cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6796637.v1
title: Additional file 8: of Temporal transcriptome profiling of developing seeds reveals a concerted gene regulation in relation to oil accumulation in Pongamia (Millettia pinnata)

description: Table S8. List of Pongamia genes involved in FA and TAG metabolism. (XLS 47 kb)
DOI: 10.6084/m9.figshare.25138847
title: Model configuration, calibration and validation, input and output files in <i>Difference in the contribution of driving factors to nitrogen loss with surface runoff between the hill and plain agricultural watersheds</i>

description: This study is comparing the response of N loss with surface runoff to rainfall, land use and fertilization between hill and plain agricultural watersheds using two process-based models.
DOI: 10.6084/m9.figshare.25138847.v1
title: Model configuration, calibration and validation, input and output files in <i>Difference in the contribution of driving factors to nitrogen loss with surface runoff between the hill and plain agricultural watersheds</i>

description: This study is comparing the response of N loss with surface runoff to rainfall, land use and fertilization between hill and plain agricultural watersheds using two process-based models.
DOI: 10.5281/zenodo.10613394
title: Datasets for "Stability of influenza A virus in droplets and aerosols is heightened by the presence of commensal respiratory bacteria".

description: Raw datasets for the pre-print entitled "Stability of influenza A virus in droplets and aerosols is heightened by the presence of commensal respiratory bacteria".

Includes raw data used to generate plots in for main text Figures 1 - 7 and Supplementary Figures 2 - 9. Data appears in excel or .DAT files, including infectivity quantification, genomic copy quantification, temeprature and relative humidity data, measured droplet diameters, total protein quantificaitons. Supplementary Video files S1 - S4 are also included as .mp3 files. 
description: Aerosol transmission remains a major challenge for the control of respiratory viruses, particularly for those that cause recurrent epidemics, like influenza A virus (IAV). These viruses are rarely expelled alone, but instead are embedded in a consortium of microorganisms that populate the respiratory tract. The impact of microbial communities and inter-pathogen interactions upon the stability of transmitted viruses is well-characterised for pathogens of the gut, but is particularly under-studied in the respiratory niche. Here, we assessed whether the presence of 5 different species of common commensal respiratory bacteria could influence the stability of IAV within droplets deposited on surfaces and within airborne aerosol particles at typical indoor air humidity. It was found that bacterial presence within stationary droplets, either a mixed community or individual strains, resulted  in 10- to 100-fold more infectious IAV remaining after 1 hour. Data show that bacterial viability was not required for this viral stabilisation, though maintained bacterial morphology seemed to be essential. Additionally, non-respiratory bacteria tested here seemed to have little stabilising effect, indicating this phenomenon was respiratory-specific. Data suggested that the protective bacteria stabilised IAV in droplets via induction of early efflorescence due to altered droplet morphology. Additionally, where droplet efflorescence was intentionally impeded, bacteria remained protective, indicating an additional stabilisation mechanism.  Streptococcus pneumoniae also stabilised IAV within aerosol, either by this additional unidentified mechanism, and/or due to altered evaporation rates as was observed for droplets. Notably, respiratory bacteria at equivalent density offered varying degrees of protection, with the Gram-positive species Staphylococcus aureus and Streptococcus pneumoniae being the most robustly stabilising. This suggests that the composition of an individual’s respiratory microbiota could be a previously un-considered host-specific factor influencing the efficacy of expelled viral spread. Identifying novel host-specific factors such as the commensal microbiota that can influence viral stability in the environment will further increase our understanding of individual transmission risks, and will provide novel opportunities to limit the spread of respiratory infections within our populations.
DOI: 10.5281/zenodo.10613395
title: Datasets for "Stability of influenza A virus in droplets and aerosols is heightened by the presence of commensal respiratory bacteria".

description: Raw datasets for the pre-print entitled "Stability of influenza A virus in droplets and aerosols is heightened by the presence of commensal respiratory bacteria".

Includes raw data used to generate plots in for main text Figures 1 - 7 and Supplementary Figures 2 - 9. Data appears in excel or .DAT files, including infectivity quantification, genomic copy quantification, temeprature and relative humidity data, measured droplet diameters, total protein quantificaitons. Supplementary Video files S1 - S4 are also included as .mp3 files. 
description: Aerosol transmission remains a major challenge for the control of respiratory viruses, particularly for those that cause recurrent epidemics, like influenza A virus (IAV). These viruses are rarely expelled alone, but instead are embedded in a consortium of microorganisms that populate the respiratory tract. The impact of microbial communities and inter-pathogen interactions upon the stability of transmitted viruses is well-characterised for pathogens of the gut, but is particularly under-studied in the respiratory niche. Here, we assessed whether the presence of 5 different species of common commensal respiratory bacteria could influence the stability of IAV within droplets deposited on surfaces and within airborne aerosol particles at typical indoor air humidity. It was found that bacterial presence within stationary droplets, either a mixed community or individual strains, resulted  in 10- to 100-fold more infectious IAV remaining after 1 hour. Data show that bacterial viability was not required for this viral stabilisation, though maintained bacterial morphology seemed to be essential. Additionally, non-respiratory bacteria tested here seemed to have little stabilising effect, indicating this phenomenon was respiratory-specific. Data suggested that the protective bacteria stabilised IAV in droplets via induction of early efflorescence due to altered droplet morphology. Additionally, where droplet efflorescence was intentionally impeded, bacteria remained protective, indicating an additional stabilisation mechanism.  Streptococcus pneumoniae also stabilised IAV within aerosol, either by this additional unidentified mechanism, and/or due to altered evaporation rates as was observed for droplets. Notably, respiratory bacteria at equivalent density offered varying degrees of protection, with the Gram-positive species Staphylococcus aureus and Streptococcus pneumoniae being the most robustly stabilising. This suggests that the composition of an individual’s respiratory microbiota could be a previously un-considered host-specific factor influencing the efficacy of expelled viral spread. Identifying novel host-specific factors such as the commensal microbiota that can influence viral stability in the environment will further increase our understanding of individual transmission risks, and will provide novel opportunities to limit the spread of respiratory infections within our populations.
DOI: 10.25345/c5sj1b28f
title: MassIVE MSV000093996 - Remodeling of the protein ubiquitylation landscape in the aging vertebrate brain
title: Absolute quantification of ubiquitin chains and total ubiquitin changes using AQUA-PRM in mouse brain aging.
DOI: 10.5281/zenodo.10613463
title: A Refined Supply-demand Framework to Quantify variability in Ecosystem Services Related to Surface Water in support of Sustainable Development Goals

description: The file named 'Results' stores the data produced in this study. The file named 'Scripts' stores the python codes used in this study. The file named 'Software' stores the software installation package (Windows 64-bit system). The file named '3basin' stores the shapefile data of Level 3 basin in Xinjiang.
DOI: 10.5281/zenodo.8232594
title: A refined supply-demand framework for ecosystem services boosts assessment on the Sustainable Developmant Goals V1

description: The file named 'Results' stores the data produced in this study. The file named 'Scripts' stores all the python codes used in this study, and the file named 'Software' stores the software installation package used in the study (Windows 64-bit system).
DOI: 10.5281/zenodo.10544001
title: A Refined Supply-demand Framework to Quantify variability in Ecosystem Services Related to Surface Water in support of Sustainable Development Goals

description: The file named 'Results' stores the data produced in this study. The file named 'Scripts' stores the python codes used in this study, and the file named 'Software' stores the software installation package used in the study (Windows 64-bit system).
DOI: 10.5281/zenodo.8232593
title: A Refined Supply-demand Framework to Quantify variability in Ecosystem Services Related to Surface Water in support of Sustainable Development Goals

description: The file named 'Results' stores the data produced in this study. The file named 'Scripts' stores the python codes used in this study. The file named 'Software' stores the software installation package (Windows 64-bit system). The file named '3basin' stores the shapefile data of Level 3 basin in Xinjiang.
DOI: 10.25438/wes02.25138640
title: U.S.-Japan Subnational Diplomacy

description: This dataset gathers a wide range of information about subnational partnerships and collaborations supporting U.S.-Japan Relations. Collected by Prof. Mary Alice Haddad and a team of undergraduate researchers during 2023, it includes information about: 382 sister/friendship cities, 15 sister/friendship state-prefectures, 33 MOUs, 83 City-NGO partnerships/collaborations, 24 Japanese business - US local community collaborations, 15 Japanese consulates in the United States, 100 NGOs promoting US-Japan relations, and US-Japan city partnership data from the Japanese Council of Local Authorities for International Relations.
DOI: 10.25438/wes02.25138640.v1
title: U.S.-Japan Subnational Diplomacy

description: This dataset gathers a wide range of information about subnational partnerships and collaborations supporting U.S.-Japan Relations. Collected by Prof. Mary Alice Haddad and a team of undergraduate researchers during 2023, it includes information about: 382 sister/friendship cities, 15 sister/friendship state-prefectures, 33 MOUs, 83 City-NGO partnerships/collaborations, 24 Japanese business - US local community collaborations, 15 Japanese consulates in the United States, 100 NGOs promoting US-Japan relations, and US-Japan city partnership data from the Japanese Council of Local Authorities for International Relations.
DOI: 10.5281/zenodo.10613484
title: AI Assisting in Mental Health

description: This research paper explores the transformative impact of artificial intelligence (AI) in the field of mental health counselling, aiming to enhance the effectiveness and accessibility of support services. 

 

As the demand for mental health care continues to rise globally, there is a growing need for innovative solutions to bridge the gap between the increasing demand for counselling and the limited availability of human counsellors.

 

Our study focuses on the integration of AI technologies to assist mental health counsellors in various aspects of their practice. 

 

Through an extensive review of existing literature, we analyse the potential benefits and challenges associated with implementing AI in counselling settings. 

 

The paper highlights AI's ability to augment traditional counselling approaches by offering timely and personalised interventions, improving the overall efficiency of therapeutic processes.

 

Drawing on case studies and pilot programs, this research presents empirical evidence supporting the positive outcomes and user acceptance of AI-assisted counselling interventions. 

 

Additionally, the paper discusses potential limitations, such as the need for continuous refinement of algorithms and the importance of addressing concerns related to data security and privacy.
DOI: 10.5281/zenodo.10613485
title: AI Assisting in Mental Health

description: This research paper explores the transformative impact of artificial intelligence (AI) in the field of mental health counselling, aiming to enhance the effectiveness and accessibility of support services. 

 

As the demand for mental health care continues to rise globally, there is a growing need for innovative solutions to bridge the gap between the increasing demand for counselling and the limited availability of human counsellors.

 

Our study focuses on the integration of AI technologies to assist mental health counsellors in various aspects of their practice. 

 

Through an extensive review of existing literature, we analyse the potential benefits and challenges associated with implementing AI in counselling settings. 

 

The paper highlights AI's ability to augment traditional counselling approaches by offering timely and personalised interventions, improving the overall efficiency of therapeutic processes.

 

Drawing on case studies and pilot programs, this research presents empirical evidence supporting the positive outcomes and user acceptance of AI-assisted counselling interventions. 

 

Additionally, the paper discusses potential limitations, such as the need for continuous refinement of algorithms and the importance of addressing concerns related to data security and privacy.
DOI: 10.6084/m9.figshare.22094600
title: Crater counting and mare basalt unit data for Zhao et al. 2023 Icarus-PIV

description: Shapefiles of Zhao et al. (2023) mare age units and crater count areas.Citation:Chen, J., Ling, Z., Liu, J., et al., (2022), Digital and global lithologic mapping of the Moon at a 1:2,500,000 scale. Science Bulletin, 67(20): 2050-2054.<br>Lu, X., Cao, H., Ling, Z., Fu, X., Qiao, L., Chen, J. Geomorphology, Mineralogy, and Geochronology of Mare Basalts and Non-Mare Materials around the Lunar Crisium Basin. Remote Sensing, 2021, 13: 4828.<br>Zhao, Z., Chen, J., Ling, Z., et al., (2023), Chronology, composition, and mineralogy of mare basalts in the junction of Oceanus Procellarum, Mare Imbrium, Mare Insularum, and Mare Vaporum. Icarus, 397, 115531.
DOI: 10.6084/m9.figshare.22094600.v4
title: Crater counting and mare basalt unit data for Zhao et al. 2023 Icarus-PIV

description: Shapefiles of Zhao et al. (2023) PIV mare age units and crater count areas.
Citation:
Chen, J., Ling, Z., Liu, J., et al., (2022), Digital and global lithologic mapping of the Moon at a 1:2,500,000 scale. Science Bulletin, 67(20): 2050-2054.
<br>
Lu, X., Cao, H., Ling, Z., Fu, X., Qiao, L., Chen, J. Geomorphology, Mineralogy, and Geochronology of Mare Basalts and Non-Mare Materials around the Lunar Crisium Basin. Remote Sensing, 2021, 13: 4828.
<br>
Zhao, Z., Chen, J., Ling, Z., et al., (2023), Chronology, composition, and mineralogy of mare basalts in the junction of Oceanus Procellarum, Mare Imbrium, Mare Insularum, and Mare Vaporum. Icarus, 397, 115531.
DOI: 10.5281/zenodo.10613388
title: VGG16-CBAM for Bats
DOI: 10.5281/zenodo.10613387
title: VGG16-CBAM for Bats
DOI: 10.5281/zenodo.10613502
title: VGG16-CBAM for Bats
DOI: 10.5281/zenodo.10484056
title: Ischemia promotes hypertrophic nerve trunk formation and enteric neuron cell death in Hirschsprung's disease: Source data

description: Items
Annotation


ST-cluster_distrition.csv
A table containing the number of ST-clusters across samples


DEGs_C10_v_restCMusc.csv
A table containing the result of DEG analysis for the comparison between ST cluster C10 and other muscular ST clusters (C8 and C9)


DEGs_C13_v_C12.csv
A table containing the result of DEG analysis for the comparison between ST cluster C13 (HNTs) and C12 (ganglia).


DEGs_ST-cluster_total_marker.csv
A table containing the markers for each ST cluster.


DEGs_iMusc_ganglia_v_nMusc_ganglia.csv
A table containing the result of DEG analysis for the comparison between ST iMusc_ganglia and nMusc_ganglia.


DEGs_sc_all_markers.csv
A table containing the markers of single-cell populations.


DEGs_pseudotime_CLDN1.csv
A table containing the results of gene differentially expressed during the differentiation from GREM1+ FLCs to CLDN1+ FLCs.


Gene_set_score_for_C12_sub.csv
A table containing the results of gene set score in the sub-population of ganglia (C12).


scRNA-seq_reference_raw.RDS
A Seurat object containing the raw count and meta matrix of the single-cell reference 


ST-seq_raw_count.txt.gz
A raw count matrix of ST-seq data


ST-spots_meta_info.txt
A table containing the metainformation of ST-seq data


Object_of_bulk_RNA-seq.RDS
A Seurat object used to reproduce the results of gene set scores in bulk RNA-seq.


ST-spots_cell_abundance.txt
A table containing the abundance of single-cell populations in each ST-spot.


Cell_trajectory_of_FLCs.RDS
A Seurat object used to reproduce the results of the cell trajectory of fibroblast-like cells.


p_value_scRNA-seq_abundance.xlsx
A table containing the p-value of cell abundance across groups for single-cell populations


CIBERSORT_CPM_count_matrix.txt
A table containing the CMP matrix of bulk RNA-seq data for CIBERSORT


CIBERSORT_ST_raw_matrix.txt
A table containing the raw count matrix of ST-seq data for CIBERSORT


scRNA-seq_distribution.csv
A table containing the distribution of single-cell populations across the sample


DEGs_FLC_APOD_across_group.csv
A table containing the DEGs in the comparison among APOD+ FLCs in different groups


Gene_set_score_for_sc_Pericyte.csv
A table containing the results of gene set score in the single-cell population of pericytes


Gene_set_score_for_sc_Endo_score.csv
A table containing the results of gene set score in the single-cell population of endothelial cells


ENC_FLC_vessel_interaction.RDS
A Cellchat object used to reproduce the results of cell-cell interaction among ENCs, glial cells, APOD+ FLCs, CLDN1+ FLCs, perictyes, and vascular endothelial cells.


Metainfor_FASTQ1.xlsx
Metainformation of FASTQ files


Metainfor_FASTQ2.xlsx
Metainformation of FASTQ files
DOI: 10.5281/zenodo.10537286
title: Ischemia promotes hypertrophic nerve trunk formation and enteric neuron cell death in Hirschsprung's disease: Source data

description: Items
Annotation


ST-cluster_distrition.csv
A table containing the number of ST-clusters across samples


DEGs_C10_v_restCMusc.csv
A table containing the result of DEG analysis for the comparison between ST cluster C10 and other muscular ST clusters (C8 and C9)


DEGs_C13_v_C12.csv
A table containing the result of DEG analysis for the comparison between ST cluster C13 (HNTs) and C12 (ganglia).


DEGs_ST-cluster_total_marker.csv
A table containing the markers for each ST cluster.


DEGs_iMusc_ganglia_v_nMusc_ganglia.csv
A table containing the result of DEG analysis for the comparison between ST iMusc_ganglia and nMusc_ganglia.


DEGs_sc_all_markers.csv
A table containing the markers of single-cell populations.


DEGs_pseudotime_CLDN1.csv
A table containing the results of gene differentially expressed during the differentiation from GREM1+ FLCs to CLDN1+ FLCs.


Gene_set_score_for_C12_sub.csv
A table containing the results of gene set score in the sub-population of ganglia (C12).


STM_WES_FASTQ_meta_data.xlsx
A table containing the ST-seq, scRNA-seq, and WES FASTQ file metadata.


scRNA-seq_reference_raw.RDS
A Seurat object containing the raw count and meta matrix of the single-cell reference 


ST-seq_raw_count.txt.gz
A raw count matrix of ST-seq data


ST-spots_meta_info.txt
A table containing the metainformation of ST-seq data


Object_of_bulk_RNA-seq.RDS
A Seurat object used to reproduce the results of gene set scores in bulk RNA-seq.


ST-spots_cell_abundance.txt
A table containing the abundance of single-cell populations in each ST-spot.


Cell_trajectory_of_FLCs.RDS
A Seurat object used to reproduce the results of the cell trajectory of fibroblast-like cells.


p_value_scRNA-seq_abundance.xlsx
A table containing the p-value of cell abundance across groups for single-cell populations


CIBERSORT_CPM_count_matrix.txt
A table containing the CMP matrix of bulk RNA-seq data for CIBERSORT


CIBERSORT_ST_raw_matrix.txt
A table containing the raw count matrix of ST-seq data for CIBERSORT


scRNA-seq_distribution.csv
A table containing the distribution of single-cell populations across the sample


DEGs_FLC_APOD_across_group.csv
A table containing the DEGs in the comparison among APOD+ FLCs in different groups


Gene_set_score_for_sc_Pericyte.csv
A table containing the results of gene set score in the single-cell population of pericytes


Gene_set_score_for_sc_Endo_score.csv
A table containing the results of gene set score in the single-cell population of endothelial cells


ENC_FLC_vessel_interaction.RDS
A Cellchat object used to reproduce the results of cell-cell interaction among ENCs, glial cells, APOD+ FLCs, CLDN1+ FLCs, perictyes, and vascular endothelial cells.
DOI: 10.5281/zenodo.10538922
title: Ischemia promotes hypertrophic nerve trunk formation and enteric neuron cell death in Hirschsprung's disease: Source data

description: Items
Annotation


ST-cluster_distrition.csv
A table containing the number of ST-clusters across samples


DEGs_C10_v_restCMusc.csv
A table containing the result of DEG analysis for the comparison between ST cluster C10 and other muscular ST clusters (C8 and C9)


DEGs_C13_v_C12.csv
A table containing the result of DEG analysis for the comparison between ST cluster C13 (HNTs) and C12 (ganglia).


DEGs_ST-cluster_total_marker.csv
A table containing the markers for each ST cluster.


DEGs_iMusc_ganglia_v_nMusc_ganglia.csv
A table containing the result of DEG analysis for the comparison between ST iMusc_ganglia and nMusc_ganglia.


DEGs_sc_all_markers.csv
A table containing the markers of single-cell populations.


DEGs_pseudotime_CLDN1.csv
A table containing the results of gene differentially expressed during the differentiation from GREM1+ FLCs to CLDN1+ FLCs.


Gene_set_score_for_C12_sub.csv
A table containing the results of gene set score in the sub-population of ganglia (C12).


STM_WES_FASTQ_meta_data.xlsx
A table containing the ST-seq, scRNA-seq, and WES FASTQ file metadata.


scRNA-seq_reference_raw.RDS
A Seurat object containing the raw count and meta matrix of the single-cell reference 


ST-seq_raw_count.txt.gz
A raw count matrix of ST-seq data


ST-spots_meta_info.txt
A table containing the metainformation of ST-seq data


Object_of_bulk_RNA-seq.RDS
A Seurat object used to reproduce the results of gene set scores in bulk RNA-seq.


ST-spots_cell_abundance.txt
A table containing the abundance of single-cell populations in each ST-spot.


Cell_trajectory_of_FLCs.RDS
A Seurat object used to reproduce the results of the cell trajectory of fibroblast-like cells.


p_value_scRNA-seq_abundance.xlsx
A table containing the p-value of cell abundance across groups for single-cell populations


CIBERSORT_CPM_count_matrix.txt
A table containing the CMP matrix of bulk RNA-seq data for CIBERSORT


CIBERSORT_ST_raw_matrix.txt
A table containing the raw count matrix of ST-seq data for CIBERSORT


scRNA-seq_distribution.csv
A table containing the distribution of single-cell populations across the sample


DEGs_FLC_APOD_across_group.csv
A table containing the DEGs in the comparison among APOD+ FLCs in different groups


Gene_set_score_for_sc_Pericyte.csv
A table containing the results of gene set score in the single-cell population of pericytes


Gene_set_score_for_sc_Endo_score.csv
A table containing the results of gene set score in the single-cell population of endothelial cells


ENC_FLC_vessel_interaction.RDS
A Cellchat object used to reproduce the results of cell-cell interaction among ENCs, glial cells, APOD+ FLCs, CLDN1+ FLCs, perictyes, and vascular endothelial cells.


Metainfor_FASTQ1.xlsx
Metainformation of FASTQ files


Metainfor_FASTQ2.xlsx
Metainformation of FASTQ files