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Open Curation of Computation And Metadata (OCCAM)
09 May 2024
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...
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sRNA Plant Portal
09 May 2024
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...
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Microsoft Research Open Data
09 May 2024
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...
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Materials Data Curation System
09 May 2024
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...
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ProDom
09 May 2024
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.
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PredictSNP
09 May 2024
Consensus classifiers for prediction of disease-related mutations
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DARIAH-EU: Digital Research Infrastructure for the Arts and Humanities
09 May 2024
DARIAH is a pan-european infrastructure for arts and humanities scholars working with computational methods. It supports digital research as well as the teaching of digital research methods.
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Citizen Science Alliance
09 May 2024
The CSA is a collaboration of scientists, software developers and educators who collectively develop, manage and utilise internet-based citizen science projects in order to further science itself, and the public understanding of both science and of the scientific...
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MetaboLights
09 May 2024
MetaboLights is a database for Metabolomics experiments and derived information. The database is cross-species, cross-technique and covers metabolite structures and their reference spectra as well as their biological roles, locations and...
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SwissLipids
09 May 2024
SwissLipids provides curated knowledge of lipid structures and metabolism which is used to generate an in silico library of feasible lipid structures. These are arranged in a hierarchical classification that links mass spectrometry analytical outputs...
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BioModels Database
09 May 2024
BioModels Database is a repository of computational models of biological processes. Models described from literature are manually curated and enriched with cross-references.
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BRENDA
09 May 2024
BRENDA is the main collection of enzyme functional data available to the scientific community.
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CAZY
09 May 2024
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.
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ENZYME
09 May 2024
ENZYME is a repository of information relative to the nomenclature of enzymes. It is primarily based on the recommendations of the Nomenclature Committee of the International Union of Biochemistry and Molecular Biology (IUBMB) and it describes each type of...
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GraphWeb
09 May 2024
GraphWeb is a public web server for graph-based analysis of biological networks that:analyses directed and undirected, weighted and unweighted heterogeneous networks of genes, proteins and microarray probesets for many eukaryotic genomes;integrates...
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IntAct Molecular Interaction Database
09 May 2024
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.
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IntEnz
09 May 2024
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...
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KEGGanim
09 May 2024
KEGGanim is a novel web-based tool for visualizing experimental data in the context of biological pathways. KEGGanim produces animations or static images of KEGG pathways by overlaying public or user uploaded high-thourghput data over handdrawn KEGG pathway maps. ...
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MicroScope
09 May 2024 | Science Gateways
MicroScope is a web-based platform for microbial comparative genome analysis and manual functional annotation.
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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...
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Rhea
09 May 2024 | Science Gateways
Rhea is an expert curated resource of biochemical reactions designed for the annotation of enzymes and genome-scale metabolic networks and models.
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STRING
09 May 2024 | Science Gateways
STRING is a database of known and predicted protein-protein interactions. The interactions include direct (physical) and indirect (functional) associations; they stem from computational prediction, from knowledge transfer between organisms, and from interactions...
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UniProt
09 May 2024 | Science Gateways
The mission of UniProt is to provide the scientific community with a comprehensive, high-quality and freely accessible resource of protein sequence and functional information.
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BUSCO
09 May 2024 | Science Gateways
BUSCO v3 provides quantitative measures for the assessment of genome assembly, gene set, and transcriptome completeness, based on evolutionarily-informed expectations of gene content from near-universal single-copy orthologs selected from OrthoDB v9.
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Ensembl
09 May 2024 | Science Gateways
Ensembl is a genome browser for vertebrate genomes that supports research in comparative genomics, evolution, sequence variation and transcriptional regulation. Ensembl annotate genes, computes multiple alignments, predicts regulatory function and collects disease...