ArrayExpress update—simplifying data submissions

…, A Tikhonov, H Parkinson, R Petryszak… - Nucleic acids …, 2015 - academic.oup.com
… Rustici, Andrew Tikhonov, Helen Parkinson, Robert Petryszak, Ugis Sarkans, Alvis Brazma,
… Moreover, where possible R objects are generated to enable users to readily manipulate …

New developments in the InterPro database

…, S Orchard, C Orengo, R Petryszak… - Nucleic acids …, 2007 - academic.oup.com
InterPro is an integrated resource for protein families, domains and functional sites, which
integrates the following protein signature databases: PROSITE, PRINTS, ProDom, Pfam, …

Expression Atlas update—an integrated database of gene and protein expression in humans, animals and plants

R Petryszak, M Keays, YA Tang… - Nucleic acids …, 2016 - academic.oup.com
… All differential expression data are now also available for further analysis as R objects. … as
R objects. We will also create an R package in Bioconductor (24) for accessing all Atlas data. …

ArrayExpress update–from bulk to single-cell expression data

…, A Ali, C Snow, NA Fonseca, R Petryszak… - Nucleic acids …, 2019 - academic.oup.com
ArrayExpress ( https://www.ebi.ac.uk/arrayexpress ) is an archive of functional genomics data
from a variety of technologies assaying functional modalities of a genome, such as gene …

Open Targets: a platform for therapeutic target identification and validation

…, B Palka, J Paschall, R Petryszak… - Nucleic acids …, 2017 - academic.oup.com
We have designed and developed a data integration and visualization platform that provides
evidence about the association of known and potential drug targets with diseases. The …

Expression Atlas update: from tissues to single cells

…, S Jupp, J Marioni, K Meyer, R Petryszak… - Nucleic acids …, 2020 - academic.oup.com
Expression Atlas is EMBL-EBI’s resource for gene and protein expression. It sources and
compiles data on the abundance and localisation of RNA and proteins in various biological …

Expression Atlas: gene and protein expression across multiple studies and organisms

…, JA Vizcaino, A Brazma, R Petryszak - Nucleic acids …, 2018 - academic.oup.com
… Expression Atlas R object Since the previous update we have released an R package in …
from all studies in the Expression Atlas database into their R session (https://www.bioconductor.…

Expression Atlas update—a database of gene and transcript expression from microarray-and sequencing-based functional genomics experiments

R Petryszak, T Burdett, B Fiorelli… - Nucleic acids …, 2014 - academic.oup.com
Expression Atlas (http://www. ebi. ac. uk/gxa) is a value-added database providing information
about gene, protein and splice variant expression in different cell types, organism parts, …

Discovering and linking public omics data sets using the Omics Discovery Index

…, RC Beavis, RM Salek, U Sarkans, R Petryszak… - Nature …, 2017 - nature.com
… YP-R. and MB designed and developed the web and annotation/enrichment framework. …
Nd-T., YP-R. and TT developed the PRIDE reader and contributed to the web development. …

Gene Expression Atlas update—a value-added database of microarray and sequencing-based functional genomics experiments

…, J Malone, O Melnichuk, R Petryszak… - Nucleic acids …, 2012 - academic.oup.com
Gene Expression Atlas ( http://www.ebi.ac.uk/gxa ) is an added-value database providing
information about gene expression in different cell types, organism parts, developmental stages…