The ChEMBL Database in 2023: a drug discovery platform spanning multiple bioactivity data types and time periods

B Zdrazil, E Felix, F Hunter, EJ Manners… - … acids research, 2024 - academic.oup.com
… The core content of the ChEMBL database is published bioactivity data, from a set
error-checking user data. The documentation also covers common errors and issues in deposited …

JASPAR 2022: the 9th release of the open-access database of transcription factor binding profiles

JA Castro-Mondragon, R Riudavets-Puig… - … acids research, 2022 - academic.oup.com
data-type specific; we maintained the CORE and Unvalidated … question is what fraction of
TFs have a binding profile in JASPAR. For humans, the JASPAR vertebrates CORE collection

Comparative toxicogenomics database (CTD): update 2023

AP Davis, TC Wiegers, RJ Johnson… - … acids research, 2023 - academic.oup.com
… events) to filter the data set to 601 tetramers composed of 11 chemicals, 62 genes and 88
phenotypes (Figure 1C). Finally, researchers can manually consolidate the tetramers to …

The European nucleotide archive in 2022

J Burgin, A Ahamed, C Cummins, R Devraj… - … acids research, 2023 - academic.oup.com
… established for 40 years as a database of record for nucleotide sequence … data for biodiversity
research, covering different data resources eg molecular biology, natural history collections

miRTarBase update 2022: an informative resource for experimentally validated miRNA–target interactions

HY Huang, YCD Lin, S Cui, Y Huang… - … acids research, 2022 - academic.oup.com
… biomedical corpus to solve the problem that ordinary text mining … Here, we collected
comprehensive miRNA expression … between ‘biochemistry and molecular biology’ and ‘oncology’ …

The UCSC genome browser database: 2023 update

LR Nassar, GP Barber, A Benet-Pagès… - … acids research, 2023 - academic.oup.com
… 1) is an online resource for the genomics community providing data access and visualization…
) (15), which aims to collect and standardize gene-disease validity annotations across …

The next-generation Open Targets Platform: reimagined, redesigned, rebuilt

D Ochoa, A Hercules, M Carmona… - … acids research, 2023 - academic.oup.com
… safety issues can also influence the prioritisation strategy. A new ‘Genetic Constraint’ data
widget … model, the newly developed Spark extract-transform-load pipeline produces a set of …

The ProteomeXchange consortium at 10 years: 2023 update

EW Deutsch, N Bandeira, Y Perez-Riverol… - … acids research, 2023 - academic.oup.com
… between the submitted data and the metadata collected. … be reanalysed using sequence
databases constructed by eg … potential legal issues of this type, they should submit their data to …

InterPro in 2022

T Paysan-Lafosse, M Blum, S Chuguransky… - … acids research, 2023 - academic.oup.com
… To resolve this issue, we have redesigned the menu, it is … field of molecular biology and
biomedical research. DeepMind … amino acid sequences using Pfam families as a training set (31)…

The STRING database in 2023: protein–protein association networks and functional enrichment analyses for any sequenced genome of interest

D Szklarczyk, R Kirsch, M Koutrouli… - … acids research, 2023 - academic.oup.com
… dedicated to data integration in the protein network context have been developed. These
resources aim to collect and critically assess protein–protein functional linkage data, integrate it…