skip to main content
US FlagAn official website of the United States government
dot gov icon
Official websites use .gov
A .gov website belongs to an official government organization in the United States.
https lock icon
Secure .gov websites use HTTPS
A lock ( lock ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.

Explore Research Products in the PAR
It may take a few hours for recently added research products to appear in PAR search results.


Title: Design, development, and implementation of IsoBank: A centralized repository for isotopic data
Stable isotope data have made pivotal contributions to nearly every discipline of the physical and natural sciences. As the generation and application of stable isotope data continues to grow exponentially, so does the need for a unifying data repository to improve accessibility and promote collaborative engagement. This paper provides an overview of the design, development, and implementation of IsoBank (www.isobank.org), a community-driven initiative to create an open-access repository for stable isotope data implemented online in 2021. A central goal of IsoBank is to provide a web-accessible database supporting interdisciplinary stable isotope research and educational opportunities. To achieve this goal, we convened a multi-disciplinary group of over 40 analytical experts, stable isotope researchers, database managers, and web developers to collaboratively design the database. This paper outlines the main features of IsoBank and provides a focused description of the core metadata structure. We present plans for future database and tool development and engagement across the scientific community. These efforts will help facilitate interdisciplinary collaboration among the many users of stable isotopic data while also offering useful data resources and standardization of metadata reporting across eco-geoinformatics landscapes.  more » « less
Award ID(s):
1759937
PAR ID:
10659615
Author(s) / Creator(s):
; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; more » ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; « less
Editor(s):
Becker, Daniel
Publisher / Repository:
PLOS ONE
Date Published:
Journal Name:
PLOS ONE
Volume:
19
Issue:
9
ISSN:
1932-6203
Page Range / eLocation ID:
e0295662
Format(s):
Medium: X
Sponsoring Org:
National Science Foundation
More Like this
  1. ; ; ; ; ; (, IEEE/ACM Transactions on Computational Biology and Bioinformatics)
    The goal of the Multispecies Ovary Tissue Histology Electronic Repository (MOTHER) project is to establish a collection of nonhuman ovary histology images for multiple species as a resource for researchers and educators. An important component of sharing scientific data is the inclusion of the contextual metadata that describes the data. MOTHER extends the Ecological Metadata Language (EML) for documenting research data, leveraging its data provenance and usage license with the inclusion of metadata for ovary histology images. The design of the MOTHER metadata includes information on the donor animal, including reproductive cycle status, the slide and its preparation. MOTHER also extends the ezEML tool, called ezEML+MOTHER, for the specification of the metadata. The design of the MOTHER database (MOTHER-DB) captures the metadata about the histology images, providing a searchable resource for discovering relevant images. MOTHER also defines a curation process for the ingestion of a collection of images and its metadata, verifying the validity of the metadata before its inclusion in the MOTHER collection. A Web search provides the ability to identify relevant images based on various characteristics in the metadata itself, such as genus and species, using filters. 
    more » « less
  2. ; ; ; ; ; ; ; (, Scientific Data)
    Abstract This paper describes a set of Near-Real-Time (NRT) Vegetation Index (VI) data products for the Conterminous United States (CONUS) based on Moderate Resolution Imaging Spectroradiometer (MODIS) data from Land, Atmosphere Near-real-time Capability for EOS (LANCE), an openly accessible NASA NRT Earth observation data repository. The data set offers a variety of commonly used VIs, including Normalized Difference Vegetation Index (NDVI), Vegetation Condition Index (VCI), Mean-referenced Vegetation Condition Index (MVCI), Ratio to Median Vegetation Condition Index (RMVCI), and Ratio to previous-year Vegetation Condition Index (RVCI). LANCE enables the NRT monitoring of U.S. cropland vegetation conditions within 24 hours of observation. With more than 20 years of observations, this continuous data set enables geospatial time series analysis and change detection in many research fields such as agricultural monitoring, natural resource conservation, environmental modeling, and Earth system science. The complete set of VI data products described in the paper is openly distributed via Web Map Service (WMS) and Web Coverage Service (WCS) as well as the VegScape web application (https://nassgeodata.gmu.edu/VegScape/). 
    more » « less
  3. ; (, Hydrology and Earth System Sciences)
    Abstract. The hydrogen and oxygen stable isotope ratios of water have been used to identify sources, transport pathways, and phase-change processes within the water cycle, supporting hydrologic, forensic, ecologic, and hydroclimatic investigations. Here, we introduce a unique, open-access, global database of stable water isotope ratios (δ18O, δ17O, and δ2H) from various water types. This database facilitates data preservation, supports standardized metadata collection, and decreases the time investment for meta-analytic research and reference dataset discovery. As of July 2019, the database includes 231 586 samples from 52 210 sites, associated with 218 projects, spanning 1949 through 2019. Key information stored includes the hydrogen and oxygen isotope ratios, water type, collection date and time, site location, and project information. To promote rapid data discovery and collaboration, the database exposes metadata such as data owner contact information of embargoed data, but only permits downloads of public data. The database is supported by two companion apps, one for processing and upload of analytical data from laboratories and the other an iOS application that supports the digital collection of sample metadata. 
    more » « less
  4. ; ; ; ; ; ; ; (, npj Computational Materials)
    Abstract The availability and easy access of large-scale experimental and computational materials data have enabled the emergence of accelerated development of algorithms and models for materials property prediction, structure prediction, and generative design of materials. However, the lack of user-friendly materials informatics web servers has severely constrained the wide adoption of such tools in the daily practice of materials screening, tinkering, and design space exploration by materials scientists. Herein we first survey current materials informatics web apps and then propose and develop MaterialsAtlas.org, a web-based materials informatics toolbox for materials discovery, which includes a variety of routinely needed tools for exploratory materials discovery, including material’s composition and structure validity check (e.g. charge neutrality, electronegativity balance, dynamic stability, Pauling rules), materials property prediction (e.g. band gap, elastic moduli, hardness, and thermal conductivity), search for hypothetical materials, and utility tools. These user-friendly tools can be freely accessed athttp://www.materialsatlas.org. We argue that such materials informatics apps should be widely developed by the community to speed up materials discovery processes. 
    more » « less
  5. ; ; ; ; ; ; ; ; ; ; et al (, Zenodo)
    In paleoceanography, carbon and oxygen stable isotope ratios from benthic foraminifera are used as tracers of physical and biogeochemical properties of the deep ocean. We present the first version of the Ocean Carbon Cycling working group database,  of stable isotope ratios of oxygen and carbon from benthic foraminifera from deep ocean sediment cores from the Last Glacial Maximum (LGM, 23-20 ky before present (BP)) to the Holocene (<10 ky BP) with a particular focus on the early last deglaciation (20-15 ky BP). It includes 287 globally distributed coring sites, with metadata, isotopic and chronostratigraphic information, and age models. A quality check was performed for all data and age models. Sites with at least millennial resolution were preferred, because the main goal is to resolve ocean changes associated with the last deglaciation on at least millennial timescales. Software tools were produced to access and analyze the data, and are included with this publication. Deep water mass structure as well as differences between the early deglaciation and LGM are captured by the data in the compilation, even though its coverage is still sparse in many ocean regions. We find high correlations among time series calculated with different age models at sites that allow such analysis. The database provides a useful dynamical approach to map physical and biogeochemical changes of the ocean throughout the last deglaciation.</p> Custom python scripts to read and analyze the data base may be found in https://github.com/juanmuglia/OC3-python-scripts and in OC3-python-scripts.zip in this repository. plots_d13c.pdf and plots_d18o.pdf contain time series for all sites and available age models. 
    more » « less
  • Citation Formats
  • MLA
  • APA
  • Chicago
  • BibTeX
  • Save / Share this Record
  • Send to Email