Tag: biological sample annotation

MetaboLights is a database for metabolomics studies, their raw experimental data and associated metadata. The database is cross-species and cross-technique and it covers metabolite structures and their reference spectra as well as their biological ro ...

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 lin ...

The Evidence and Conclusion Ontology (ECO) contains terms that describe types of evidence and assertion methods. ECO terms are used in the process of biocuration to capture the evidence that supports biological assertions (e.g. gene product X has fun ...

The NCBI BioSample database stores submitter-supplied descriptive information, or metadata, about the biological materials from which data stored in NCBI’s primary data archives are derived. NCBI’s archives host data from diverse types of samples fro ...

Darwin Core (DwC) is a vocabulary that includes a glossary of terms (in other contexts these might be called properties, elements, fields, columns, attributes, or concepts) intended to facilitate the sharing of information about biological diversity ...

The BIG Data Center at Beijing Institute of Genomics (BIG) of the Chinese Academy of Sciences provides a suite of database resources in support of worldwide research activities in both academia and industry. With the vast amounts of multi-omics data ...

The goal of Biologic Specimen and Data Repository Information Coordinating Center (BioLINCC) is to facilitate and coordinate the existing activities of the NHLBI Biorepository and the Data Repository and to expand their scope and usability to the sci ...

Standard Preanalytical Code (SPREC) identifies and records the main pre-analytical factors that may have impact on the integrity of sampled clinical fluids and solid biospecimens and their simple derivatives during collection, processing and storage. ...

The GGBN Data Standard is a set of terms and controlled vocabularies designed to represent sample facts. It does not cover e.g., scientific name, geography, or physiological facts. This allows combining the GGBN Data Standard with other complementary ...

The Biological Collections Ontology (BCO) supports the interoperability of biodiversity data, including data on museum collections, environmental/metagenomic samples, and ecological surveys. The BCO covers distinctions between individuals, organisms, ...

The Genomic Observatories Meta-Database (GEOME) is a web-based database that captures the who, what, where, and when of biological samples and associated genetic sequences. GEOME helps users with the following goals: ensure the metadata from your bio ...

MetaSRA is a database of normalized SRA human sample-specific metadata following a schema inspired by the metadata organization of the ENCODE project. This schema involves mapping samples to terms in biomedical ontologies, labeling each sample with a ...

The NINDS Parkinson's Disease (PD) Biomarkers Program Data Management Resource enables web-based data entry for clinical studies supporting PD biomarker development, as well as broad data sharing (imaging, clinical, genetic, and biospecimen analysis) ...

The FAANG metadata sample specification document describes the principles and structure for the FAANG metadata guidance. The main goal of the FAANG standards is to ensure all FAANG samples are well described and that the description is well structure ...

Minimal information for Chemosensitivity Assays (MICHA) is both a web tool to aid annotation of drug sensitivity screens and a guideline for defining the minimal information required to: capture critical drug sensitivity assay components, allow the F ...

The EBI BioSamples JSON Format is a JSON schema used for submitting data to the EBI BioSamples database. This format can also be used to update or curate existing samples.

The Geospatial extension of the Darwin core.

ChemTHEATRE is an online resource for browsing and analyzing curated and user-contributed data sets of environmental contaminants. ChemTHEATRE also stores metadata of the samples and of the experimental methods.

The FAANG metadata experiment specification document describes the principles and structure for the FAANG metadata guidance. The main goal of the FAANG standards is to ensure all FAANG experiments are well described and that the description is well s ...