ChEMBL Resources

Resources:
ChEMBL
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SureChEMBL
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ChEMBL-NTD
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ChEMBL-Malaria
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The SARfaris: GPCR, Kinase, ADME
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UniChem
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DrugEBIlity
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ECBD

Tuesday, 30 May 2017

Post-doctoral positions

Two exciting post-doctoral projects are available via the ESPOD and EBPOD schemes between the European Bioinformatics Institute and respectively the Sanger Institute and the NIHR Cambridge Biomedical Research Centre (BRC). Post-doctoral fellows appointed via these schemes work on projects under the joint supervision of faculty members from EMBL-EBI and the Sanger or BRC as appropriate. Specifically:

(a) In collaboration with Mathew Garnet at the Sanger Institute, a project to exploit the potential of combining large-scale drug sensitivity screening platforms with the chemogenomics resources and expertise at the EBI.
Applications can be made via the relevant link here: http://www.ebi.ac.uk/research/postdocs/espods

(b) In collaboration with Vasilis Kosmoliaptsis in the Department of Surgery at Addenbrooke’s hospital, to capitalize on our greater understanding of the molecular basis of the immunological response and the ever-growing volumes of genetic and clinical outcomes data to develop new and improved methods for organ transplantation.
Applications via this page: http://www.ebi.ac.uk/research/postdocs/ebpods

Potential applicants should note that these fellowships are awarded after a competitive selection process; more details can be found at the above links or via arl@ebi.ac.uk. The closing date is 1st July.

Friday, 19 May 2017

ChEMBL_23 released


We are pleased to announce the release of ChEMBL_23. This release was prepared on 1st May 2017 and contains:

* 2,101,843 compound records
* 1,735,442 compounds (of which 1,727,112 have mol files)
* 14,675,320 activities
* 1,302,147 assays
* 11,538 targets
* 67,722 source documents

Data can be downloaded from the ChEMBL ftp site: ftp://ftp.ebi.ac.uk/pub/databases/chembl/ChEMBLdb/releases/chembl_23

Please see ChEMBL_23 release notes for full details of all changes in this release: ftp://ftp.ebi.ac.uk/pub/databases/chembl/ChEMBLdb/releases/chembl_23/chembl_23_release_notes.txt


DATA CHANGES SINCE THE LAST RELEASE

In addition to the regular updates to the Scientific Literature, FDA Orange Book and USP Dictionary of USAN and INN Investigational Drug Names and Clinical Candidates, this release of ChEMBL also includes the following new data:

Patent Bioactivity Data
With funding from the NIH Illuminating the Druggable Genome project (https://commonfund.nih.gov/idg), we have extracted bioactivity data relating to understudied druggable targets from a number of patent documents and added this data to ChEMBL.  

Curated Drug Pharmacokinetic Data
We have manually extracted pharmacokinetic parameters for approved drugs from DailyMed drug labels. 

Drug information from British National Formulary and ATC classification
We have now included compound records for drugs that are in the WHO ATC classification or the British National Formulary (BNF). Currently only BNF drugs that already exist in ChEMBL have been assigned compound records. In future releases we will add new BNF drugs to ChEMBL.

Deposited Data Sets
CO-ADD, The Community for Open Antimicrobial Drug Discovery (http://www.co-add.org), is a global open-access screening initiative launched in February 2015 to uncover significant and rich chemical diversity held outside of corporate screening collections. CO-ADD provides unencumbered free antimicrobial screening for any interested academic researcher.  CO-ADD has been recognised as a novel approach in the fight against superbugs by the Wellcome Trust, who have provided funding through their Strategic Awards initiative. Open Source Malaria (OSM) is aimed at finding new medicines for malaria using open source drug discovery, where all data and ideas are freely shared, there are no barriers to participation, and no restriction by patents. The initial set of deposited data from the CO-ADD project consists of OSM compounds screened in CO-ADD assays (DOI = 10.6019/CHEMBL3832881).

Modelled on the Malaria Box, the MMV Pathogen Box contains 400 diverse, drug-like molecules active against neglected diseases of interest and is available free of charge (http://www.pathogenbox.org). The Pathogen Box compounds are supplied in 96-well plates, containing 10​uL of a 10mM dimethyl sulfoxide (DMSO) solution of each compound. Upon request, researchers around the world will receive a Pathogen Box of molecules to help catalyse neglected disease drug discovery. In return, researchers are asked to share any data generated in the public domain within 2 years, creating an open and collaborative forum for neglected diseases drug research. The initial set of assay data provided by MMV has now been included in ChEMBL (DOI = 10.6019/CHEMBL3832761).


FORTHCOMING CHANGES

Schema changes will be made in ChEMBL_24 to accommodate more complex data types. Details of these changes will be released soon. Please follow the ChEMBL blog or sign up to the ChEMBL announce mailing list for details (http://listserver.ebi.ac.uk/mailman/listinfo/chembl-announce)

Changes will also be made in ChEMBL_24 to the way some of the physicochemical properties are calculated. Details of these changes will be announced soon.


Funding acknowledgements:

Work contributing to ChEMBL_23 was funded by the Wellcome Trust, EMBL Member States, Open Targets, National Institutes of Health (NIH) Common Fund, EU Innovative Medicines Initiative (IMI) and EU Framework 7 programmes. Please see https://www.ebi.ac.uk/chembl/funding for more details.


The ChEMBL Team


If you require further information about ChEMBL, please contact us: chembl-help@ebi.ac.uk

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