cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10857317
title: Blood DNA Methylation Profiling Identifies Cathepsin Z Dysregulation in Pulmonary Arterial Hypertension

description: Ulrich, A., Wu, Y., Draisma, H., Wharton, J., Swietlik, E. M., Cebola, I., Vasilaki, E., Balkhiyarova, Z., Jarvelin, M. R., Auvinen, J., Herzig, K. H., Coghlan, J. G., Lordan, J., Church, C., Howard, L. S., Pepke-Zaba, J., Toshner, M., Wort, S. J., Kiely, D. G., Condliffe, R., … Rhodes, C. J. (2024). Blood DNA methylation profiling identifies cathepsin Z dysregulation in pulmonary arterial hypertension. Nature communications, 15(1), 330. https://doi.org/10.1038/s41467-023-44683-0

Maternal educational attainment (MEA) shapes offspring health through multiple potential pathways. Differential DNA methylation may provide a mechanistic understanding of these long-term associations. We aimed to quantify the associations of MEA with offspring DNA methylation levels at birth, in childhood and in adolescence. Using 37 studies from high-income countries, we performed meta-analysis of epigenome-wide association studies (EWAS) to quantify the associations of completed years of MEA at the time of pregnancy with offspring DNA methylation levels at birth (n = 9 881), in childhood (n = 2 017), and adolescence (n = 2 740), adjusting for relevant covariates. MEA was found to be associated with DNA methylation at 473 cytosine-phosphate-guanine sites at birth, one in childhood, and four in adolescence. We observed enrichment for findings from previous EWAS on maternal folate, vitamin-B12 concentrations, maternal smoking, and pre-pregnancy BMI. The associations were directionally consistent with MEA being inversely associated with behaviours including smoking and BMI. Our findings form a bridge between socio-economic factors and biology and highlight potential pathways underlying effects of maternal education. The results broaden our understanding of bio-social associations linked to differential DNA methylation in multiple early stages of life. The data generated also offers an important resource to help a more precise understanding of the social determinants of health.
DOI: 10.18739/a2bc3sz84
title: Arctic Great Rivers Observatory Biogeochemistry and Discharge Data, North America and Siberia, 2003 - 2024

description: The PARTNERS (Pan-Arctic River Transport of Nutrients, Organic Matter, and Suspended Sediments) and Arctic-GRO (Arctic Great Rivers Observatory) projects sample the biogeochemistry of the six largest rivers draining to the Arctic Ocean: the Yenisey, Ob', Lena, and Kolyma Rivers in Siberia and the Yukon and Mackenzie Rivers in North America. To the greatest extent possible, sample collection techniques are identical across rivers. Once collected, samples are returned to Woods Hole, Massachusetts, from where they are shipped to expert laboratories for analyses. The Arctic Great Rivers Observatory IV (Arctic-GRO IV) Project spans the years between 2020 and 2024, and continues a sample collection effort that has been ongoing since 2004. On each river, samples are collected bi-monthly (six times per year), with target sampling months alternating between years.
 For real-time updates of the Arctic GRO dataset, please visit www.arcticgreatrivers.org/data.
DOI: 10.6084/m9.figshare.25464382.v1
title: 29_mapped

description: rna-seq for 29
DOI: 10.6084/m9.figshare.25464382
title: 29_mapped

description: rna-seq for 29
DOI: 10.5517/ccdc.csd.cc2hx5rc
title: CCDC 2320993: Experimental Crystal Structure Determination

description: Related Article: Mengyao Ma, Liwen Wang, Jia Jiang, Hao Yu, Wenqian Sun, Jinyan Wang, Fengdi Zhou, Xiuling Xu, Yulan Bai|2024|J.Solid State Chem.|333|124648|doi:10.1016/j.jssc.2024.124648
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.10857455
title: Data for DEXPRO

description: DEXPRO (Diversity-aware EXpertise-based Project Recommender of Open source) Tool Source Code, Build scripts, and Demo

DEXPRO is a novel tool for addressing the "cold-start" problem of recommending OSS projects to newcomers with no previous interaction with OSS projects or existing social connections with other developers. It is an expertise-based project recommender for OSS Newcomers created by adapting the Skill Space model.

The scripts for building the DEXPRO framework from raw World of Code data are shared in the "WoC_scripts.zip" file - see the "README.md" file in the folder for running instructions. 

The source code for the DEXPRO tool is contained in the "DEXPRO_tool.zip" file. 

The demo is in the "DEXPRO_DEMO.mov" file.

How to run the tool:



Make sure you have Python 3.9+ installed.

Create a virtual environment, activate, and install the required packages:




$ python3 -m venv venv

$ source venv/bin/activate

$ pip3 install -r requirements.txt




Run the streamlit app:       




$ streamlit run app.py


All the tool options can be seen in the tool demo video.

 

DEXPRO filters & parameters:

Trained Skill Space model from World of Code version U, trained on:



Projects with >=10 stars, >= 1 year active, last activity on or after 2021-06-01 

Authors with >100 commits & <50,000 commits, 

12 popular Languages: 'C/C++', 'C#', 'Go', 'Perl', 'Ruby', 'JavaScript','Python', 'R', 'Rust', 'Scala', 'TypeScript', 'Java'


Parameters:



vector size = 200

window size = 30

negative sample = 20

min count = 1000

epoch = 1


* Evaluation data

 

The evaluation data is added in the eval.zip folder.

It contains scripts for how the list of authors for the evaluation were obtained from World of Code, the data on the languages & APIs used by the authors' first commits and script for how that data was obtained. The list of commits and projects for the authors were obtained directly from World of Code a2c and a2p maps and that data is also shared. 

The Mann-Whitney test result can be seen from the `eval.ipynb` file.

The feedback from the 20 students is in the `DEXPRO STUDENT FEEDBACK.docx` file.
DOI: 10.5281/zenodo.10857456
title: Data for DEXPRO

description: DEXPRO (Diversity-aware EXpertise-based Project Recommender of Open source) Tool Source Code, Build scripts, and Demo

DEXPRO is a novel tool for addressing the "cold-start" problem of recommending OSS projects to newcomers with no previous interaction with OSS projects or existing social connections with other developers. It is an expertise-based project recommender for OSS Newcomers created by adapting the Skill Space model.

The scripts for building the DEXPRO framework from raw World of Code data are shared in the "WoC_scripts.zip" file - see the "README.md" file in the folder for running instructions. 

The source code for the DEXPRO tool is contained in the "DEXPRO_tool.zip" file. 

The demo is in the "DEXPRO_DEMO.mov" file.

How to run the tool:



Make sure you have Python 3.9+ installed.

Create a virtual environment, activate, and install the required packages:




$ python3 -m venv venv

$ source venv/bin/activate

$ pip3 install -r requirements.txt




Run the streamlit app:       




$ streamlit run app.py


All the tool options can be seen in the tool demo video.

 

DEXPRO filters & parameters:

Trained Skill Space model from World of Code version U, trained on:



Projects with >=10 stars, >= 1 year active, last activity on or after 2021-06-01 

Authors with >100 commits & <50,000 commits, 

12 popular Languages: 'C/C++', 'C#', 'Go', 'Perl', 'Ruby', 'JavaScript','Python', 'R', 'Rust', 'Scala', 'TypeScript', 'Java'


Parameters:



vector size = 200

window size = 30

negative sample = 20

min count = 1000

epoch = 1


* Evaluation data

 

The evaluation data is added in the eval.zip folder.

It contains scripts for how the list of authors for the evaluation were obtained from World of Code, the data on the languages & APIs used by the authors' first commits and script for how that data was obtained. The list of commits and projects for the authors were obtained directly from World of Code a2c and a2p maps and that data is also shared. 

The Mann-Whitney test result can be seen from the `eval.ipynb` file.

The feedback from the 20 students is in the `DEXPRO STUDENT FEEDBACK.docx` file.
DOI: 10.7944/p9ss1djw
title: Frequency dataset for Optimizing Detection of the Bobwhite Reproduction Call Using Passive Acoustic Monitoring
DOI: 10.17632/r95hxbfvb8.4
title: Infrastructure interdependencies and their implications for urban climate mitigation

description: The objective of this study is to contribute to the sustainability transitions by supporting the identification and recognition of infrastructure interdependencies in the urban climate-mitigation complex in a systemic and comprehensible way and thus promoting the cross-disciplinary communication which can essentially overcome the systems problems born out of the interdependent nature in socio-technical systems. We elaborate the role and characteristics of infrastructure systems from a socio-technical perspective, bridge earlier interdependency and systems frameworks to recognize infrastructure interdependencies, explore up-to-date examples of interdependencies in the Dutch urban areas, and finally discuss how these examples of socio-technical interdependencies can influence urban climate mitigation efforts. The research question is: what are the types of socio-technical interdependencies amongst infrastructure systems that can influence the urban climate mitigation efforts?
DOI: 10.17632/r95hxbfvb8.6
title: Socio-technical infrastructure interdependencies and their implications for urban sustainability; recent insights from the Netherlands

description: Cities are increasingly recognized as potential motors of sustainability transitions. Infrastructure interdependencies have significant implications for both enabling or restricting urban sustainability transitions but their implications remain understudied. We elaborate the role of interdependent infrastructure systems from a socio-technical perspective and explore the recent examples of how socio-technical interdependencies in infrastructure systems can influence urban sustainability efforts. We build on infrastructure interdependency examples in the Netherlands due to its high urbanization rates, dense urban areas, and respective developments in the infrastructure transitions. We distinguish seven socio-technical infrastructure interdependency types that can influence urban sustainability transitions: functional, evolutionary, spatial, life-cycle, policy/procedural, market, and culture/norm interdependencies. We identify and discuss contrasting multi-mode relationships of each interdependency example. Our results offer an interdisciplinary framework and examples of potential influential infrastructure interdependencies to explore, understand, and discuss the implications of infrastructure interdependencies for urban sustainability transitions.
DOI: 10.17632/r95hxbfvb8.1
title: Infrastructure interdependencies and their implications for urban transitions

description: This is the research data folder for the paper called "Infrastructure interdependencies and their implications for urban sustainability transitions". More information about this research can be found in https://www.nginfra.nl/onderzoeken/inspect/.

Abstract
Infrastructure interdependencies have significant implications for both enabling or restricting the transition towards sustainable cities but remain understudied (Loorbach et al., 2010). Infrastructure systems mutually influence each other. For example: investments in district heating will result in a shift from cooking on natural gas to electricity-based cooking. This comes with a new spike in electricity demand around dinner time, with implications for the electricity grid. Such interdependencies can create powerful bonds between system elements and thus influence how resilient or flexible the transitioning system is to realignments and change. 

The objective of this study is to contribute to the efforts for the transition toward sustainable cities by increasing our knowledge of the infrastructure interdependencies and their implications for urban sustainability transitions. We elaborate the role and characteristics of infrastructure systems from a socio-technical perspective, investigate infrastructure interdependencies in an ongoing transition case, and, finally, synthesize and extend existing works that categorize infrastructure interdependencies in the light of urban sustainability transitions. The research question is: what are the types and interactions of interdependencies amongst infrastructure systems that can influence transitions into sustainable urban areas?
DOI: 10.17632/r95hxbfvb8.2
title: Infrastructure interdependencies and their implications for urban transitions

description: This is the research data folder for the paper called "Infrastructure interdependencies and their implications for urban sustainability transitions". More information about this research can be found in https://www.nginfra.nl/onderzoeken/inspect/.

Abstract
Infrastructure interdependencies have significant implications for both enabling or restricting the transition towards sustainable cities but remain understudied (Loorbach et al., 2010). Infrastructure systems mutually influence each other. For example: investments in district heating will result in a shift from cooking on natural gas to electricity-based cooking. This comes with a new spike in electricity demand around dinner time, with implications for the electricity grid. Such interdependencies can create powerful bonds between system elements and thus influence how resilient or flexible the transitioning system is to realignments and change. 

The objective of this study is to contribute to the efforts for the transition toward sustainable cities by increasing our knowledge of the infrastructure interdependencies and their implications for urban sustainability transitions. We elaborate the role and characteristics of infrastructure systems from a socio-technical perspective, investigate infrastructure interdependencies in an ongoing transition case, and, finally, synthesize and extend existing works that categorize infrastructure interdependencies in the light of urban sustainability transitions. The research question is: what are the types and interactions of interdependencies amongst infrastructure systems that can influence transitions into sustainable urban areas?
DOI: 10.17632/r95hxbfvb8.3
title: Infrastructure interdependencies and their implications for urban climate mitigation

description: The objective of this study is to contribute to the sustainability transitions by supporting the identification and recognition of infrastructure interdependencies in the urban climate-mitigation complex in a systemic and comprehensible way and thus promoting the cross-disciplinary communication which can essentially overcome the systems problems born out of the interdependent nature in socio-technical systems. We elaborate the role and characteristics of infrastructure systems from a socio-technical perspective, bridge earlier interdependency and systems frameworks to recognize infrastructure interdependencies, explore up-to-date examples of interdependencies in the Dutch urban areas, and finally discuss how these examples of socio-technical interdependencies can influence urban climate mitigation efforts. The research question is: what are the types of socio-technical interdependencies amongst infrastructure systems that can influence the urban climate mitigation efforts?
DOI: 10.17632/r95hxbfvb8.5
title: Socio-technical infrastructure interdependencies and their implications for urban sustainability; recent insights from the Netherlands

description: Cities are increasingly recognized as potential motors of sustainability transitions. Infrastructure interdependencies have significant implications for both enabling or restricting urban sustainability transitions but their implications remain understudied. We elaborate the role of interdependent infrastructure systems from a socio-technical perspective and explore the recent examples of how socio-technical interdependencies in infrastructure systems can influence urban sustainability efforts. We build on infrastructure interdependency examples in the Netherlands due to its high urbanization rates, dense urban areas, and respective developments in the infrastructure transitions. We distinguish seven socio-technical infrastructure interdependency types that can influence urban sustainability transitions: functional, evolutionary, spatial, life-cycle, policy/procedural, market, and culture/norm interdependencies. We identify and discuss contrasting multi-mode relationships of each interdependency example. Our results offer an interdisciplinary framework and examples of potential influential infrastructure interdependencies to explore, understand, and discuss the implications of infrastructure interdependencies for urban sustainability transitions.
DOI: 10.17632/yhxf32rzsk.1
title: Date on space delay-tolerant network routing algorithm based on node clustering and social attributes

description: These are the raw experimental data used in this paper and the code for the CD-SDTN routing algorithm. The raw experimental data includes the ground stations location information, the satellites location information, and the frequency of connections between satellites and ground stations in the first 30 minutes of the simulation time period.
DOI: 10.25345/c5ns0m85s
title: MassIVE MSV000094385 - Annotation of DOM Metabolomes with Ultrahigh Resolution Mass Spectrometry Libraries
title: This dataset contains LC-MS metabolomic data collected on an Orbitrap IQ-X from axenic Phaeodactylum tricornutum (P. tricornutum) cultures after 1, 7, and 16 days of growth in iron-replete (1 uM) and iron limited (10 nM) conditions. Additionally, there is a pooled sample from t16 that was analyzed on the 21T FT-ICR MS at the National High Magnetic Field Laboratory that was used to generate a molecular formula library to annotate P. tricornutum's metabolome.
DOI: 10.5281/zenodo.10858576
title: Stellar models used in the paper "An efficient tidal dissipation mechanism via stellar magnetic fields"

description: Data for stellar models used in the paper "An efficient tidal dissipation mechanism via stellar magnetic fields" (2024). 

 

We used MESA version r22.11.1 for these calculations.
DOI: 10.5281/zenodo.10858577
title: Stellar models used in the paper "An efficient tidal dissipation mechanism via stellar magnetic fields"

description: Data for stellar models used in the paper "An efficient tidal dissipation mechanism via stellar magnetic fields" (2024). 

 

We used MESA version r22.11.1 for these calculations.
DOI: 10.34740/kaggle/dsv/7918234
title: BBC News
DOI: 10.6084/m9.figshare.25457785
title: Skill over Scale: The Case for Medium, Domain-Specific Models for SE

description: Replication package for the paper - Skill over Scale: The Case for Medium, Domain-Specific Models for SE
DOI: 10.6084/m9.figshare.25457785.v1
title: Skill over Scale: The Case for Medium, Domain-Specific Models for SE

description: Replication package for the paper - Skill over Scale: The Case for Medium, Domain-Specific Models for SE
DOI: 10.5281/zenodo.10858861
title: Anonymous Replication Package

description: Anonymous Replication Package
DOI: 10.5281/zenodo.10858862
title: Anonymous Replication Package

description: Anonymous Replication Package
DOI: 10.6084/m9.figshare.25464517
title: README.md

description: test
DOI: 10.6084/m9.figshare.25464517.v1
title: README.md

description: test
DOI: 10.5281/zenodo.10855094
title: AGB_VM: 0.25-degree gridded annual aboveground biomass estimates in Alaska and northwestern Canada 2003-2017..

description: Gridded 0.25-degree annual estimates of aboveground vegetation biomass (AGB) for diverse arctic and boreal ecosystems in Alaska and northwestern Canada years 2003-2017. AGB was estimated from integrated microwave vegetation optical depth (VOD) (Vegetation Optical Depth Climate Archive (VODCA) (Moesinger et al., 2020)) and optical-multispectral vegetation indices from the MODerate Resolution Imaging Spectroradiometer (MODIS) satellite remote sensing datasets. This work was conducted through NASA's Arctic and Boreal Vulnerability Experiment (ABoVE).
DOI: 10.5281/zenodo.10855095
title: AGB_VM: 0.25-degree gridded annual aboveground biomass estimates in Alaska and northwestern Canada 2003-2017..

description: Gridded 0.25-degree annual estimates of aboveground vegetation biomass (AGB) for diverse arctic and boreal ecosystems in Alaska and northwestern Canada years 2003-2017. AGB was estimated from integrated microwave vegetation optical depth (VOD) (Vegetation Optical Depth Climate Archive (VODCA) (Moesinger et al., 2020)) and optical-multispectral vegetation indices from the MODerate Resolution Imaging Spectroradiometer (MODIS) satellite remote sensing datasets. This work was conducted through NASA's Arctic and Boreal Vulnerability Experiment (ABoVE).
DOI: 10.25493/skkx-4w3
title: MEC neural activity recorded with calcium imaging and Neuropixels probes in sensory minimized conditions (v1)

description: These data were collected to determine how pervasive ultraslow oscillations are in the medial entorhinal cortex (MEC), and whether, and how, they organize the activity of participating neurons in space and time. Activity was recorded from hundreds of cells at the same time from the MEC, parasubiculum (PaS) or visual cortex. We used either two-photon calcium imaging (MEC: 27 sessions over 5 animals; PaS: 25 sessions over 4 animals; visual cortex: 19 sessions over 3 animals) or Neuropixels 2.0 probes (MEC: 2 sessions over 2 animals). Mice were head-fixed and ran on a rotating wheel for 30 or 60 minutes, in darkness and with no scheduled rewards.
DOI: 10.34740/kaggle/dsv/7918384
title: WallStreetBets 2022
DOI: 10.5281/zenodo.10858891
title: Halimochirurgus_alcocki_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.10858892
title: Halimochirurgus_alcocki_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.10858903
title: Hollardia_meadi_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.10858904
title: Hollardia_meadi_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.10858911
title: Macrorhamphosodes_platycheilus_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.10858912
title: Macrorhamphosodes_platycheilus_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.10858915
title: Macrorhamphosodes_uradoi_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.10858916
title: Macrorhamphosodes_uradoi_zanfona_1.fasta.gz

description: .
DOI: 10.5517/ccdc.csd.cc2j0nt1
title: CCDC 2324343: Experimental Crystal Structure Determination

description: Related Article: Marco Meyer, Alessandro Prescimone, Edwin C. Constable, Catherine E. Housecroft|2024|Dalton Trans.|53|5453|doi:10.1039/D4DT00276H
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.3886/e192270v1
title: The replication files for the paper titled "Industrial Robots, Management Practices, and Firm Productivity in China"

description: The replication files for the paper titled "Industrial Robots, Management Practices, and Firm Productivity in China".
DOI: 10.34740/kaggle/dsv/7918548
title: IPL 2023 Match wise Ball by Ball Commentary
DOI: 10.34740/kaggle/dsv/7918558
title: IPL 2023 Match wise Ball by Ball Commentary