Skip to main content

Resources: All

Submit a resource

Find a resource
  1. earth x
  2. genome x
  3. database x

  1. BamBam

    09 May 2024 | Tools

    BamBam is a package of tools for genome sequence analysis. BamBam contains tools that facilitate summarizing data from BAM alignment files and identifying features such as SNPs, indels, and haplotypes represented in those alignments. It aims to use parameters that...

  2. Benchmark Energy & Geometry Database (BEGDB)

    09 May 2024 | Science Gateways

    The Benchmark Energy & Geometry Database (BEGDB) collects results of highly accurate QM calculations of molecular structures, energies and properties. These data can serve as benchmarks for testing and parameterization of other computational methods.

  3. BIGNASim

    09 May 2024 | Science Gateways

    BIGNASim, a comprehensive platform including a database system and an analysis portal, aimed to be a general database for handling nucleic acids simulations.

  4. BioFragment Database (BFDb)

    09 May 2024 | Science Gateways

    The BioFragment Database (BFDb) is an open-data platform for computational chemistry analysis of noncovalent interactions and collects >3000 bifragment contacts directly from biological systems.

  5. BRENDA

    09 May 2024 | Science Gateways

    BRENDA is the main collection of enzyme functional data available to the scientific community.

  6. Carbon Mapper

    09 May 2024 | Science Gateways

    Carbon Mapper’s goal is to help stakeholders visualize and understand the earth’s carbon cycle and related human activity and to seek feedback on how to improve data from monitoring systems.

  7. CAZY

    09 May 2024 | Science Gateways

    The CAZy database describes the families of structurally-related catalytic and carbohydrate-binding modules (or functional domains) of enzymes that degrade, modify, or create glycosidic bonds.

  8. CottonGen

    09 May 2024 | Science Gateways

    CottonGen is a new cotton community genomics, genetics and breeding database being developed to enable basic, translational and applied research in cotton. It is being built using the open-source Tripal database infrastructure.

  9. Crops in silico

    09 May 2024 | Science Gateways

    Crops in silico is a global scientific collaboration that aims to harness the great strides in understanding of plant function from genes to whole plants, to accelerate forward approaches to crop breeding and bioengineering. The Crops in silico community is comprised...

  10. DataOne

    09 May 2024 | Science Gateways

    DataONE is a community driven project providing access to data across multiple member repositories, supporting enhanced search and discovery of Earth and environmental data. DataONE promotes best practices in data management through responsive educational resources...

  11. DipCheck

    09 May 2024 | Science Gateways

    DipCheck is a validation tool for the evaluation of protein backbone geometry, developed by Joana Pereira and Victor Lamzin at the EMBL Hamburg. The tool uses a Euclidian 3D space (DipSpace) of the orthogonal descriptors of the geometry of a 5-atom dipeptide unit:...

  12. Earth Science Information Partners (ESIP)

    09 May 2024 | Science Gateways

    The Federation of Earth Science Information Partners (ESIP) is an open, networked community that brings together science, data and information technology practitioners. Participation in ESIP is beneficial because it provides an intellectual commons to expose, gather...

  13. EarthCube

    09 May 2024 | Science Gateways

    EarthCube was initiated by the National Science Foundation (NSF) in 2011 to transform geoscience research by developing cyberinfrastructure to improve access, sharing, visualization, and analysis of all forms of geosciences data and related resources. As a...

  14. earthscope

    09 May 2024 | Science Gateways

    EarthScope is a program of the National Science Foundation (NSF) that has deployed thousands of seismic, GPS, and other geophysical instruments to study the structure and evolution of the North American continent and the processes that cause earthquakes and volcanic...

  15. European Variation Archive (EVA)

    09 May 2024 | Science Gateways

    The European Variation Archive (EVA) is an open-access database of all types of genetic variation data from all species.

  16. EVER-EST

    09 May 2024 | Science Gateways

    The EVER-EST project (European Virtual Environment for Research – Earth Science Themes: a solution ) will create a virtual research environment (VRE) focussed on the requirements of the Earth Science community. Within the earth sciences there are major challenges...

  17. Genome Database for Rosaceae (GDR)

    09 May 2024 | Science Gateways

    The Genome Database for Rosaceae is a curated and integrated web-based relational database providing data mining tools and publicly available genomics, genetics and breeding data for Rosaceae (almond, apple, blackberry, cherry, peach, pear, plum, raspberry, rose, and...

  18. Genomics Virtual Laboratory (GVL)

    09 May 2024 | Science Gateways

    The Genomics Virtual Laboratory (GVL) provides a cloud-based suite of genomics analysis tools for research and training.

  19. Genomicus

    09 May 2024 | Science Gateways

    Genomicus is a genome browser that enables users to navigate in genomes in several dimensions: linearly along chromosome axes, transversaly across different species, and chronologicaly along evolutionary time. Once a query gene has been entered, it is displayed in...

  20. GenSAS

    09 May 2024 | Science Gateways

    The Genome Sequence Annotation Server (GenSAS) is an online platform that provides a pipeline for whole genome structural and functional annotation. Users can upload genome sequences and select from a variety of tools for repeat masking, prediction of gene models and...

  21. GeoMapApp

    09 May 2024 | Science Gateways

    GeoMapApp is an earth science exploration and visualization application that is continually being expanded as part of the Marine Geoscience Data System (MGDS) at the Lamont-Doherty Earth Observatory of Columbia University. The application provides direct access to...

  22. HRGRN

    09 May 2024 | Science Gateways

    We developed HRGRN, a Graph search-empowered integrative database of Arabidopsis signaling transduction, metabolism, and gene regulation networks, with an emphasis on hormone signaling and gene regulatory pathways. The database is designed to host and discover...

  23. IntAct Molecular Interaction Database

    09 May 2024 | Science Gateways

    IntAct provides a freely available, open source database system and analysis tools for molecular interaction data. All interactions are derived from literature curation or direct user submissions and are freely available.

  24. IntEnz

    09 May 2024 | Science Gateways

    IntEnz (Integrated relational Enzyme database) is a freely available resource focused on enzyme nomenclature. IntEnz is created in collaboration with the Swiss Institute of Bioinformatics (SIB). This collaboration is responsible for the production of the ENZYME...

  25. InterRidge Vents Database

    09 May 2024 | Science Gateways

    InterRidge Vents Database is to provide a comprehensive list of active submarine hydrothermal vent fields for use in academic research and education.