News archive 2019

December

19 Dec 2019

RNAcentral 14: LSU secondary structures and 5 new databases

We are pleased to announce that a new RNAcentral release is now live. Version 14 features secondary structure diagrams for large ribosomal subunits as well as 5 new expert databases: 5SrRNAdb, GeneCards, MalaCards, MirGeneDB, and snoDB. Read more
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17 Dec 2019

Retirement of periodic ENA assembled/annotated sequence release in March 2020

The European Nucleotide Archive (ENA) captures, preserves and presents the world's nucleotide sequence data. Since 1982 the European Nucleotide Archive has made 140 individual releases, providing a quarterly snapshot of ENA assembled/annotated sequence data. During this time, changes to the ways in which users access ENA data have led us to develop a portfolio of data access tools, such as our daily FTP products and the ENA Browser API, which are currently offered in parallel to the traditional release. Read more
17 Dec 2019

New releases: InterPro 77.0 and InterProScan 5.39-77.0

InterPro version 77.0 and InterProScan 5.39-77.0 are now available! InterPro now features hundreds of new methods integrated from partner databases, and InterProScan draws on over 37,000 entries. Read more
InterPro: protein sequence analysis & classification
11 Dec 2019

Using multiomics to define the mammalian primary germ layers

Using multiple data types to understand how the mammalian embryo develops in its earliest stages of life Read more
Single-cell sequencing plots showing RNA expression, DNA methylation, and chromatin accessibility
9 Dec 2019

A machine learning approach to identify functional human phosphosites

New resource for identifying functional human phosphosites relevant for diverse biological processes and disease. Read more
Artist's impression of phosphosite and machine learning

November

19 Nov 2019

ENA Nucleic Acids Research 2019 paper published

The latest European Nucleotide Archive NAR paper is now live and features the latest developments, including: New ENA browser Data submissions Introduction of new data classes and metadata standards Expanded data coordination portfolio Read more
12 Nov 2019

EVA's first non-human RS ID release

The European Variation Archive (EVA) announced today its latest release consisting of 750 154 888 variant locus (RS) IDs in 203 non-human species. This release is the culmination of a year long process to import all non-human RefSNP (RS) accessioned variants from dbSNP. The release is available via the following methods: Bulk download Read more
12 Nov 2019

Convention on the Rights of the Child stored in DNA

Synthetic DNA containing text to be safely stored in the Arctic World Archive in Svalbard Read more
Nick Goldman and three children talk about encoding into synthetic DNA the text of the Convention on the Rights of the Child
7 Nov 2019

Funding to sequence thousands of species in Britain and Ireland

Wellcome funding to help Darwin Tree of Life project barcode 8000 species and sequence 2000 genomes Read more
Hedgehog in the grass with autumn leaves. Credit: Pixabay
4 Nov 2019

GlyGen: Open data for glycoscience

New glycoscience informatics portal helps researchers find and share glycan data Read more
GlyGen allows you to search for glycoproteins based on proteins or glycan structures. Credit: GlyGen

October

18 Oct 2019

Linking protein function and structure

PDBe-KB links UniProtKB proteins to structures  Read more
PDBe-KB links UniProtKB proteins to structures 
17 Oct 2019

Funding to set up tuberculosis monitoring tool

A pilot project aims to use DNA sequencing to help track and treat tuberculosis Read more
Female scientist pipetting
16 Oct 2019

NIH award to support integrated pathogen and vector genomics information resources

A team led by scientists at the University of Pennsylvania and University of Georgia provides thousands of researchers around the world with access to the Eukaryotic Pathogen Genomics Database (EuPathDB), a collection of resources for analyzing large-scale datasets associated with microbial pathogens. These include the parasites responsible for malaria, sleeping sickness, and toxoplasmosis; the fungi responsible for thrush, aspergillosis and Valley Fever; and many other important diseases. Read more
 Sand fly Lutzomyia longipalpis. Credit: Dr Ray Wilson. www.raywilsonbirdphotography.co.uk/
8 Oct 2019

Release 141 of ENA's assembled/annotated sequences is now available

Release 141 of assembled/annotated sequences from ENA is now available on the EBI public ftp server at ftp://ftp.ebi.ac.uk/pub/databases/ena/sequence/release/ Read more

September

12 Sep 2019

B cells linked to immunotherapy for melanoma

Researchers find evidence that B cells may be more important in immunotherapy than previously thought Read more
Using multiplex-immunostaining to characterise B cells. Credit: Christine Wagner
3 Sep 2019

25 years of EMBL-EBI

This month, EMBL-EBI is celebrating 25 years of activity. Happy anniversary, EMBL-EBI! Read more
EMBL-EBI species watermark

August

9 Aug 2019

Pinpointing the molecular mechanisms of ageing

EMBL-EBI researchers use epigenetic clock to identify gene linked to ageing in humans Read more
DNA strand and clock superimposed on left eye. Photo: Adobe Stock
6 Aug 2019

Exploring the beauty of proteins

The fourth PDB Art exhibition showcased almost 200 protein-inspired artworks Read more
PDB Art 2019 protein-inspired paintings
2 Aug 2019

Measuring the impact of omics data

OmicsDI launches metrics to quantify the impact of biomedical datasets Read more
OmicsDI introduces impact score for biomedical datasets

July

23 Jul 2019

EMBL-EBI appoints two Associate Directors

Paul Flicek and Jo McEntyre appointed Associate Directors of EMBL-EBI Services Read more
Paul Flicek and Jo McEntyre appointed Associate Directors of EMBL-EBI
11 Jul 2019

New Single Cell Expression Atlas release is live

The latest release of the Single Cell Expression Atlas is now available! It features 99 individually curated single-cell RNA-seq experiments over 11 different species. The analysis pipelines have been updated and now process data from droplet-based technologies such as 10x Genomics and Drop-Seq. Read more
Single Cell Expression Atlas release
8 Jul 2019

Release 140 of ENA's assembled/annotated sequences is now available

Release 140 of assembled/annotated sequences from ENA is now available on the EBI public ftp server at ftp://ftp.ebi.ac.uk/pub/databases/ena/sequence/release/ It contains 261,149,873 sequence entries comprising 339,264,788,161 nucleotides. You can see the full release notes at: http://bit.ly/LKFtrE  Read more
ENA
2 Jul 2019

BioImage Archive - a new hub for biological images

EMBL-EBI announces the launch of the BioImage Archive, a large-scale, centralised data resource to host reference imaging data Read more
BioImage Archive logo

June

17 Jun 2019

Deciphering suitable cancer drug combinations

Industry and academia crowdsource methods to identify effective drug combinations for personalised cancer treatment Read more
Aspirine molecule
15 Jun 2019

Reactome links contributors’ work to ORCID

EMBL-EBI’s pathway database, Reactome, now allows contributors to easily claim their work to ORCID Read more
Reactome logo

May

31 May 2019

Funding to share genomic data from UK Biobank through EGA

First 50 000 genomes from UK Biobank participants to be made available through the European Genome-phenome Archive Read more
European Genome-phenome Archive logo
25 May 2019

New repository for algorithms trained on genomic data

Kipoi provides centralised access to standardised machine learning models Read more
Server with DNA. Kipoi repository machine learning algorithms
20 May 2019

Enzyme Portal: Facilitating enzyme research

EMBL-EBI has relaunched the Enzyme Portal, a unified public data resource for scientists who are interested in the biological function and biochemistry of enzymes. The primary objective of the Enzyme Portal is to allow scientists to navigate available knowledge about enzymes and utilise exploratory tools that facilitate novel discoveries and enzyme design. Read more
Enzyme portal logo
16 May 2019

CRISPR offers new insights into critical cancer changes

Large scale analysis uncovers which gene fusions are critical for the growth of cancer cells Read more
Pancreatic cancer cells: one of 43 types of cancer studied by the Wellcome Sanger Institute for gene fusions. Image credit: Anne Weston, Francis Crick Institute
15 May 2019

New releases: InterPro 74.0 and InterProScan 5.35-74.0

InterPro version 74.0 and InterProScan 5.35-74.0 are now available! InterPro now features hundreds of new methods integrated from partner databases, and InterProScan draws on over 36,000 entries. Read more
InterPro: protein sequence analysis & classification

April

29 Apr 2019

Protein regulation mechanisms conserved for millions of years

Specific protein phosphorylation events are consistent across the tree of life Read more
15 Apr 2019

Release 139 of ENA's assembled/annotated sequences is now available

Release 139 of assembled/annotated sequences from ENA is now available on the EBI public ftp server at ftp://ftp.ebi.ac.uk/pub/databases/ena/sequence/release/ It contains 2,217,365,678 sequence entries comprising 5,533,038,671,846 nucleotides. You can see the full release notes at: http://bit.ly/LKFtrE  Read more
10 Apr 2019

Prioritising cancer drug targets using CRISPR

Large CRISPR screen prioritises hundreds of promising genes for personalised cancer treatment Read more
Large CRISPR screen prioritises hundreds of promising genes for personalised cancer treatment
9 Apr 2019

Ensembl 96 and Ensembl Genomes 43 are out!

These releases are huge in many respects, so it was difficult to decide which news to put first! Let’s start with some exciting news from our annotators. Mouse Genome Annotation Milestone Ensembl/GENCODE annotators have completed a first-pass ‘walk’ across the entire reference mouse genome that started in 2012, investigating the sequence, aligned data and computational predictions for each BAC clone in turn. This is the GENCODE M21 gene set. Read more
Ensembl logo
5 Apr 2019

Ensembl 96: Manually annotated mouse genome available

Researchers manually examine and annotate every base in the mouse genome – now available in Ensembl Read more
Ensembl 96 features manually annotated mouse genome

March

28 Mar 2019

New releases: InterPro 73.0 and InterProScan 5.34 - 73.0

InterPro version 73.0 and InterProScan 5.34- 73.0 are now available! InterPro now features hundreds of new methods integrated from partner databases, and InterProScan draws on over 36,000 entries. Read more
InterPro: protein sequence analysis & classification
20 Mar 2019

PDBe-KB: Comprehensive protein data for drug development

New community-led data resource for protein structure and function launches Read more
PDBe-KB logo on gradient background
14 Mar 2019

Funding awarded for bioinformatics infrastructure

UKRI Strategic Priorities Fund has awarded £45 million to EMBL-EBI to support technical and building infrastructure enhancement Read more
EMBL-EBI receives £45 million to enhance data and building infrastructure
13 Mar 2019

Monitoring antimicrobial resistance using sewage samples

Comprehensive analysis of sewage samples collected in 60 countries offers global view of antimicrobial-resistant bacteria Read more
Heatmap of antimicrobial resistance levels as revealed from sewage samples

February

16 Feb 2019

Understanding early embryo development in mice

Single-cell sequencing helps researchers understand how mouse embryo cells generate different organs in the body Read more
Representation of single cell map superimposed on mouse embryo
11 Feb 2019

Almost 2000 unknown bacteria discovered in the human gut

Researchers identify novel gut bacteria species and call for more data from beyond Europe and North America Read more
4 Feb 2019

More than 100 new gut bacteria discovered in human microbiome

A new database of bacteria in the human microbiome is the most comprehensive to date. Read more
4 Feb 2019

The web meets genomics: a DNA search engine for microbes

New search engine allows researchers to identify antibiotic resistance genes or mutations in real time Read more

January

28 Jan 2019

Classifying disease-relevant genomic features

Novel approach to assess functional consequences of disease-associated genetic variants Read more
Enrichment of GWA analysis P values using GARFIELD
28 Jan 2019

RNAcentral 11 is live

We are pleased to announce that a new RNAcentral release is now available. Version 11 includes miRNA-target interactions from TarBase and LncBase, a new public Postgres database, data from Ensembl Plants, miRBase word clouds, and lots more. Read more
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28 Jan 2019

Rfam 14.1 is now available

We are happy to announce that a new Rfam release is now available! Rfam 14.1 includes 226 new families bringing the total number of Rfam families to 3,016. In addition, the R-scape visualisations have been updated to display pseudoknots, both manually annotated in seed alignments and predicted by R-scape. Read more
Rfam logo
23 Jan 2019

Cloud system facilitates transcontinental human data exchange

CINECA project will unite more than a million human data sets from across Africa, Canada and Europe Read more
CINECA logo - facilitating transcontinental human data exchange
22 Jan 2019

Ian Dunham appointed as Open Targets Director

Ian Dunham set to lead drug target identification initiative, Open Targets Read more
Ian Dunham, new Open Targets Director in EMBL-EBI South Building
17 Jan 2019

New releases: InterPro 72.0 and InterProScan 5.33-72.0

InterPro version 72.0 and InterProScan 5.33-72.0 are now available! InterPro now features hundreds of new methods integrated from partner databases, and InterProScan draws on over 36,000 entries. Read more
InterPro: protein sequence analysis & classification
16 Jan 2019

Open data and biodiversity

How open scientific databases can contribute to Access and Benefit Sharing Read more
Keyboard with open data key
14 Jan 2019

Ensembl 95 has been released

The latest version of Ensembl, release 95, is out. This release brings a brand new human regulatory build for GRCh37 and GRCh38, incorporating new data from the ENCODE and Roadmap epigenomics project, plus an update to the mouse GENCODE gene set. We've also got a whole host of new vertebrate species, updated genome assemblies for some important agricultural species and the brand new protein structure viewer. Read more
Ensembl logo
10 Jan 2019

Funding facilitates access to European proteomics facilities

EMBL-EBI and collaborators awarded grant for mass spectrometry-based proteomics research Read more
EPIC-XS logo
3 Jan 2019

A review of national genomic data initiatives

The Global Alliance for Genomics and Health (GA4GH) presents roadmap for sharing strategies, standards and genomic data internationally Read more
GA4GH logo on globe