National Genomics Data Center

BIG Search

BIG Search is a scalable text search engine built based on ElasticSearch (a highly scalable open-source full-text search and analytics engine based on Apache Lucene). It features cross-domain search and facilitates users to gain access to a wide range of biomedical data, not only from BIGD databases but also partner databases throughout the world.

e.g., PRJCA000126;SAMC000385;tp53;EGFR; human; KaKs_Calculator; GenBank
Total: 74159 records from 42 Databases.
Database Commons 45 Database Commons is a curated catalogue of biological databases, providing people with easy access to a comprehensive collection of publicly available biological databases encompassing different data types and spanning diverse organisms.
BioCode 27 Archive Bioinformatics Codes for Open Source Projects

EGA 3 The European Genome-phenome Archive
MGnify (Projects) 1 MGnify is the study of all genomes present in any given environment without the need for prior individual identification or amplification.
Study 676 INSDC Project records from the European Nucleotide Archive
Non-coding (Release) 1448 Non-coding (Release) in ENA
Non-coding (Update) 26 Non-coding (Update) in ENA
SRA Study (Read/Analysis) 140 Next generation sequencing raw data repository from the European Nucleotide Archive (study part)
SRA Sample 603 Next generation sequencing raw data repository from the European Nucleotide Archive (sample part)
SRA Read (Run) 15 Next generation sequencing raw data repository from the European Nucleotide Archive (run part)
SRA Read (Experimentn) 581 Next generation sequencing raw data repository from the European Nucleotide Archive (experiment part)
SRA Submission (Read/Analysis) 1 Next generation sequencing raw data repository from the European Nucleotide Archive (submission part)
Coding (Release) 18212 Coding (Release) in ENA
Coding (Update) 16 Coding (Update) in ENA
Assembly 1274 Genome Assembly
RNAcentral 1 The RNAcentral sequences are provided by a group of expert databases and supplemented by sequences from the INSDC.
UniProtKB 753 UniProt Knowledge Base of protein sequences.
UniRef100 6 UniProt Non-redundant Reference Databases - mutual sequence identity of 100%.
UniRef90 6 UniProt Non-redundant Reference Databases - mutual sequence identity of >90%.
UniRef50 6 UniProt Non-redundant Reference Databases - mutual sequence identity of >50%.
PDBe 27 Macromolecular structures database
ChEMBL Assay 74 Assay details as reported in a scientific document in ChEMBL database
ArrayExpress 339 ArrayExpress Archive is a MIAME compliant public database for microarray data.
Expression Atlas Experiments 2 Expression Atlas Experiments
dbGaP 1 The database of Genotypes and Phenotypes
GEO 49 Gene Expression Omnibus. GEO is a public functional genomics data repository supporting MIAME-compliant data submissions
OMIM 3488 OMIM Online Mendelian Inheritance in Man
BioModels 8 Database of Mathematical models of biological interest
Reactome 3 Database of core biochemical pathways and reactions
Interpro family 9 Database of protein families, domains and functional sites
Pfam 3 The protein families contained within the database
MEROPS Peptidases 1 MEROPS Id Peptidase Database
GNPS 1 The Global Natural Product Social Molecular Networking (GNPS) site creates a community for natural product researchers working with mass spectrometry data.
MassIVE 1 The Mass spectrometry Interactive Virtual Environment (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.
PeptideAtlas 49 PeptideAtlas is a multi-organism, publicly accessible compendium of peptides identified in a large set of tandem mass spectrometry proteomics experiments.
Europe PMC 20941 Europe PMC is an archive of life sciences journal literature.
BioSamples 182 The BioSamples database aggregates sample information for reference samples e.g. Coriell Cell lines and samples for which data exist in one of the EBI's assay databases such as ArrayExpress, the European Nucleotide Archive, or PRIDE. It provides links to assays for specific samples, and accepts direct submissions of samples.
MESH 1 Medical Subject Headings (MeSH)
Ontology Lookup Service (OLS) 52 The Ontology Lookup Service (OLS) is a repository for biomedical ontologies that aims to provide a single point of access to the latest ontology versions. The user can browse the ontologies through the website as well as programmatically via the OLS API.
bio.tools 80 Bioinformatics Tools and Services Discovery Portal
Identifiers.org registry 16 Identifiers.org is a system providing resolvable persistent URIs used to identify data for the scientific community, with a current focus on the Life Sciences domain.
Site 36 EBI web corporate

Powered by EBISearch