cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/rvy9kkvdmt
title: Forecasting Urban Wastewater Microbiome Dynamics Using a Digital Twin Framework - Dataset

description: Urban wastewater microbiomes are complex and temporally dynamic, offering valuable insight into community-scale microbial
ecology and potential public health trends. However, existing wastewater-based studies often remain descriptive, lacking tools
for predictive modeling. In this study, we introduce a digital twin framework that forecasts microbial abundance trajectories in
urban wastewater using an interpretable generative model, Q-net. Trained on a 30-week longitudinal metagenomic dataset from
seven wastewater treatment plants, the model captures temporal microbial dynamics with high fidelity (R² &gt; 0.97 for key taxa;
R² = 0.998 at the final timepoint). Beyond accurate forecasting, Q-net provides transparent model structure through conditional
inference trees and enables simulation of realistic microbial trends under hypothetical scenarios. This work demonstrates the
potential of digital twins to move wastewater microbiome studies from static snapshots to dynamic, predictive systems, with
broad implications for environmental monitoring and microbial ecosystem modeling.
More detail in https://www.biorxiv.org/content/10.1101/2025.07.21.666059v1
DOI: 10.17632/rvy9kkvdmt.2
title: Forecasting Urban Wastewater Microbiome Dynamics Using a Digital Twin Framework - Dataset

description: Urban wastewater microbiomes are complex and temporally dynamic, offering valuable insight into community-scale microbial
ecology and potential public health trends. However, existing wastewater-based studies often remain descriptive, lacking tools
for predictive modeling. In this study, we introduce a digital twin framework that forecasts microbial abundance trajectories in
urban wastewater using an interpretable generative model, Q-net. Trained on a 30-week longitudinal metagenomic dataset from
seven wastewater treatment plants, the model captures temporal microbial dynamics with high fidelity (R² &gt; 0.97 for key taxa;
R² = 0.998 at the final timepoint). Beyond accurate forecasting, Q-net provides transparent model structure through conditional
inference trees and enables simulation of realistic microbial trends under hypothetical scenarios. This work demonstrates the
potential of digital twins to move wastewater microbiome studies from static snapshots to dynamic, predictive systems, with
broad implications for environmental monitoring and microbial ecosystem modeling.
More detail in https://www.biorxiv.org/content/10.1101/2025.07.21.666059v1
DOI: 10.17632/wt7s34gvrg
title: Data and R code for paper: Diversity patterns of threatened decapod species in Brazil/https://doi.org/10.1007/s10750-025-05964-5

description: In this study, we compared spatial patterns of species richness (SR), phylogenetic diversity (PD), and phylogenetic endemism (PE) of crustaceans, based on the two most recent assessment periods (2016 and 2022) under the International Union for Conservation of Nature (IUCN) criteria. The analyses were conducted within a phylogenetic framework based on mitogenomic markers.
DOI: 10.17632/wt7s34gvrg.1
title: Data and R code for paper: Diversity patterns of threatened decapod species in Brazil/https://doi.org/10.1007/s10750-025-05964-5

description: In this study, we compared spatial patterns of species richness (SR), phylogenetic diversity (PD), and phylogenetic endemism (PE) of crustaceans, based on the two most recent assessment periods (2016 and 2022) under the International Union for Conservation of Nature (IUCN) criteria. The analyses were conducted within a phylogenetic framework based on mitogenomic markers.
DOI: 10.15468/dl.yrbbpz
title: Occurrence Download

description: A dataset containing 260695 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Human Observation, Machine Observation, Occurrence evidence, Observation)",
 "TaxonKey is one of (Anas platyrhynchos)",
 "Country is one of (Afghanistan, Armenia, Azerbaijan, Bahrain, Bangladesh, Bhutan, Brunei Darussalam, Cambodia, China, Cyprus, Georgia, Hong Kong, India, Indonesia, Iran (Islamic Republic of), Iraq, Israel, Japan, Jordan, Kazakhstan, Korea (Democratic People’s Republic of), Korea, Republic of, Kuwait, Kyrgyzstan, Lao People’s Democratic Republic, Lebanon, Macao, Malaysia, Maldives, Mongolia, Myanmar, Nepal, Oman, Pakistan, Palestine, State of, Philippines, Qatar, Saudi Arabia, Singapore, Sri Lanka, Syrian Arab Republic, Tajikistan, Thailand, Timor-Leste, Türkiye, Turkmenistan, United Arab Emirates, Uzbekistan, Viet Nam, Yemen)"
 ]
}

 The dataset includes 260695 records from 67 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015083-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/58ckk6rzr5
title: Dataset: The integrated stress response promotes macrophage inflammation and migration in autoimmune diabetes

description: Type 1 diabetes (T1D) is an autoimmune disease characterized by the destruction of insulin producing pancreatic β-cells. Macrophages infiltrate islets early in T1D pathogenesis, preceding the influx of T- and B-lymphocytes. The integrated stress response (ISR), a cellular pathway activated during stress, coordinates adaptive changes in gene expression to maintain cell function and survival. To study the ISR in macrophages, bone-marrow derived macrophages were treated with a pharmacological inhibitor of the ISR (ISRIB) and polarized to a proinflammatory M1-like state. We found a reduction in the number of proinflammatory macrophages as well as a reduction in iNOS mRNA and protein levels with ISRIB treatment. RNA-sequencing revealed a reduction in pathways related to stress responses, including ER stress, reactive oxygen species (ROS) regulation, and autophagy as well as migration pathway genes. ISRIB treatment led to decreased macrophage migration after stimulation in vitro and decreased macrophages to the site of injury after tailfin cut in zebrafish in vivo. Pre-diabetic female non-obese diabetic (NOD) mice administered ISRIB demonstrated an overall reduction in the macrophage numbers in the pancreatic islets. Additionally, the insulitic area of pancreata from ISRIB treated NOD mice had increased PD-L1 levels. Our study provides new insights into ISR signaling in macrophages and demonstrates that the ISR might serve as a potential target for intervention in macrophages during early T1D pathogenesis.
DOI: 10.17632/58ckk6rzr5.2
title: Dataset: The integrated stress response promotes macrophage inflammation and migration in autoimmune diabetes

description: Type 1 diabetes (T1D) is an autoimmune disease characterized by the destruction of insulin producing pancreatic β-cells. Macrophages infiltrate islets early in T1D pathogenesis, preceding the influx of T- and B-lymphocytes. The integrated stress response (ISR), a cellular pathway activated during stress, coordinates adaptive changes in gene expression to maintain cell function and survival. To study the ISR in macrophages, bone-marrow derived macrophages were treated with a pharmacological inhibitor of the ISR (ISRIB) and polarized to a proinflammatory M1-like state. We found a reduction in the number of proinflammatory macrophages as well as a reduction in iNOS mRNA and protein levels with ISRIB treatment. RNA-sequencing revealed a reduction in pathways related to stress responses, including ER stress, reactive oxygen species (ROS) regulation, and autophagy as well as migration pathway genes. ISRIB treatment led to decreased macrophage migration after stimulation in vitro and decreased macrophages to the site of injury after tailfin cut in zebrafish in vivo. Pre-diabetic female non-obese diabetic (NOD) mice administered ISRIB demonstrated an overall reduction in the macrophage numbers in the pancreatic islets. Additionally, the insulitic area of pancreata from ISRIB treated NOD mice had increased PD-L1 levels. Our study provides new insights into ISR signaling in macrophages and demonstrates that the ISR might serve as a potential target for intervention in macrophages during early T1D pathogenesis.
DOI: 10.17632/tjb9xv4n3j
title: PFLOTRAN input files for Geologically Defined Interfaces Control Flow Topology and Scalar Mixing

description: Soltanian et al (2025) Geologically Defined Interfaces Control Flow Topology
and Scalar Mixing
DOI: 10.17632/tjb9xv4n3j.1
title: PFLOTRAN input files for Geologically Defined Interfaces Control Flow Topology and Scalar Mixing

description: Soltanian et al (2025) Geologically Defined Interfaces Control Flow Topology
and Scalar Mixing
DOI: 10.17632/rmhtcwnvrk
title: Policy News and Stock Market Volatility

description: Replication file for "Policy News and Stock Market Volatility" (Baker, Bloom, Davis, Kost (2025))
DOI: 10.17632/rmhtcwnvrk.1
title: Policy News and Stock Market Volatility

description: Replication file for "Policy News and Stock Market Volatility" (Baker, Bloom, Davis, Kost (2025))
DOI: 10.15468/dl.whvmsg
title: Occurrence Download

description: A dataset containing 7458 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (China, India, Bangladesh, Nepal, Bhutan, Myanmar, Viet Nam, Cambodia, Thailand, Philippines, Lao People’s Democratic Republic, Chinese Taipei, Malaysia, Indonesia)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Chromolaena odorata"
 ]
}

 The dataset includes 7458 records from 69 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015115-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/hy827zcvzx
title: Biomonitoring of Microplastics in the Caribbean Sea with Invasive Lionfish

description: We collected invasive lionfish (Pterois spp.) from southwest Puerto Rico and analyzed the stomach contents and gills for microplastics (MPs). Given their widespread population and broad ecological niche, the life history characteristics of invasive lionfish are well suited for biomonitoring of MPs. We collected 56 lionfish from different depths and reefs in the same region and used both dissection and acid digestion techniques to analyze tissue. We found a high prevalence of MPs with an average load of 6.4 MPs ± 3.2 per lionfish with no pattern associated with depth, reef, or size of lionfish. Most MPs were microfibers and were blue, black, or clear in appearance. There was also a high incidence rate, 98% of lionfish had MPs in their stomach and 79% had MPs in their gills.
DOI: 10.17632/hy827zcvzx.1
title: Biomonitoring of Microplastics in the Caribbean Sea with Invasive Lionfish

description: We collected invasive lionfish (Pterois spp.) from southwest Puerto Rico and analyzed the stomach contents and gills for microplastics (MPs). Given their widespread population and broad ecological niche, the life history characteristics of invasive lionfish are well suited for biomonitoring of MPs. We collected 56 lionfish from different depths and reefs in the same region and used both dissection and acid digestion techniques to analyze tissue. We found a high prevalence of MPs with an average load of 6.4 MPs ± 3.2 per lionfish with no pattern associated with depth, reef, or size of lionfish. Most MPs were microfibers and were blue, black, or clear in appearance. There was also a high incidence rate, 98% of lionfish had MPs in their stomach and 79% had MPs in their gills.
DOI: 10.15468/dl.f8r94y
title: Occurrence Download

description: A dataset containing 1036 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Myrmoborus melanurus)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "License is one of (CC-BY 4.0, CC0 1.0)"
 ]
}

 The dataset includes 1036 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015117-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7hywyv
title: Occurrence Download

description: A dataset containing 4567 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Myrmoborus lophotes)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "License is one of (CC-BY 4.0, CC0 1.0)"
 ]
}

 The dataset includes 4567 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015116-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yzu8b6
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ovis aries",
 "Country is Venezuela (Bolivarian Republic of)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 3 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015120-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y9eh2d
title: Occurrence Download

description: A dataset containing 7260 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((35.0123 34.17469,53.72549 34.17469,53.72549 47.80308,35.0123 47.80308,35.0123 34.17469))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Chiroptera"
 ]
}

 The dataset includes 7260 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015119-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48324/dandi.001272/0.250805.1358
title: The Use of Di8-ANEPPS to Evaluate Neuronal Sensitivity to Unmodulated Sine Waves

description: Experiments were conducted using the potentiometric dye Di8-ANEPPS, which detects voltage through an electrochromic mechanism, differing from the photo-induced electron transfer mechanism. The goal was to ensure that action potentials recorded with FluoVolt (published in other DANDIsets) were not influenced by the dye when applying intense sinewaves. Control experiments were performed using Di8-ANEPPS, chosen for its distinct molecular structure and voltage detection method. This study was partially supported by the NIH Brain Initiative (NEI R21EY034803).
DOI: 10.17632/dtnzp6z535
title: Soil properties and erodibility after straw incorporation

description: This data includes temporal changes in soil properties and erodibility after straw incorporation in 2024.
T, different treatment; M, month; SRMt, straw residual mass; SDE, straw decomposition efficiency; Sand,Sand content; Silt, Silt content; Clay, Clay content; BD, bulk density; CP, capillary porosity; SSWC, soil saturated water content; FC, field capacity; WSA, water-stable aggregate content (&gt;0.25 mm); SOM, soil organic matter content; Coh, soil cohesion (kPa); PR, soil penetration resistance (kPa); Ks, saturated hydraulic conductivity (mm min-1); MWD, mean weigh diameter (mm); MND, mean number of drop impact; SR, slaking rate (g min-1); K, soil erodibility factor (t hm2 h (hm2 MJ mm)-1); SSI, soil structural stability index; CSEI, comprehensive soil erodibility index.
DOI: 10.17632/dtnzp6z535.1
title: Soil properties and erodibility after straw incorporation

description: This data includes temporal changes in soil properties and erodibility after straw incorporation in 2024.
T, different treatment; M, month; SRMt, straw residual mass; SDE, straw decomposition efficiency; Sand,Sand content; Silt, Silt content; Clay, Clay content; BD, bulk density; CP, capillary porosity; SSWC, soil saturated water content; FC, field capacity; WSA, water-stable aggregate content (&gt;0.25 mm); SOM, soil organic matter content; Coh, soil cohesion (kPa); PR, soil penetration resistance (kPa); Ks, saturated hydraulic conductivity (mm min-1); MWD, mean weigh diameter (mm); MND, mean number of drop impact; SR, slaking rate (g min-1); K, soil erodibility factor (t hm2 h (hm2 MJ mm)-1); SSI, soil structural stability index; CSEI, comprehensive soil erodibility index.
DOI: 10.17632/45tjgnv3pc
title: Impact of the breadth and depth of product customization on export firms’ financial and innovation performance: From the perspective of knowledge management

description: A SAV document that can be used in the spss
DOI: 10.17632/45tjgnv3pc.1
title: Impact of the breadth and depth of product customization on export firms’ financial and innovation performance: From the perspective of knowledge management

description: A SAV document that can be used in the spss
DOI: 10.34740/kaggle/dsv/12681243
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.17632/h5b45cy54s
title: Phase-Separated NDF-FACT Condensates Facilitate Transcription Elongation on Chromatin

description: This dataset contains single-molecule nucleosome transcription and nucleosome unwrapping data used in Li & Burgos-Bravo et al., 2025 (Nature Cell Biology). The study investigates how the transcription elongation factors NDF and FACT cooperate to facilitate RNA Polymerase II (Pol II) progression through nucleosomal barriers via formation of phase-separated condensates. Using high-resolution dual-trap optical tweezers and the Lumicks C-Trap instrument (integrating optical tweezers with confocal fluorescence detection), we collected real-time transcription trajectories and nucleosome unwrapping/rewrapping traces in the presence or absence of NDF and/or FACT.
The source data includes:
- Raw transcription traces of Pol II transcribing through a nucleosome, used to quantify Pol II residence time (Fig. 3B, 3C, Extended Data Fig. 3A).
- Raw transcription traces and confocal fluorescence scans obtained from the C-Trap instrument and used to visualize condensate formation during transcription at the single-molecule level (Fig. 3E, 3F, and Extended Data Fig. 3C, 3E, 3F). This includes both the dataset shown in the manuscript and additional representative traces not included in the figures.
- Raw force-extension curves showing nucleosome disassembly products across successive pulling cycles (Extended Data Fig. 3I).
DOI: 10.17632/h5b45cy54s.1
title: Phase-Separated NDF-FACT Condensates Facilitate Transcription Elongation on Chromatin

description: This dataset contains single-molecule nucleosome transcription and nucleosome unwrapping data used in Li & Burgos-Bravo et al., 2025 (Nature Cell Biology). The study investigates how the transcription elongation factors NDF and FACT cooperate to facilitate RNA Polymerase II (Pol II) progression through nucleosomal barriers via formation of phase-separated condensates. Using high-resolution dual-trap optical tweezers and the Lumicks C-Trap instrument (integrating optical tweezers with confocal fluorescence detection), we collected real-time transcription trajectories and nucleosome unwrapping/rewrapping traces in the presence or absence of NDF and/or FACT.
The source data includes:
- Raw transcription traces of Pol II transcribing through a nucleosome, used to quantify Pol II residence time (Fig. 3B, 3C, Extended Data Fig. 3A).
- Raw transcription traces and confocal fluorescence scans obtained from the C-Trap instrument and used to visualize condensate formation during transcription at the single-molecule level (Fig. 3E, 3F, and Extended Data Fig. 3C, 3E, 3F). This includes both the dataset shown in the manuscript and additional representative traces not included in the figures.
- Raw force-extension curves showing nucleosome disassembly products across successive pulling cycles (Extended Data Fig. 3I).
DOI: 10.15468/dl.ukrrp6
title: Occurrence Download

description: A dataset containing 17433124 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Human Observation, Machine Observation, Occurrence evidence, Observation)",
 "TaxonKey is one of (Anas platyrhynchos)",
 "Country is one of (Bermuda, Canada, Greenland, Saint Pierre and Miquelon, United States of America)"
 ]
}

 The dataset includes 17433124 records from 80 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015082-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z8gqng
title: Occurrence Download

description: A dataset listing the 1662 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((1.15615 45.57524,1.07719 45.57619,1.08035 45.48927,1.20443 45.49085,1.21391 45.57524,1.15615 45.57524))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset's 1662 records were derived from 171 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015107-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17333418
title: Kasus Bullying di SMPN 8, DP3AP2KB Depok Fokus Pemulihan Psikologis Korban.

description: kasus pengeroyokan yang menimpa seorang siswa di SMPN 8 dinas terkait bergerak cepat. Kejadian ini bukan hanya kenakalan remaja biasa, tetapi juga mencerminkan masalah sosial yang lebih dalam.

Menurut pengamatan, pelaku pengeroyokan diduga berasal dari kelompok atau geng sekolah. Kelompok ini biasanya terdiri dari siswa yang merasa berkuasa dan menggunakan kekerasan untuk mendominasi siswa lain,ini termasuk ke dalam kelompok in group.

- Solidaritas yang kuat di antara anggota, namun dibangun di atas dasar kekerasan dan intimidasi.

berikut adalah ciri-ciri nya:

- Struktur kekuasaan yang jelas, dengan anggota dominan dan pengikut.

- Norma dan nilai yang berbeda dari masyarakat umum, di mana kekerasan dianggap biasa.

Pihak sekolah berencana untuk melakukan pendekatan kepada siswa yang terlibat dan memberikan edukasi tentang dampak negatif kekerasan. Selain itu, akan diadakan program konseling untuk siswa yang menjadi korban maupun pelaku.

Fokus utama saat ini adalah memulihkan kondisi psikologis siswa yang terlibat dan menciptakan lingkungan sekolah yang aman dan kondusif.
DOI: 10.5281/zenodo.17333419
title: Kasus Bullying di SMPN 8, DP3AP2KB Depok Fokus Pemulihan Psikologis Korban.

description: kasus pengeroyokan yang menimpa seorang siswa di SMPN 8 dinas terkait bergerak cepat. Kejadian ini bukan hanya kenakalan remaja biasa, tetapi juga mencerminkan masalah sosial yang lebih dalam.

Menurut pengamatan, pelaku pengeroyokan diduga berasal dari kelompok atau geng sekolah. Kelompok ini biasanya terdiri dari siswa yang merasa berkuasa dan menggunakan kekerasan untuk mendominasi siswa lain,ini termasuk ke dalam kelompok in group.

- Solidaritas yang kuat di antara anggota, namun dibangun di atas dasar kekerasan dan intimidasi.

berikut adalah ciri-ciri nya:

- Struktur kekuasaan yang jelas, dengan anggota dominan dan pengikut.

- Norma dan nilai yang berbeda dari masyarakat umum, di mana kekerasan dianggap biasa.

Pihak sekolah berencana untuk melakukan pendekatan kepada siswa yang terlibat dan memberikan edukasi tentang dampak negatif kekerasan. Selain itu, akan diadakan program konseling untuk siswa yang menjadi korban maupun pelaku.

Fokus utama saat ini adalah memulihkan kondisi psikologis siswa yang terlibat dan menciptakan lingkungan sekolah yang aman dan kondusif.