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 NGDC databases but also partner databases throughout the world.
50,142 records from 66 NGDC & Partner databases.
| Database | Records Number | Description |
|---|---|---|
| GSA | 3,835 | Genome Sequence Archive |
| VarClear | 2,252 | Gene Variation Interpretation Database |
| BioProject | 988 | Biological Project Library |
| BioSample | 837 | Biological Sample Library |
| DMS_PMO | 721 | a standardized ontology for human precision medicine with consistent, reusable and sustainable descriptions of human disease terms, genomic molecular, phenotype characteristics and related medical vocabulary disease concepts through collaborative efforts of researchers at Institute of Medical Information, Chinese Academy of Medical Sciences. |
| HGD | 172 | Homologous Gene Database |
| RMVar | 172 | RNA Modification associated variants database |
| AnimalTFDB | 132 | Animal Transcription Factor Database |
| Animal-SNPAtlas | 113 | Animal-SNPAtlas: a comprehensive SNP database for multiple animals. |
| iEKPD | 91 | Integrated annotations for Eukaryotic protein Kinases, protein Phosphatases & phosphoprotein-binding Domains |
| DMS_Ensembl | 62 | Ensembl supports research in comparative genomics, evolution, sequence variation and transcriptional regulation. Ensembl annotate genes, computes multiple alignments, predicts regulatory function and collects disease data. |
| RhesusBase Genes | 44 | |
| MethBank 4.0 | 43 | a database of DNA methylation across a variety of species |
| DMS_ProteinOntology | 38 | PRO provides an ontological representation of protein-related entities by explicitly defining them and showing the relationships between them. Each PRO term represents a distinct class of entities (including specific modified forms, orthologous isoforms, and protein complexes) ranging from the taxon-neutral to the taxon-specific (e.g. the entity representing all protein products of the human SMAD2 gene is described in PR:Q15796; one particular human SMAD2 protein form, phosphorylated on the last two serines of a conserved C-terminal SSxS motif is defined by PR:000025934). |
| DEG | 36 | Database of Essential Genes |
| DrLLPS | 36 | Data resource of liquid-liquid phase separation |
| Pancan-MNVQTLdb | 33 | A database to evaluate the effects of MNVs on multiple molecular phenotypes |
| MethBank SRMs | 32 | Methbank, Single-base Resolution Methylomes (SRMs) |
| Gene Expression Nebulas | 30 | A data portal of transcriptomic profiles across multiple species |
| Pancan-meQTL | 30 | A database to evaluate the effects of SNPs on methylation. |
| VCG | 25 | Virtual Chinese Genome Database is a dynamic genome database of Chinese population. |
| DMS_Swissprot | 24 | UniProtKB/Swiss-Prot is the expertly curated component of UniProtKB (produced by the UniProt consortium). It contains hundreds of thousands of protein descriptions, including function, domain structure, subcellular location, post-translational modifications and functionally characterized variants. |
| NucMap | 23 | A database of genome-wide nucleosome positioning map across species. |
| MiCroKiTS | 22 | Midbody, Centrosome, Kinetochore, Telomere and Spindle |
| EPSD | 21 | Eukaryotic Phosphorylation Site Database |
| hTFtarget | 19 | In this hTFtarget database, we collected comprehensive human TF ChIP-Seq data and customized an analysis workflow to identify reliable TF targets with taking epigenomic states into account |
| HGNC | 18 | The HGNC is responsible for approving unique symbols and names for human loci, including protein coding genes, ncRNA genes and pseudogenes, to allow unambiguous scientific communication. |
| GenTree | 15 | GenTree, the time tree of genes along the evolutionary history |
| NODE | 13 | The National Omics Data Encyclopedia |
| lnCAR | 10 | lnCAR | A comprehensive resource for lncRNAs from Cancer Arrays |
| TCOD | 10 | A multi-omics data platform for tropical crops |
| dbPAF | 7 | database of Phospho-sites in Animals and Fungi |
| DMS_MeSH | 6 | MeSH (Medical Subject Headings) is the NLM controlled vocabulary thesaurus used for indexing articles for PubMed. |
| ASCancer Atlas | 6 | A comprehensive knowledgebase of alternative splicing in human cancers |
| BioCode | 5 | Archive Bioinformatics Codes for Open Source Projects |
| Database Commons | 5 | a curated catalogue of biological databases. |
| Methbank CRMs | 5 | Methbank, Consensus Reference Methylomes (CRMs) |
| PancanQTL | 5 | A database to systematically identify cis-eQTLs and trans-eQTLs in 33 cancer types. |
| PLMD | 5 | Protein Lysine Modifications Database |
| DMS_SnomedCT_US | 4 | The SNOMED CT United States (US) Edition is the official source of SNOMED CT for use in US healthcare systems. The US Edition is a standalone release that combines the content of both the US Extension and the International releases of SNOMED CT. |
| LeukemiaDB | 4 | LeukemiaDB collects 3068 samples in 188 leukemia-associated RNA-seq datasets from NCBI GEO and SRA. |
| BBCancer | 4 | BBCancer: an expression atlas of blood-based biomarkers in the early diagnosis of cancers |
| GSA for Human | 4 | Genome Sequence Archive for Human |
| PTMD | 4 | A database of human disease-associated post-translational modifications |
| animalAPAdb | 3 | A comprehensive animal alternative polyadenylation database |
| animaleRNAdb | 3 | A comprehensive animal enhancer RNA database |
| CGGA | 1 | Chinese Glioma Genome Atlas |
| DiseaseEnhancer | 1 | DiseaseEnhancer: a resource of human disease-associated enhancer catalog. |
| EWAS Atlas | 1 | A knowledgebase of epigenome-wide association studies |
| EWAS Data Hub | 1 | A data hub of DNA methylation array data and metadata |
| BrainBase | 1 | Brain Disease Knowledgebase |
| CancerSEA | 1 | CancerSEA: a cancer single-cell state atlas |
| Cell Taxonomy | 1 | Cell Taxonomy is a curated repository of cell types with multifaceted characterization. |
| CGDB | 1 | Circadian Gene Database |
| EDK | 1 | Editome Disease Knowledgebase |
| GVM | 1 | Genome Variation Map |
| Platelets expression atlas | 1 | Platelet Expression Atlas (PEA) is a comprehensive expression resource and functional analysis platform for human platelets |
| lncRNASNP v3 | 1 | lncRNASNP v3: a comprehensive resources for functional variants in long non-coding RNAs. |
| lncRNASNP2 | 1 | |
| LncRNAWiki 2.0 | 1 | LncRNAWiki 2.0 is devoted to community curation of human long non-coding RNAs (lncRNAs) to provide a comprehensive and up-to-date resource of functionally annotated lncRNAs. It incorporates a comprehensive collection of experimentally studied lncRNAs and integrates a wealth of their annotations based on a standardized curation model, and improves curation quality through expert curator review and community error report. |
| miRNASNP-v3 | 1 | miRNASNP-v3 is a comprehensive database for SNPs and disease-related variations in miRNAs and miRNA targets |
| OMIX | 1 | OMIX |
| TWAS Atlas | 1 | Transcriptome-Wide Association Studies Atlas |
| OpenLB | 31,258 | Open Library of Bioscience |
| Genbase Nucleotide | 5,705 | a collection of nucleotide sequences from several sources |
| Genbase Protein | 3,195 | a collection of protein sequences from several sources |
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