Filter
Reset all

Subjects

Content Types

Countries

AID systems

API

Data access

Data access restrictions

Database access

Database access restrictions

Database licenses

Data licenses

Data upload

Data upload restrictions

Enhanced publication

Institution responsibility type

Institution type

Keywords

Metadata standards

PID systems

Provider types

Quality management

Repository languages

Software

Syndications

Repository types

Versioning

  • * at the end of a keyword allows wildcard searches
  • " quotes can be used for searching phrases
  • + represents an AND search (default)
  • | represents an OR search
  • - represents a NOT operation
  • ( and ) implies priority
  • ~N after a word specifies the desired edit distance (fuzziness)
  • ~N after a phrase specifies the desired slop amount
  • 1 (current)
Found 20 result(s)

The Microbial Protein Interaction Database

MPIDB

Subject(s)
Content type(s)
Country
>>>!!!<<< as stated 2017-06-09 MPIDB is no longer available under URL http://www.jcvi.org/mpidb/about.php >>>!!!<<< The microbial protein interaction database (MPIDB) aims to collect and provide all known physical microbial interactions. Currently, 24,295 experimentally determined interactions among proteins of 250 bacterial species/strains can be browsed and downloaded. These microbial interactions have been manually curated from the literature or imported from other databases (IntAct, DIP, BIND, MINT) and are linked to 26,578 experimental evidences (PubMed ID, PSI-MI methods). In contrast to these databases, interactions in MPIDB are further supported by 68,346 additional evidences based on interaction conservation, protein complex membership, and 3D domain contacts (iPfam, 3did). We do not include (spoke/matrix) binary interactions infered from pull-down experiments.

IMEx

The International Molecular Exchange Consortium

Subject(s)
Content type(s)
Country
The IMEx consortium is an international collaboration between a group of major public interaction data providers who have agreed to share curation effort and develop and work to a single set of curation rules when capturing data from both directly deposited interaction data or from publications in peer-reviewed journals, capture full details of an interaction in a “deep” curation model, perform a complete curation of all protein-protein interactions experimentally demonstrated within a publication, make these interaction available in a single search interface on a common website, provide the data in standards compliant download formats, make all IMEx records freely accessible under the Creative Commons Attribution License

domino

domaine peptide interactions

Subject(s)
Content type(s)
Country
<<<!!!<<< This repository is no longer available. 2019-02-19 >>>!!!>>>

BioGRID

Biological General Repository for Interaction Datasets

Subject(s)
Content type(s)
Country
The Biological General Repository for Interaction Datasets (BioGRID) is a public database that archives and disseminates genetic and protein interaction data from model organisms and humans. BioGRID is an online interaction repository with data compiled through comprehensive curation efforts. All interaction data are freely provided through our search index and available via download in a wide variety of standardized formats.

4DGenome

Chromatin Interaction Database

Subject(s)
Content type(s)
Country
4DGenome is a public database that archives and disseminates chromatin interaction data. Currently, 4DGenome contains over 8,038,247 interactions curated from both experimental studies (high throughput and individual studies) and computational predictions. It covers five organisms, Homo sapiens, Mus musculus, Drosophila melanogaster, Plasmodium falciparum, and Saccharomyces cerevisiae.

Host - Pathogen Interaction Database

HPIDB

Subject(s)
Content type(s)
Country
HPIDB is a public resource, which integrates experimental PPIs from various databases into a single database. The Host-Pathogen Interaction Database (HPIDB) is a genomics resource devoted to understanding molecular interactions between key organisms and the pathogens to which they are susceptible.

IntAct

IntAct Molecular Interaction Database

Subject(s)
Content type(s)
Country
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.

ROAR Isolate Database

Reservoirs of Antibiotic Resistance Network

Subject(s)
Content type(s)
Country
<<<!!!<<< The repository is no longer available. >>>!!!<<< 2019-03-29: no more access to ROAR Isolate Database

NCBI BioSystems Database

NCBI BioSystems

Subject(s)
Content type(s)
Country
<<<!!!<<< The NCBI BioSystems Database will be retired in March 2022. >>>!!!>>> This retirement includes the representation of BioSystems records in the NCBI Entrez system and viewers of BioSystems content. NCBI now provides metabolic pathway and other biosystems data through the regularly updated PubChem Pathways resource (https://pubchemdocs.ncbi.nlm.nih.gov/pathways) that offers a fresh, extended, and more modern interface.

Buildings Data Platform

Benchmark Datasets of Building Environmental Conditions and Occupancy Parameters

Subject(s)
Content type(s)
Country
The Buildings Data Platform mission is to collect and curate high-resolution, well-calibrated time series of building operational and indoor/outdoor environmental data, which are crucial to understanding and optimizing building energy efficiency performance and demand flexibility capabilities as well as benchmarking energy algorithms.

FlyReactome

a curated knowledgebase of drosophila melanogaster pathways

Subject(s)
Content type(s)
Country
<<<!!!<<< This repository is no longer available. This record is out dated >>>!!!>>>- eir fields, maintained by the FlyReactome staff.

Correlates of War Project

COW

Subject(s)
Content type(s)
Country
COW seeks to facilitate the collection, dissemination, and use of accurate and reliable quantitative data in international relations. Key principles of the project include a commitment to standard scientific principles of replication, data reliability, documentation, review, and the transparency of data collection procedures. More specifically, we are committed to the free public release of data sets to the research community, to release data in a timely manner after data collection is completed, to provide version numbers for data set and replication tracking, to provide appropriate dataset documentation, and to attempt to update, document, and distribute follow-on versions of datasets where possible. We intend to use our website as the center of our data distribution efforts, to serve as central site for collection of possible error information and questions, to provide a forum for interaction with users of Correlates of War data, and as a way for the international relations community to contribute to the continuing development of the project.

Database of Interacting Proteins

DIP

Subject(s)
Content type(s)
Country
The DIP database catalogs experimentally determined interactions between proteins. It combines information from a variety of sources to create a single, consistent set of protein-protein interactions. The data stored within the DIP database were curated, both, manually by expert curators and also automatically using computational approaches that utilize the the knowledge about the protein-protein interaction networks extracted from the most reliable, core subset of the DIP data. Please, check the reference page to find articles describing the DIP database in greater detail. The Database of Ligand-Receptor Partners (DLRP) is a subset of DIP (Database of Interacting Proteins). The DLRP is a database of protein ligand and protein receptor pairs that are known to interact with each other. By interact we mean that the ligand and receptor are members of a ligand-receptor complex and, unless otherwise noted, transduce a signal. In some instances the ligand and/or receptor may form a heterocomplex with other ligands/receptors in order to be functional. We have entered the majority of interactions in DLRP as full DIP entries, with links to references and additional information

U.S. Energy Information Administration

EIA

Subject(s)
Content type(s)
Country
The U.S. Energy Information Administration (EIA) collects, analyzes, and disseminates independent and impartial energy information to promote sound policymaking, efficient markets, and public understanding of energy and its interaction with the economy and the environment.

Ocean Observatories Initiative Data

Ocean Observatories Initiative Data Portal

Subject(s)
Content type(s)
Country
The Ocean Observatories Initiative (OOI) is a science-driven ocean observing network that delivers real-time data from more than 800 instruments to address critical science questions regarding the world’s ocean. OOI data are freely available online to anyone with an Internet connection.

GiardiaDB

Subject(s)
Content type(s)
Country
Giardia lamblia is a significant, environmentally transmitted, human pathogen and an amitochondriate protist. It is a major contributor to the enormous worldwide burden of human diarrheal diseases, yet the basic biology of this parasite is not well understood. No virulence factor has been identified. The Giardia lamblia genome contains only 12 million base pairs distributed onto five chromosomes. Its analysis promises to provide insights about the origins of nuclear genome organization, the metabolic pathways used by parasitic protists, and the cellular biology of host interaction and avoidance of host immune systems. Since the divergence of Giardia lamblia lies close to the transition between eukaryotes and prokaryotes in universal ribosomal RNA phylogenies, it is a valuable, if not unique, model for gaining basic insights into genetic innovations that led to formation of eukaryotic cells. In evolutionary terms, the divergence of this organism is at least twice as ancient as the common ancestor for yeast and man. A detailed study of its genome will provide insights into an early evolutionary stage of eukaryotic chromosome organization as well as other aspects of the prokaryotic / eukaryotic divergence.

MaizeGDB

Maize Genetics and Genomics Database

Subject(s)
Content type(s)
Country
The Maize Genetics and Genomics Database focuses on collecting data related to the crop plant and model organism Zea mays. The project's goals are to synthesize, display, and provide access to maize genomics and genetics data, prioritizing mutant and phenotype data and tools, structural and genetic map sets, and gene models. MaizeGDB also aims to make the Maize Newsletter available, and provide support services to the community of maize researchers. MaizeGDB is working with the Schnable lab, the Panzea project, The Genome Reference Consortium, and iPlant Collaborative to create a plan for archiving, dessiminating, visualizing, and analyzing diversity data. MMaizeGDB is short for Maize Genetics/Genomics Database. It is a USDA/ARS funded project to integrate the data found in MaizeDB and ZmDB into a single schema, develop an effective interface to access this data, and develop additional tools to make data analysis easier. Our goal in the long term is a true next-generation online maize database.aize genetics and genomics database.

Geochron

Subject(s)
Content type(s)
Country
Geochron is a global database that hosts geochronologic and thermochronologic information from detrital minerals. Information included with each sample consists of a table with the essential isotopic information and ages, a table with basic geologic metadata (e.g., location, collector, publication, etc.), a Pb/U Concordia diagram, and a relative age probability diagram. This information can be accessed and viewed with any web browser, and depending on the level of access desired, can be designated as either private or public. Loading information into Geochron requires the use of U-Pb_Redux, a Java-based program that also provides enhanced capabilities for data reduction, plotting, and analysis. Instructions are provided for three different levels of interaction with Geochron: 1. Accessing samples that are already in the Geochron database. 2. Preparation of information for new samples, and then transfer to Arizona LaserChron Center personnel for uploading to Geochron. 3. Preparation of information and uploading to Geochron using U-Pb_Redux.

MatrixDB

Extracellular Matrix interactions DataBase

Subject(s)
Content type(s)
Country
MatrixDB is a freely available database focused on interactions established by extracellular proteins and polysaccharides. MatrixDB takes into account the multimetric nature of the extracellular proteins (e.g. collagens, laminins and thrombospondins are multimers). MatrixDB includes interaction data extracted from the literature by manual curation in our lab, and offers access to relevant data involving extracellular proteins provided by our IMEx partner databases through the PSICQUIC webservice, as well as data from the Human Protein Reference Database. MatrixDB is in charge of the curation of papers published in Matrix Biology since January 2009

Encyclopedia of Life

eol

Subject(s)
Content type(s)
Country
Our knowledge of the many life-forms on Earth - of animals, plants, fungi, protists and bacteria - is scattered around the world in books, journals, databases, websites, specimen collections, and in the minds of people everywhere. Imagine what it would mean if this information could be gathered together and made available to everyone – anywhere – at a moment’s notice. This dream is becoming a reality through the Encyclopedia of Life.