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  1. Medicago truncatula genome database

    11 Sep 2019

    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...

  2. PRIDE

    11 Sep 2019

    PRIDE (The Proteomics Identifications Database) is a standards-compliant, public repository for proteomics data. It contains protein and peptide identifications and their associated supporting evidence.

  3. Decryptor

    11 Sep 2019

    Analyses data from tandem mass spectrometry of human proteome for the presence of point alterations. Subsequently, decryptor deduces DNA/mRNA alterations whenever possible.

  4. ARP/wARP 8.0

    11 Sep 2019

    ARP/wARP is a software project for automated protein model building and refinement. ARP/wARP combines pattern recognition-based interpretation of an electron density, its modelling as a hybrid model and a maximum likelihood parameter refinement with REFMAC.

  5. GLASS (Global to Local Analysis of System Sustainability)

    11 Sep 2019

    Global to local analysis of systems sustainability to meet the Sustainability Development Goals on a changing planet with limited land and water resources.

  6. INTERACTIVE PARALLELIZATION TOOL (IPT)

    11 Sep 2019

    Interactive Parallelization Tool (IPT) assists domain-­experts and students in efficiently parallelizing their existing C/C++ applications using any of the following parallel programming models: Message Passing Interface (MPI), OpenMP, CUDA, and hybrid programming....

  7. bio.tools

    11 Sep 2019

    Web portal for tools registry and discovery, incorporating tool benchmarking and service monitoring information and the use of EDAM for precise scientific tool description.

  8. Multi Experiment Matrix (MEM)

    11 Sep 2019

    MEM is a web-based multi experiment gene expression query and visualization tool. It gathers several hundreds of publicly available gene expression data sets from ArrayExpress database. Different data sets feature different tissues, diseases and conditions. For...

  9. SLATE and the Mobility of Capability

    11 Sep 2019

    SLATE (Services Layer at the Edge) is a new project that, when complete, will implement “cyberinfrastructure as code” by augmenting the canonical Science DMZ pattern with a generic, programmable, secure and trusted underlayment platform.

  10. rPredictorDB

    11 Sep 2019

    rPredictorDB is a predictive database of secondary structures of individual RNAs and their formatted plots. The structures are generated by template-based prediction of RNA secondary structure with experimentally identified structures as templates. RNAs with large...

  11. 3DEM (3-D ELECTRON MICROSCOPY)

    11 Sep 2019

    A web-based research platform focused on developing and disseminating new technologies for enhanced resolution 3-dimensional electron microscopy.

  12. ValidatorDB

    11 Sep 2019

    Database of validation results for ligands and non-standard residues in the Protein Data Bank.

  13. Network for Computational Nanotechnology and nanoHUB

    11 Sep 2019

    The Network for Computational Nanotechnology (NCN) has a mission to connect theory, experiment, and computation in a way that will transform nanoscience into nanotechnology. While addressing challenges in the field, NCN researchers produce new algorithms, approaches,...

  14. Chem Compute

    11 Sep 2019

    The Chem Compute website allows students to easily access state of the art computational software for free. Our hope is that this will enable faculty to incorporate computational chemistry into their undergraduate teaching and research curriculum without the hassle...

  15. SILVA

    11 Sep 2019

    A comprehensive on-line resource for quality checked and aligned ribosomal RNA sequence data.

  16. LIPID MAPS Lipidomics Gateway

    11 Sep 2019

    LIPID MAPS Lipidomics Gateway was created in 2003 via an NIH “Glue Grant” to provide access to lipid nomenclature, databases, tools, protocols, standards, tutorials, meetings, publications, and other resources and serving the international lipid research community. ...

  17. Open OnDemand

    11 Sep 2019

    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: ...

  18. GenePattern

    11 Sep 2019

    GenePattern is a powerful genomic analysis platform that provides access to hundreds of tools for gene expression analysis, proteomics, SNP analysis, flow cytometry, RNA-seq analysis, and common data processing tasks. A web-based interface provides easy access to...

  19. Pfam

    11 Sep 2019

    The Pfam database is a large collection of protein families, each represented by multiple sequence alignments and hidden Markov models (HMMs). Pfam also generates higher-level groupings of related entries, known as clans. A clan is a collection of Pfam entries which...

  20. Open Curation of Computation And Metadata (OCCAM)

    11 Sep 2019

    Occam is a computation-focused digital archival system that preserves software designed for scientific fields, humanities and the arts. This software tool is a free, open-source backend storage and deployment system that makes use of existing technologies such as git...

  21. sRNA Plant Portal

    11 Sep 2019

    The plant sRNA portal is an online resource integrating a workflow for identifying, predicting and annotating plant small RNAs (sRNA), and a database to store sRNA datasets with standardized metadata. The workflow (miRPursuit) is based on publicly available tools and...

  22. Microsoft Research Open Data

    11 Sep 2019

    Microsoft Research Open Data is a data repository that makes available datasets that researchers at Microsoft have created and published in conjunction with their research. You can browse available datasets and either download them or directly copy them to an...

  23. Materials Data Curation System

    11 Sep 2019

    The NIST Materials Data Curation System (MDCS) provides a means for capturing, sharing, and transforming materials data into a structured format that is XML based amenable to transformation to other formats. The data are organized using user-selected templates...

  24. Sirepo

    11 Sep 2019

    Sirepo is an open source framework for scientific cloud computing. At present, Sirepo supports 2 codes for simulating synchrotron radiation and X-ray optics, 3 codes for modeling charged particle accelerators, 1 code for modeling thermionic converters and 1 code for...

  25. ProDom

    11 Sep 2019

    This database contains families of homologous protein domains automatically constructed by sequence clustering of all sequences from the UniProt database, which allows for the most extensive coverage of the protein sequence space.