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  1. INCA: Monitoring Tool

    09 May 2024

    Determining whether a Grid is up in the face of complex Grid software deployments can be difficult and depends on the types of applications and users that utilize it. By detailing a set of software, services, and features that should be available on a Grid in a...

  2. Pegasus

    09 May 2024

    The Pegasus project encompasses a set of technologies that help workflow-based applications execute in a number of different environments including desktops, campus clusters, grids, and clouds. Pegasus bridges the scientific domain and the execution environment by...

  3. SoyBase

    09 May 2024

    SoyBase database was established in the 1990s as the USDA Soybean Genetics Database. Originally, it contained only genetic information about soybeans such as genetic maps and information about the Mendelian genetics of soybean. In time SoyBase was expanded to include...

  4. GenApp

    09 May 2024

    GenApp is a tool that can help people with existing code generate stand alone applications and science gateways. GenApp gateway generation is based upon definition files. User supplied code is brought into GenApp by writing a definition file and modifying or wrapping...

  5. Medicago truncatula genome database

    09 May 2024

    Medicago truncatula, a close relative of alfalfa, is a preeminent model for the study of the processes of nitrogen fixation, symbiosis, and legume genomics. The sequencing project was initiated with a generous grant from Samuel Roberts Noble Foundation (link is...

  6. Open OnDemand

    09 May 2024

    Open OnDemand is an NSF-funded open-source HPC portal based on OSC’s original OnDemand portal. The goal of Open OnDemand is to provide an easy way for system administrators to provide web access to their HPC resources, including, but not limited to: ...

  7. MicroScope

    09 May 2024 | Science Gateways

    MicroScope is a web-based platform for microbial comparative genome analysis and manual functional annotation.

  8. Reactome

    09 May 2024 | Science Gateways

    REACTOME is an open-source, open access, manually curated and peer-reviewed pathway database. Our goal is to provide intuitive bioinformatics tools for the visualization, interpretation and analysis of pathway knowledge to support basic and clinical research, genome...

  9. OMA

    09 May 2024 | Science Gateways

    The OMA (“Orthologous MAtrix”) project is a method and database for the inference of orthologs among complete genomes.

  10. Galaxy Software Framework

    09 May 2024 | Science Gateways

    Galaxy software framework is an open-source application. Its goal is to develop and maintain a system that enables researchers without informatics expertise to perform computational analyses through the web. A user interacts with Galaxy through the web by uploading...

  11. 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...

  12. The Triticeae Toolbox (T3)

    09 May 2024 | Science Gateways

    T3 is the webportal for the data generated by the Triticeae Coordinated Agricultural Project (CAP), funded by the National Institute for Food and Agriculture (NIFA) of the United States Department of Agriculture (USDA). T3 contains SNP, phenotypic, and pedigree data...

  13. VEP

    09 May 2024 | Science Gateways

    VEP (Variant Effect Predictor) determines the effect of your variants (SNPs, insertions, deletions, CNVs or structural variants) on genes, transcripts, and protein sequence, as well as regulatory regions.

  14. Vega

    09 May 2024 | Science Gateways

    Vega is a repository for high-quality gene models produced by the manual annotation of vertebrate genomes.

  15. NCBI Genome Workbench

    09 May 2024 | Science Gateways

    Genome Workbench offers researchers a rich set of integrated tools for studying and analyzing genetic data. Users can explore and compare data from multiple sources including the NCBI databases or the user’s own private data. Data analysis in Genome Workbench is...

  16. 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.

  17. 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...

  18. Apache Airavata

    09 May 2024 | Science Gateways

    Apache Airavata is a software framework that enables you to compose, manage, execute, and monitor large scale applications and workflows on distributed computing resources such as local clusters, supercomputers,computational grids, and computing clouds.

  19. SwissRegulon Portal

    09 May 2024 | Science Gateways

    A repository of computational biology tools and databases developed by the van Nimwegen lab

  20. PeanutBase

    09 May 2024 | Science Gateways

    This web portal is designed to provide convenient access to peanut genetic and genomic data deriving from U.S. and international research, and particularly from the Peanut Genomics Initiative: The U.S. industry has embarked on an ambitious plan to map the peanut...

  21. Globus: Research data management simplified

    09 May 2024 | Science Gateways

    Globus is a secure, reliable research data management service. With Globus, you can move, share, publish & discover data via a single interface. Whether your files live on a supercomputer, lab cluster, tape archive, public cloud or your laptop, you can manage them...

  22. Jupyter Notebook

    09 May 2024 | Science Gateways

    The Jupyter Notebook is an open-source web application that allows you to create and share documents that contain live code, equations, visualizations and narrative text. Uses include: data cleaning and transformation, numerical simulation, statistical modeling, data...

  23. CILogon

    09 May 2024 | Science Gateways

    CILogon provides an integrated open source identity and access management platform for research collaborations, combining federated identity management (Shibboleth, InCommon) with collaborative organization management (COmanage). Federated identity management enables...

  24. Wheat Tilling

    09 May 2024 | Science Gateways

    Wheat Target Induced Local Lesions In Genome (TILLING) project based on the tetraploid wheat line Triticum turgidum cv. Kronos. This project entails targeted re-sequencing of the protein coding regions of over 1500 EMS mutagenized individuals from the Kronos...

  25. TreeGenes

    09 May 2024 | Science Gateways

    TreeGenes is a collection of forest tree genome databases and other forest genetic information resources for the international forest genetics community. Dendrome is part of a larger collaborative effort to construct genome databases for major crop and forest...