cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.20329911.v1
title: Additional file 3 of Characterization of polymorphic microsatellite markers for the Japanese endangered land snail Mandarina

description: Additional file 3. List of combinations of markers in the multiplex PCR. The table includes combination name, loci in each combination, and fluorescent label. A dagger (‡) and an asterisk (*) indicate that loci were not available for M. chichijimana and M. suenoae, respectively.
DOI: 10.5281/zenodo.6665072
title: Type IIP Supernovae IV. Shock Breakout from Progenitor Stars Modeled with Convective Overshoot and Mass Loss [Dataset]

description: Input and output files of MESA and STELLA associated with the published journal article Balaji et al. (2022; doi:10.3847/1538-4357/ac7528). We used MESA version r-10398 and MESA SDK version 20180822. We employ two sets of mass loss schemes: a standard “Dutch” scheme and an “enhanced” episodic late mass loss scheme to construct circumstellar matter. Evolution of the enhanced mass loss models in MESA from the pre-main sequence stage through nuclear burning stages until just before core-collapse is contained in “pre-ccsn_enhanced_mass_loss.tar.xz”. The “MESA_inputs” folder contains all the inlist files and “run_star_extras.f”. “run_star_extras.f” is the same for all the enhanced mass loss models. The inlists for each of the different models can be easily obtained by editing the parameters: “initial_mass” in “inlist_cluster”, overshoot factors in “inlist_control” and the saved model names in “inlist_convert” and “inlist_star”. Each of the “#M_z0.0060_f_#_f0_0.005.tar.xz” directories, indicative of a model of particular ZAMS mass and overshoot parameter (f), contains “*.mod” files and a “LOGS” directory which in turn contains “history.data” files and the “profile#.data” file at core-collapse. Similar data files for the Dutch mass loss models are given in the Zenodo publication: https://doi.org/10.5281/zenodo.3783492 The “ccsn.tar.xz” folder contains input and output files from the core-collapse step executed in MESA, separately for the Dutch mass loss and enhanced mass loss models. The “MESA_inputs” folder contains all the inlist files where “run_star_extras.f” is the same for all the Dutch mass loss models and for all the enhanced mass loss models separately. The inlists for each of the different models can be obtained by editing “initial_mass” and “inject_until_reach_model_with_total_energy” in “inlist_edep”. Each of the “#M_z0.0060_f_#_f0_0.005_edep_#.tar.xz” directories, now, also indicative of the EDEP of explosion contains the “*.mod” files after every step, the “mesa.abn” and “mesa.hyd” files which initialise STELLA, and a LOGS directory which contains the “history.data” files after every step. The “STELLA.tar.xz” folder contains the output files and “stella_extras” from STELLA for each of the Dutch mass loss and Enhanced mass models separately in a “res” directory. For the Dutch mass loss, 12 solar mass, f = 0.025, EDEP = 1.0 FOE model which was studied extensively in our work, the “mesa.dat” file inside "/strad/run" of STELLA was modified to display profiles of radiation hydrodynamic variables (in “mesa.swd”) at earlier time instants than what is reported by STELLA, by default. The python code: "csm-profile-maker.py" constructs profiles of circumstellar matter from mass loss data from MESA which was then appended to the models before initialisation of STELLA. For more details on the methods of simulations, see section 4 of the published article.
DOI: 10.5281/zenodo.6665071
title: Type IIP Supernovae IV. Shock Breakout from Progenitor Stars Modeled with Convective Overshoot and Mass Loss [Dataset]

description: Input and output files of MESA and STELLA associated with the published journal article Balaji et al. (2022; doi:10.3847/1538-4357/ac7528). We used MESA version r-10398 and MESA SDK version 20180822. We employ two sets of mass loss schemes: a standard “Dutch” scheme and an “enhanced” episodic late mass loss scheme to construct circumstellar matter. Evolution of the enhanced mass loss models in MESA from the pre-main sequence stage through nuclear burning stages until just before core-collapse is contained in “pre-ccsn_enhanced_mass_loss.tar.xz”. The “MESA_inputs” folder contains all the inlist files and “run_star_extras.f”. “run_star_extras.f” is the same for all the enhanced mass loss models. The inlists for each of the different models can be easily obtained by editing the parameters: “initial_mass” in “inlist_cluster”, overshoot factors in “inlist_control” and the saved model names in “inlist_convert” and “inlist_star”. Each of the “#M_z0.0060_f_#_f0_0.005.tar.xz” directories, indicative of a model of particular ZAMS mass and overshoot parameter (f), contains “*.mod” files and a “LOGS” directory which in turn contains “history.data” files and the “profile#.data” file at core-collapse. Similar data files for the Dutch mass loss models are given in the Zenodo publication: https://doi.org/10.5281/zenodo.3783492 The “ccsn.tar.xz” folder contains input and output files from the core-collapse step executed in MESA, separately for the Dutch mass loss and enhanced mass loss models. The “MESA_inputs” folder contains all the inlist files where “run_star_extras.f” is the same for all the Dutch mass loss models and for all the enhanced mass loss models separately. The inlists for each of the different models can be obtained by editing “initial_mass” and “inject_until_reach_model_with_total_energy” in “inlist_edep”. Each of the “#M_z0.0060_f_#_f0_0.005_edep_#.tar.xz” directories, now, also indicative of the EDEP of explosion contains the “*.mod” files after every step, the “mesa.abn” and “mesa.hyd” files which initialise STELLA, and a LOGS directory which contains the “history.data” files after every step. The “STELLA.tar.xz” folder contains the output files and “stella_extras” from STELLA for each of the Dutch mass loss and Enhanced mass models separately in a “res” directory. For the Dutch mass loss, 12 solar mass, f = 0.025, EDEP = 1.0 FOE model which was studied extensively in our work, the “mesa.dat” file inside "/strad/run" of STELLA was modified to display profiles of radiation hydrodynamic variables (in “mesa.swd”) at earlier time instants than what is reported by STELLA, by default. The python code: "csm-profile-maker.py" constructs profiles of circumstellar matter from mass loss data from MESA which was then appended to the models before initialisation of STELLA. For more details on the methods of simulations, see section 4 of the published article.
DOI: 10.6084/m9.figshare.17182985.v4
title: A bankfull geometry dataset for major exorheic rivers on the Qinghai-Tibet Plateau

description: Based on the Sentinel-2 and Landsat 5/7/8 multispectral instrument imageries combined with in-situ measured hydrological data, bankfull river geometry of six major exorheic river basins of the Qinghai-Tibet Plateau (the upper Yellow River, upper Jinsha River, Yalong River, Lantsang River, Nu River and Yalung Zangbo River) are presented. River surface of six mainstreams and major tributaries are included. For each river basin, two types of rivers are included: connected and disconnected rivers. Format of the dataset is .shp exported from the ArcGIS 10.5. Three products are included in the dataset: one original product (bankfull river surface dataset) and two derived products (bankfull river width dataset and bankfull river surface area dataset with a 1 km river length interval). These three products are in three folders. The first folder, “1-Bankfull River Surface”, contains river surface vectors for six river basins in the .shp file. The second folder, “2-Bankfull River Width”, contains bankfull river widths and corresponding coordinates with a 1 km-step river length for six mainstreams and some connected tributaries in .xlsx format. The river width vectors in the .shp files are also provided in the second folder. The third folder, “3-Bankfull River Surface Area”, contains bankfull river surface areas and corresponding coordinates with a 1 km-step river length for six mainstreams and some connected tributaries in .xlsx format.
DOI: 10.5281/zenodo.6761040
title: Supporting Information for "Wave heating during the helium flash and lithium-enhanced clump stars"

description: "data" contains the data used to generate the plots in this paper. "batches" contains a log of nearly every MESA run performed in this work (including ~all failed experiments). These are stored as Python3 Pickle files. Experiments were run using the RemoteExperiments software package (https://github.com/adamjermyn/remote_experiments). See the documentation there for further information on the data format for these files. "Stokes_Experiments" contains a git repository which includes both the final version of the code used in our canonical run as well as the full history of (nearly) all experiments we performed along the way. Each experiment is a commit (detached from any branch) with the commit message "patch". "Scripts" contains both the scripts we used to run these experiments and those we used to analyze them and make the plots in the paper. Further detail is given in the paper itself.
DOI: 10.5281/zenodo.6761039
title: Supporting Information for "Wave heating during the helium flash and lithium-enhanced clump stars"

description: "data" contains the data used to generate the plots in this paper. "batches" contains a log of nearly every MESA run performed in this work (including ~all failed experiments). These are stored as Python3 Pickle files. Experiments were run using the RemoteExperiments software package (https://github.com/adamjermyn/remote_experiments). See the documentation there for further information on the data format for these files. "Stokes_Experiments" contains a git repository which includes both the final version of the code used in our canonical run as well as the full history of (nearly) all experiments we performed along the way. Each experiment is a commit (detached from any branch) with the commit message "patch". "Scripts" contains both the scripts we used to run these experiments and those we used to analyze them and make the plots in the paper. Further detail is given in the paper itself.
DOI: 10.6084/m9.figshare.20330008
title: Additional file 2 of Surgical face masks do not impair the decoding of facial expressions of negative affect more severely in older than in younger adults

description: Additional file 2: Mask condition by subject, model and emotion.
DOI: 10.6084/m9.figshare.20330008.v1
title: Additional file 2 of Surgical face masks do not impair the decoding of facial expressions of negative affect more severely in older than in younger adults

description: Additional file 2: Mask condition by subject, model and emotion.
DOI: 10.6084/m9.figshare.20330011
title: Additional file 3 of Surgical face masks do not impair the decoding of facial expressions of negative affect more severely in older than in younger adults

description: Additional file 3: Subjects' emotion judgements by subject, model and emotion.
DOI: 10.6084/m9.figshare.20330014
title: Additional file 4 of Surgical face masks do not impair the decoding of facial expressions of negative affect more severely in older than in younger adults

description: Additional file 4: Subjects' confidence ratings (scaled to unity) by subject, model and emotion.
DOI: 10.6084/m9.figshare.20330011.v1
title: Additional file 3 of Surgical face masks do not impair the decoding of facial expressions of negative affect more severely in older than in younger adults

description: Additional file 3: Subjects' emotion judgements by subject, model and emotion.
DOI: 10.6084/m9.figshare.20330014.v1
title: Additional file 4 of Surgical face masks do not impair the decoding of facial expressions of negative affect more severely in older than in younger adults

description: Additional file 4: Subjects' confidence ratings (scaled to unity) by subject, model and emotion.
DOI: 10.6084/m9.figshare.20330016
title: Additional file 1 of Fake anabolic androgenic steroids on the black market – a systematic review and meta-analysis on qualitative and quantitative analytical results found within the literature

description: Additional file 1. ToxRTool quality appraisal results.
DOI: 10.6084/m9.figshare.20330016.v1
title: Additional file 1 of Fake anabolic androgenic steroids on the black market – a systematic review and meta-analysis on qualitative and quantitative analytical results found within the literature

description: Additional file 1. ToxRTool quality appraisal results.
DOI: 10.6084/m9.figshare.20330022
title: Additional file 3 of Fake anabolic androgenic steroids on the black market – a systematic review and meta-analysis on qualitative and quantitative analytical results found within the literature

description: Additional file 3. Summary extraction form used for data analysis.
DOI: 10.6084/m9.figshare.20330022.v1
title: Additional file 3 of Fake anabolic androgenic steroids on the black market – a systematic review and meta-analysis on qualitative and quantitative analytical results found within the literature

description: Additional file 3. Summary extraction form used for data analysis.
DOI: 10.5281/zenodo.6850862
title: OP monochromatic data table

description: Table containing manipulated data from the OP monochromatic data tables, that is used for computing the Rosseland mean opacity and radiative levitation when "op_mono_method = 'mombarg' ". Columns: Z, temperature index, electron density index, electrons per atom, mean molecular weight, monochromatic opacities (10000x), stimulated emission factors (10000x)
DOI: 10.6084/m9.figshare.20330046
title: Additional file 1 of Sulfate-reducing bioreactors subjected to high sulfate loading rate or acidity: variations in microbial consortia

description: Additional file 1. Archaeal and bacterial metabolic functions in bioreactors according to Functional Annotation of Prokaryotic Taxa (FAPROTAX) (Louca et al. 2016) with a modified database (Bomberg 2020).
DOI: 10.6084/m9.figshare.20330046.v1
title: Additional file 1 of Sulfate-reducing bioreactors subjected to high sulfate loading rate or acidity: variations in microbial consortia

description: Additional file 1. Archaeal and bacterial metabolic functions in bioreactors according to Functional Annotation of Prokaryotic Taxa (FAPROTAX) (Louca et al. 2016) with a modified database (Bomberg 2020).
DOI: 10.3886/e173001v1-123380
title: The effect of COVID on Oral Reading Fluency during the 2020–2021 Academic Year

description: Education has faced unprecedented disruption during the COVID pandemic. Understanding how students have adapted as we have entered a different phase of the pandemic and some communities have returned to more typical schooling will inform a suite of policy interventions and subsequent research. We use data from an oral reading fluency assessment---a rapid assessment taking only a few minutes that measures a fundamental reading skill---to examine COVID’s effects on children’s reading ability during the pandemic. We find that students in the first 200 days of the 2020--2021 school year tended to experience slower growth in ORF relative to pre-pandemic years. We also observed slower growth in districts with a high percentage of English language learners (ELLs) and/or students eligible for free and reduced-price lunch (FRL). These findings offer valuable insight into the effect of COVID on one of the most fundamental skills taught to children.
DOI: 10.6084/m9.figshare.20330044
title: Additional file 5 of Proteomic analysis of low- and high-grade human colon adenocarcinoma tissues and tissue-derived primary cell lines reveals unique biological functions of tumours and new protein biomarker candidates

description: Additional file 5. Lists of all proteins identified in NC and CA tissues and proteins with significantly differential abundance between tissue samples. Legend is available on Sheet 1. Abbreviations: LG = low-grade colon adenocarcinoma, HG = high-grade colon adenocarcinoma, NC = normal colon.
DOI: 10.6084/m9.figshare.20330044.v1
title: Additional file 5 of Proteomic analysis of low- and high-grade human colon adenocarcinoma tissues and tissue-derived primary cell lines reveals unique biological functions of tumours and new protein biomarker candidates

description: Additional file 5. Lists of all proteins identified in NC and CA tissues and proteins with significantly differential abundance between tissue samples. Legend is available on Sheet 1. Abbreviations: LG = low-grade colon adenocarcinoma, HG = high-grade colon adenocarcinoma, NC = normal colon.
DOI: 10.6084/m9.figshare.20330047
title: Additional file 6 of Proteomic analysis of low- and high-grade human colon adenocarcinoma tissues and tissue-derived primary cell lines reveals unique biological functions of tumours and new protein biomarker candidates

description: Additional file 6. Lists of all proteins identified in CA tissue-derived primary cell lines and proteins with significantly differential abundance in HGCA cell lines relative to LGCA cell lines. Legend is available on Sheet 1. Abbreviations: LG = low-grade colon adenocarcinoma, HG = high-grade colon adenocarcinoma, NC = normal colon.
DOI: 10.6084/m9.figshare.20330047.v1
title: Additional file 6 of Proteomic analysis of low- and high-grade human colon adenocarcinoma tissues and tissue-derived primary cell lines reveals unique biological functions of tumours and new protein biomarker candidates

description: Additional file 6. Lists of all proteins identified in CA tissue-derived primary cell lines and proteins with significantly differential abundance in HGCA cell lines relative to LGCA cell lines. Legend is available on Sheet 1. Abbreviations: LG = low-grade colon adenocarcinoma, HG = high-grade colon adenocarcinoma, NC = normal colon.
DOI: 10.6084/m9.figshare.20330050
title: Additional file 7 of Proteomic analysis of low- and high-grade human colon adenocarcinoma tissues and tissue-derived primary cell lines reveals unique biological functions of tumours and new protein biomarker candidates

description: Additional file 7. List of proteins found in both the tissue samples and the primary cell lines. Abbreviations: LG = low-grade colon adenocarcinoma, HG = high-grade colon adenocarcinoma, NC = normal colon.
DOI: 10.6084/m9.figshare.20330050.v1
title: Additional file 7 of Proteomic analysis of low- and high-grade human colon adenocarcinoma tissues and tissue-derived primary cell lines reveals unique biological functions of tumours and new protein biomarker candidates

description: Additional file 7. List of proteins found in both the tissue samples and the primary cell lines. Abbreviations: LG = low-grade colon adenocarcinoma, HG = high-grade colon adenocarcinoma, NC = normal colon.
DOI: 10.6084/m9.figshare.20330131
title: Additional file 2 of The efficacy of a novel zinc-containing desensitizer CAREDYNE Shield for cervical dentin hypersensitivity: a pilot randomized controlled trial

description: Additional file2. The data in this study is attached in Additional file 2
DOI: 10.6084/m9.figshare.20330131.v1
title: Additional file 2 of The efficacy of a novel zinc-containing desensitizer CAREDYNE Shield for cervical dentin hypersensitivity: a pilot randomized controlled trial

description: Additional file2. The data in this study is attached in Additional file 2
DOI: 10.6084/m9.figshare.20330142
title: Additional file 1 of Integrated transcriptome analysis for the hepatic and jejunal mucosa tissues of broiler chickens raised under heat stress conditions

description: Additional file 1: Table S1. RNA quality score of broiler chickens raised under thermoneutral (TN) or heat stress (HS) conditions.1. Table S2. Primers used for quantitative RT-PCR. Table S3. Overview of data processing of broiler chickens raised under thermoneutral zone (TN) or heat stress (HS) conditions. Fig. S1. Bubble plots for gene set-enrichment analyses (GSEA) of each tissue. (A) GSEA for liver tissue. (B) GSEA for jejunal mucosa tissue. Cut-off is P-values &lt; 0.05 and size indicates the number of genes corresponding to each pathway.
DOI: 10.6084/m9.figshare.20330142.v1
title: Additional file 1 of Integrated transcriptome analysis for the hepatic and jejunal mucosa tissues of broiler chickens raised under heat stress conditions

description: Additional file 1: Table S1. RNA quality score of broiler chickens raised under thermoneutral (TN) or heat stress (HS) conditions.1. Table S2. Primers used for quantitative RT-PCR. Table S3. Overview of data processing of broiler chickens raised under thermoneutral zone (TN) or heat stress (HS) conditions. Fig. S1. Bubble plots for gene set-enrichment analyses (GSEA) of each tissue. (A) GSEA for liver tissue. (B) GSEA for jejunal mucosa tissue. Cut-off is P-values &lt; 0.05 and size indicates the number of genes corresponding to each pathway.
DOI: 10.6084/m9.figshare.20330178
title: Additional file 1 of Analysis of injuries and deaths from road traffic accidents in Iran: bivariate regression approach

description: Additional file 1.
DOI: 10.6084/m9.figshare.20330178.v1
title: Additional file 1 of Analysis of injuries and deaths from road traffic accidents in Iran: bivariate regression approach

description: Additional file 1.
DOI: 10.6084/m9.figshare.20330181
title: Additional file 2 of Analysis of injuries and deaths from road traffic accidents in Iran: bivariate regression approach

description: Additional file 2.
DOI: 10.6084/m9.figshare.20330181.v1
title: Additional file 2 of Analysis of injuries and deaths from road traffic accidents in Iran: bivariate regression approach

description: Additional file 2.
DOI: 10.6084/m9.figshare.20330184
title: Additional file 3 of Analysis of injuries and deaths from road traffic accidents in Iran: bivariate regression approach

description: Additional file 3.
DOI: 10.6084/m9.figshare.20330184.v1
title: Additional file 3 of Analysis of injuries and deaths from road traffic accidents in Iran: bivariate regression approach

description: Additional file 3.
DOI: 10.6084/m9.figshare.20330215
title: Additional file 2 of Adipose methylome integrative-omic analyses reveal genetic and dietary metabolic health drivers and insulin resistance classifiers

description: Additional file 2: Table S1. Statistically significant adipose tissue CpGs in relation to visceral fat accumulation at Bonferroni 5% (VF-DMPs). Table S2. Pathway Analysis (IPA) results. Table S3. Statistically significant associations between methylation and gene expression at VF-DMPs. Table S4. meQTLs. Table S5. Diet VF-DMPs. Table S6. Diet-VF mediation by methylation. Table S7. Effect sizes for statistically significant associations with metabolites. Table S8. Metabolic Phenotype results and Replication. Table S9. Validation and Replication Cohort Characteristics. Table S10. GTEx median expression levels in SAT, VAT and Whole Blood. Table S11. Results from Differentially methylated region analysis.
DOI: 10.6084/m9.figshare.20330215.v1
title: Additional file 2 of Adipose methylome integrative-omic analyses reveal genetic and dietary metabolic health drivers and insulin resistance classifiers

description: Additional file 2: Table S1. Statistically significant adipose tissue CpGs in relation to visceral fat accumulation at Bonferroni 5% (VF-DMPs). Table S2. Pathway Analysis (IPA) results. Table S3. Statistically significant associations between methylation and gene expression at VF-DMPs. Table S4. meQTLs. Table S5. Diet VF-DMPs. Table S6. Diet-VF mediation by methylation. Table S7. Effect sizes for statistically significant associations with metabolites. Table S8. Metabolic Phenotype results and Replication. Table S9. Validation and Replication Cohort Characteristics. Table S10. GTEx median expression levels in SAT, VAT and Whole Blood. Table S11. Results from Differentially methylated region analysis.
DOI: 10.6084/m9.figshare.20330230
title: Additional file 1 of Maternal SMCHD1 controls both imprinted Xist expression and imprinted X chromosome inactivation

description: Additional file 1. Tables of differential expression results: male and female E2.75 matΔvs wt embryos (total and allelic), female E14.5 matΔvs wt placentae (allelic), female E14.5 het vs wt placentae (allelic).