Experimental Factor Ontology
How to cite this record FAIRsharing.org: EFO; Experimental Factor Ontology; DOI: https://doi.org/10.25504/FAIRsharing.1gr4tz; Last edited: Jan. 8, 2019, 1:39 p.m.; Last accessed: Apr 21 2019 5:03 p.m.
Record updated: July 17, 2018, 7:23 p.m. by The FAIRsharing Team.
Edits to 'https://fairsharing.org/FAIRsharing.1gr4tz' by 'The FAIRsharing Team' at 19:23, 17 Jul 2018 (approved): 'deprecation_reason' has been modified: Before: None After: None
Edits to 'https://fairsharing.org/FAIRsharing.1gr4tz' by 'siiraa' at 17:36, 28 Mar 2017 (approved): 'contactName' has been modified: Before: James Malone After: Sirarat Sarntivijai Added: Removed:
Edits to 'https://fairsharing.org/FAIRsharing.1gr4tz' by 'The FAIRsharing Team' at 14:37, 23 Sep 2016 (approved): 'homepage' has been modified: Before: http://bioportal.bioontology.org/ontologies/EFO?p=summary After: http://www.ebi.ac.uk/efo/ Related standards have changed: Previous values: bsg-s000009: Cell Ontology bsg-s000070: Ontology for Biomedical Investigations bsg-s000134: Phenotypic QualiTy Ontology bsg-s000093: Disease Ontology bsg-s002627: Cell Line Ontology bsg-s000672: FAANG metadata sample specification standard bsg-s000673: FAANG metadata experiment specification standard bsg-s000016: UBER anatomy ONtology New values: bsg-s000672: FAANG metadata sample specification standard bsg-s000673: FAANG metadata experiment specification standard bsg-s000016: UBER anatomy ONtology
|Contact||Sirarat Sarntivijai ORCID|
No XSD schemas defined
Models and Formats
No syntax standards defined
No identifier schema standards defined
No metrics standards defined
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 an specific samples, and accepts direct submissions of sample information.
The Expression Atlas is a free resource providing information on gene expression patterns under different biological conditions. Gene expression data is re-analysed in-house to detect genes showing interesting baseline and differential expression patterns, allowing a user to ask questions such as "what are the genes expressed in normal human liver" and "what genes are differentially expressed between water-stressed rice plants and controls with normal watering?". The resource also features a few proteomics data sets provided by collaborators for corroboration between gene- and protein-level expression results.
Stem Cell Discovery Engine
Comparison system for cancer stem cell analysis
ArrayExpress is a database of functional genomics experiments that can be queried and the data downloaded. It includes gene expression data from microarray and high throughput sequencing studies. Data is collected to MIAME and MINSEQE standards. Experiments are submitted directly to ArrayExpress or are imported from the NCBI GEO database.
Kidney and Urinary Pathway Knowledgebase
The KUPKB is a collection of omics datasets that have been extracted from scientific publications and other related renal databases. The iKUP browser provides a single point of entry for you to query and browse these datasets.
The ENCODE (Encyclopedia of DNA Elements) Consortium is an international collaboration of research groups funded by the National Human Genome Research Institute (NHGRI). The goal of ENCODE is to build a comprehensive parts list of functional elements in the human genome, including elements that act at the protein and RNA levels, and regulatory elements that control cells and circumstances in which a gene is active. ENCODE results from 2007 and later are available from this project. This covers data generated during the two production phases 2007-2012 and 2013-present.
Open Targets designed and developed an integration and visualization platform that provides evidence about the association of known and potential drug targets with diseases. The platform is designed to support identification and prioritization of biological targets for follow-up. Each drug target is linked to a disease using integrated genome-wide data from a broad range of data sources. The platform provides either a target-centric workflow to identify diseases that may be associated with a specific target, or a disease-centric workflow to identify targets that may be associated with a specific disease. Users can easily transition between these target- and disease-centric workflows.
The Complex Portal is a manually curated, encyclopaedic resource of macromolecular complexes from a number of key model organisms. The majority of complexes are made up of proteins but may also include nucleic acids or small molecules. All data is freely available for search and download.
4DNucleome Data Portal
The 4D Nucleome Data Portal (4DN) hosts data generated by the 4DN Network and other reference nucleomics data sets, and an expanding tool set for open data processing and visualization. It is a platform to search, visualize, and download nucleomics data.
Scroll for more...
EMERALD Publishing Limited, Bingley, UK (Publisher)
European Commision grants FELICS (Government body)
European Molecular Biology Laboratory (EMBL), Heidelberg, Germany (Research institute)
021902 (European Commision grants FELICS)
LSHG-CT-2006-037686 (EMERALD Publishing Limited, Bingley, UK)