.8pb4nt
title: Occurrence Download

description: A dataset containing 713 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dolichandrone spathacea (L.fil.) K.Schum."
 ]
}

 The dataset includes 713 records from 55 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040530-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13885887
title: Data of Fluorescent Aerosol Particles during the Pallas Cloud Experiment 2022

description: Overview: This data set contains number concentrations and number size distributions of total aerosol particles (TAPs), fluorescent aerosol particles (FAPs) and highly fluorescent aerosol particles (HFAPs) of diameter 0.5 to 30 µm (optical equivalent diameter) obtained by a Wideband Integrated Bioaerosol Sensor 5/NEO (Droplet Measurement Technologies) during the Pallas Cloud Experiment 2022 (PaCE22) campaign in the sub Arctic region of Finish Lapland. The instrument was operated between 17.09.2022 17:00 UTC and 13.12.2022 21:00 UTC at Sammaltunturi Station (67.9733°N 24.1157°E) at 564 m above sea level in the Pallas Atmosphere-Ecosystem Supersite and was connected to a heated total suspended particles (TSP) inlet.

Instrument description: The WIBS samples air with a sample flow rate of 0.3 L/min and uses a 635 nm diode laser to measure the size of single particles between 0.5 and 30 µm and to trigger two xenon lamps with excitation wavelengths of 280 nm and 370 nm. Fluorescence emission intensity is measured in two emission windows of 310 - 400 nm and 420 - 650 nm resulting in three main fluorescence channels: FL1 (excitation 280 nm and emission 310 – 400 nm), FL2 (excitation 280 nm and emission 420 - 650 nm) and FL3 (excitation 370 nm and emission 420 - 650 nm). A particle is considered as fluorescent, if it exceeds the three sigma fluorescence threshold (forced trigger intensity plus three standard deviations) in any channel (FAP). A particle is considered highly fluorescent if it exceeds the nine sigma fluorescence threshold (forced trigger intensity plus nine standard deviations) in any channel (HFAP). Both FAPs and HFAPs are split into 10 types of fluorescent particles each, using the Perring nomenclature (Perring et al., 2015): (H)FAP_ A (FL1 only),  (H)FAP_ B (FL2 only), (H)FAP_ C (FL3 only), (H)FAP_ AB (FL1 and FL2 only), (H)FAP_ AC (FL1 and FL3 only), (H)FAP_ BC(FL2 and FL3 only) and  (H)FAP_ ABC (FL1 and FL2 and FL3), (H)FAP_ FL1 (A+AB+AC+ABC), (H)FAP_ FL2(B+AB+BC+BC) and (H)FAP_ FL3 (C+AC+BC+ABC). 

The files are separated by date (in UTC) and are named the following: TUW.WIBS_N.b1.yyyyMMdd.hhmm.csv. The data file processing level is b1. Quality control checks were applied and missing data points or those with bad values were set to -9999.9.

References: Perring et al., “Airborne observations of regional variation in fluorescent aerosol across the United States,” J Geophys Res-Atmos, vol. 120, Art. no. 3, 2015.
DOI: 10.5281/zenodo.13885888
title: Data of Fluorescent Aerosol Particles during the Pallas Cloud Experiment 2022

description: Overview: This data set contains number concentrations and number size distributions of total aerosol particles (TAPs), fluorescent aerosol particles (FAPs) and highly fluorescent aerosol particles (HFAPs) of diameter 0.5 to 30 µm (optical equivalent diameter) obtained by a Wideband Integrated Bioaerosol Sensor 5/NEO (Droplet Measurement Technologies) during the Pallas Cloud Experiment 2022 (PaCE22) campaign in the sub Arctic region of Finish Lapland. The instrument was operated between 17.09.2022 17:00 UTC and 13.12.2022 21:00 UTC at Sammaltunturi Station (67.9733°N 24.1157°E) at 564 m above sea level in the Pallas Atmosphere-Ecosystem Supersite and was connected to a heated total suspended particles (TSP) inlet.

Instrument description: The WIBS samples air with a sample flow rate of 0.3 L/min and uses a 635 nm diode laser to measure the size of single particles between 0.5 and 30 µm and to trigger two xenon lamps with excitation wavelengths of 280 nm and 370 nm. Fluorescence emission intensity is measured in two emission windows of 310 - 400 nm and 420 - 650 nm resulting in three main fluorescence channels: FL1 (excitation 280 nm and emission 310 – 400 nm), FL2 (excitation 280 nm and emission 420 - 650 nm) and FL3 (excitation 370 nm and emission 420 - 650 nm). A particle is considered as fluorescent, if it exceeds the three sigma fluorescence threshold (forced trigger intensity plus three standard deviations) in any channel (FAP). A particle is considered highly fluorescent if it exceeds the nine sigma fluorescence threshold (forced trigger intensity plus nine standard deviations) in any channel (HFAP). Both FAPs and HFAPs are split into 10 types of fluorescent particles each, using the Perring nomenclature (Perring et al., 2015): (H)FAP_ A (FL1 only),  (H)FAP_ B (FL2 only), (H)FAP_ C (FL3 only), (H)FAP_ AB (FL1 and FL2 only), (H)FAP_ AC (FL1 and FL3 only), (H)FAP_ BC(FL2 and FL3 only) and  (H)FAP_ ABC (FL1 and FL2 and FL3), (H)FAP_ FL1 (A+AB+AC+ABC), (H)FAP_ FL2(B+AB+BC+BC) and (H)FAP_ FL3 (C+AC+BC+ABC). 

The files are separated by date (in UTC) and are named the following: TUW.WIBS_N.b1.yyyyMMdd.hhmm.csv. The data file processing level is b1. Quality control checks were applied and missing data points or those with bad values were set to -9999.9.

References: Perring et al., “Airborne observations of regional variation in fluorescent aerosol across the United States,” J Geophys Res-Atmos, vol. 120, Art. no. 3, 2015.
DOI: 10.17909/7559-ne05
title: Data used in the paper "Probing 2D Asymmetries of an Exoplanet Atmosphere from Chromatic Transit Variation"

description: These data were obtained using JWST NIRSpec/G395H as part of the JWST Transiting Exoplanet Community Director’s Discretionary Early Release Science Program. We used the uncalibrated data and calibrated them as described in the paper.
DOI: 10.6084/m9.figshare.27168573
title: Kelp et al. (2024) Journal of Experimental Biology Data file

description: Data used for the statistical analysis in Kelp et al (2024) Journal of Experimental Biology
DOI: 10.5281/zenodo.13889006
title: The in situ Mg/Ca ratios of planktonic foraminifera shells in the northeastern South China Sea: an attempt to get efficient and reliable proxies

description: Planktonic foraminifera are one of the important carriers of the physico-chemical environments. Nowadays, the development of in situ microanalysis technology provides a new opportunity for further understanding the distribution and variation of trace element concentrations in foraminifera shells. In this study, we focus on the in situ Mg/Ca ratios in four planktonic foraminifera shells from the surface sediments of the northeastern slope of the South China Sea (SCS). The results of electron microprobe mapping indicate that G. ruber had periodic bands of high Mg contents and Mg/Ca ratios, consistent with the results of LA-ICP-MS. In contrast, N. dutertrei, P. obliquiloculata, and G.inflata had thick calcite layer with low Mg contents and Mg/Ca ratios. The Mg/Ca ratios of shells may be attributed to symbionts, but the physiological regulation may also have some contributions. Meanwhile, contaminants may lead to the relatively higher Mg/Ca ratios. Therefore, the large Mg/Ca variations in foraminifera shells are not only affected by the surrounding seawater temperature but also constrained by other factors. At last, we employed this method to reconstruct the Mg/Ca-SST in the northeastern SCS over the past ~3000 years. The similar trend to the previous SST records proves that this method is reliable. We hope that this method can be widely applied in the future due to the efficient, fast, and high spatial resolution with small sample amounts.
DOI: 10.5281/zenodo.13889007
title: The in situ Mg/Ca ratios of planktonic foraminifera shells in the northeastern South China Sea: an attempt to get efficient and reliable proxies

description: Planktonic foraminifera are one of the important carriers of the physico-chemical environments. Nowadays, the development of in situ microanalysis technology provides a new opportunity for further understanding the distribution and variation of trace element concentrations in foraminifera shells. In this study, we focus on the in situ Mg/Ca ratios in four planktonic foraminifera shells from the surface sediments of the northeastern slope of the South China Sea (SCS). The results of electron microprobe mapping indicate that G. ruber had periodic bands of high Mg contents and Mg/Ca ratios, consistent with the results of LA-ICP-MS. In contrast, N. dutertrei, P. obliquiloculata, and G.inflata had thick calcite layer with low Mg contents and Mg/Ca ratios. The Mg/Ca ratios of shells may be attributed to symbionts, but the physiological regulation may also have some contributions. Meanwhile, contaminants may lead to the relatively higher Mg/Ca ratios. Therefore, the large Mg/Ca variations in foraminifera shells are not only affected by the surrounding seawater temperature but also constrained by other factors. At last, we employed this method to reconstruct the Mg/Ca-SST in the northeastern SCS over the past ~3000 years. The similar trend to the previous SST records proves that this method is reliable. We hope that this method can be widely applied in the future due to the efficient, fast, and high spatial resolution with small sample amounts.