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Found 82 result(s)
MassIVE is a community resource developed by the NIH-funded Center for Computational Mass Spectrometry to promote the global, free exchange of mass spectrometry data. MassIVE datasets can be assigned ProteomeXchange accessions to satisfy publication requirements.
The DPUK Data Portal brings together records of over 2 million people in a free-to-access resource. Researchers can identify which cohorts are relevant to them, apply for access to the data and then analyse it in a secure, remote environment with a complete data linkage and analysis package.
The Cape Peninsula University of Technology uses Figshare for institutions for their data repository and it is called eSango. The repository's Designated community are academics at the university who produce outputs for funded research. It fits with the University's ambition to increase the visibility, reach, and impact of its research. The Designated Community consists of researchers from all the discipline areas researched at CPUT Figshare (as evidenced by https://cput.figshare.com)
The Database explores the interactions of chemicals and proteins. It integrates information about interactions from metabolic pathways, crystal structures, binding experiments and drug-target relationships. Inferred information from phenotypic effects, text mining and chemical structure similarity is used to predict relations between chemicals. STITCH further allows exploring the network of chemical relations, also in the context of associated binding proteins.
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The Swedish Infrastructure for Ecosystem Science (SITES) is a national infrastructure for terrestrial and limnological field research. SITES aims to promote high-quality research through long-term field measurements and field experiments, and by making data available. Quality-controlled monitoring data from SITES is freely available on the SITES Data Portal from all participating stations and thematic programs. New datasets are continuously being uploaded.
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The Human Metabolome Database (HMDB) is a freely available electronic database containing detailed information about small molecule metabolites found in the human body. It is intended to be used for applications in metabolomics, clinical chemistry, biomarker discovery and general education.
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The Yeast Metabolome Database (YMDB) is a manually curated database of small molecule metabolites found in or produced by Saccharomyces cerevisiae (also known as Baker’s yeast and Brewer’s yeast). This database covers metabolites described in textbooks, scientific journals, metabolic reconstructions and other electronic databases.
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SISSA Open Data is the Sissa repository for the research data managment. It is an institutional repository that captures, stores, preserves, and redistributes the data of the SISSA scientific community in digital form. SISSA Open Data is managed by the SISSA Library as a service to the SISSA scientific community.
The Chemical Probes Portal is an online open access catalog of annotated small molecule inhibitors, agonists and other chemical tools for biological research and preclinical drug discovery. Annotations for are extensive and distinguish between activity in cells and model organisms.
The South African Marine Information Management System (MIMS) is an Open Archival Information System (OAIS) repository that plays a multifaceted role in archiving, publishing, and preserving marine-related datasets. As an IODE-accredited Associate Data Unit (ADU), MIMS serves as a national node for the IODE of the IOC of UNESCO. It archives and publishes collections and subsets of marine-related datasets for the National Department of Forestry, Fisheries, and the Environment (DFFE) and its regional partners. As an IOC member organization, DFFE is committed to supporting the long-term preservation and archival of marine and coastal data for South Africa and its regional partners, promoting open access to data, and encouraging scientific collaboration. Tasked with the long-term preservation of South Africa's marine and coastal data, MIMS functions as an institutional data repository. It provides primary access to all data collected by the DFFE Oceans and Coastal Research Directorate and acts as a trusted broker of scientific marine data for a wide range of South African institutions. MIMS hosts the IODE AFROBIS Node, an OBIS Node that coordinates and collates data management activities within the sub-Saharan African region. As part of the OBIS Steering Group, MIMS represents sub-Saharan Africa on issues around biological (biodiversity) data standards. It also facilitates data and metadata publishing for the region through the GBIF and OBIS networks. Operating on the Findable, Accessible, Interoperable, and Reusable (FAIR) data principles, MIMS aligns its practices to maximize ocean data exchange and use while respecting the conditions stipulated by the Data Provider. By integrating various functions and commitments, MIMS stands as a vital component in the marine and coastal data landscape, fostering collaboration, standardization, and accessibility in alignment with international standards and regional needs.
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.
Synapse is an open source software platform that clinical and biological data scientists can use to carry out, track, and communicate their research in real time. Synapse enables co-location of scientific content (data, code, results) and narrative descriptions of that work.
The 1000 Genomes Project is an international collaboration to produce an extensive public catalog of human genetic variation, including SNPs and structural variants, and their haplotype contexts. This resource will support genome-wide association studies and other medical research studies. The genomes of about 2500 unidentified people from about 25 populations around the world will be sequenced using next-generation sequencing technologies. The results of the study will be freely and publicly accessible to researchers worldwide. The International Genome Sample Resource (IGSR) has been established at EMBL-EBI to continue supporting data generated by the 1000 Genomes Project, supplemented with new data and new analysis.
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<<<<<!!! With the implementation of GlyTouCan (https://glytoucan.org/) the mission of GlycomeDB comes to an end. !!!>>>>> With the new database, GlycomeDB, it is possible to get an overview of all carbohydrate structures in the different databases and to crosslink common structures in the different databases. Scientists are now able to search for a particular structure in the meta database and get information about the occurrence of this structure in the five carbohydrate structure databases.
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KEGG is a database resource for understanding high-level functions and utilities of the biological system, such as the cell, the organism and the ecosystem, from molecular-level information, especially large-scale molecular datasets generated by genome sequencing and other high-throughput experimental technologies
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>>>!!!<<< OMICtools is no longer online >>>!!!<<< We founded OMICtools in 2012 with the vision to drive progress in life science. We wanted to empower life science practitioners all over the world to achieve breakthroughs by getting data to talk. While we made tremendous progress over the past three years, developing a bioinformatics database of software and dynamic protocols, attracting more than 1.5M visitors a year, we lacked the financial support we needed to continue. We certainly gave it our all. We'd like to thank everyone who believed in us and supported us on this journey: all our users, our community, our friends, families and employees (who we consider as our extended family!). omicX will probably shut down its operations within the next few weeks. The team and I remain firmly committed to our vision, particularly at this very difficult time. It is now, more than ever before, that researchers need access to a resource that pools collective scientific intelligence. We have accumulated an awful lot of experience which we are keen to share. If your institution would be interested in taking over our website and database, to provide researchers with continued access to the platform, or you simply want to stay in touch with the omicX team, contact us at contact@omictools.com or at carine.toutain@fhbx.eu.
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Bacteriome.org is a database integrating physical (protein-protein) and functional interactions within the context of an E. coli knowledgebase.
The Complex Portal is a manually curated, encyclopaedic resource of macromolecular complexes from a number of key model organisms, entered into the IntAct molecular interaction database (https://www.ebi.ac.uk/intact/). Data includes protein-only complexes as well as protein-small molecule and protein-nucleic acid complexes. All complexes are derived from physical molecular interaction evidences extracted from the literature and cross-referenced in the entry, or by curator inference from information on homologs in closely related species or by inference from scientific background. All complexes are tagged with Evidence and Conclusion Ontology codes to indicate the type of evidence available for each entry.
BioMagResBank (BMRB) is the publicly-accessible depository for NMR results from peptides, proteins, and nucleic acids recognized by the International Society of Magnetic Resonance and by the IUPAC-IUBMB-IUPAB Inter-Union Task Group on the Standardization of Data Bases of Protein and Nucleic Acid Structures Determined by NMR Spectroscopy. In addition, BMRB provides reference information and maintains a collection of NMR pulse sequences and computer software for biomolecular NMR
The MEROPS database is an information resource for peptidases (also termed proteases, proteinases and proteolytic enzymes) and the proteins that inhibit them.
ChEMBL is a database of bioactive drug-like small molecules, it contains 2-D structures, calculated properties (e.g. logP, Molecular Weight, Lipinski Parameters, etc.) and abstracted bioactivities (e.g. binding constants, pharmacology and ADMET data). The data is abstracted and curated from the primary scientific literature, and cover a significant fraction of the SAR and discovery of modern drugs We attempt to normalise the bioactivities into a uniform set of end-points and units where possible, and also to tag the links between a molecular target and a published assay with a set of varying confidence levels. Additional data on clinical progress of compounds is being integrated into ChEMBL at the current time.