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3 February 2025 A cup of yerba mate on a wooden surface and some dried yerba mate next to it.

Scientists map yerba mate genome

Yerba mate is a popular caffeinated beverage. Scientists mapped its genome, revealing surprising facts about its biochemistry and the evolution of caffeine biosynthesis. The findings might pave the way for new varieties of yerba mate.

SCIENCE & TECHNOLOGY

2025

science-technology

14 January 2025 EMBL Director General Edith Heard (left) and ELLIS President Bernhard Schölkopf (right) are signing the Memorandum of Understanding.

New strategic partnership for AI in the sciences

Memorandum of Understanding between EMBL and ELLIS will drive AI in European life science research, training, and technology. The strategic partnership will promote interdisciplinary training and develop innovative projects that address pressing challenges in human and planetary health.

CONNECTIONS

2025

connections

9 January 2025

DECIPHER v11.29 released

The v11.29 DECIPHER release is out now. Find out about the new features and improvements.

2025

updates-from-data-resources

17 December 2024

Fuelling discovery together: 2024 user survey learnings

Blog post by Eleni Tzampatzopoulou, EMBL-EBI Impact Manager In summer 2024, EMBL-EBI ran a user survey, inviting our community to let us know how they use the open data resources we jointly manage with our collaborators. With over 2,300 responses from 126 countries, we were delighted by the depth…

2024

announcements

26 November 2024

Complex Portal expands Human Complexome with ML-predicted human protein complexes

The Complex Portal – an encyclopaedic resource of macromolecular complexes from key model organisms – has expanded its coverage of the Human Complexome. This includes: To find out more, read the new paper entitled Complex Portal 2025: Predicted human complexes and enhanced visualisation tools…

2024

uncategorizedupdates-from-data-resources

25 November 2024

Sparking a data revolution

The introduction of computational methods in biology opened up an entirely new world of insights and breakthroughs. Over the last several decades, EMBL has been at the forefront of discoveries and innovations that have not only propelled the field forward but also opened up access to bioinformatics…

SCIENCE & TECHNOLOGY

2024

science-technology

7 November 2024

Welcome: Dan Trigg

Tell us a little bit about yourself. I’m a chartered civil engineer and I’ve worked in different capacities in the building and construction space. I worked for a contractor, delivering large infrastructure projects, such as roads, tunnels, bridges all over the UK.  I also worked as a…

2024

perspectives

25 October 2024

DECIPHER v11.28 Released

The v11.28 DECIPHER release is out now. Find out about the new features and improvements.

2024

updates-from-data-resources

23 October 2024

BioChemGraph: Unifying structural and bioactivity data to accelerate drug discovery

In the era of data-driven biology, integrating information from different resources is essential yet often challenging. The BioChemGraph project addresses this challenge by creating infrastructure that consolidates structural, functional, and biochemical annotations for small molecules and their…

2024

updates-from-data-resources

21 October 2024 InterPro logo

InterPro 102.0 released

InterPro version 102.0 and InterProScan 5.70-102.0 are now available. 

2024

updates-from-data-resources

10 October 2024 A multi-coloured donut representing the structure of an NPC.

“Structurally” sound

The function of biological molecules is intimately linked to their structure. In the 50 years since EMBL was established, its researchers and engineers have constantly provided leadership in structural biology research and services, resulting in many scientific breakthroughs and novel insights.

SCIENCE & TECHNOLOGY

2024

science-technology

8 October 2024

New MGnify Proteins web resources launched

EMBL-EBI’s microbiome data resource MGnify produces a valuable trove of protein sequence data through its ongoing analysis of microbiome derived data. Two new MGnify Proteins web resources make this dataset easily accessible and searchable, both for large queries across the entire database…

2024

updates-from-data-resources

24 September 2024 Single Cell Expression Atlas logo on green background

Single Cell Expression Atlas 21 released

New datasets The release has 381 single-cell RNA-Seq experiments, consisting of more than 13.5 million cells from 21 different species to explore in the Single Cell Expression Atlas (SCEA). The resource now includes an entirely new class of data – externally analysed data, marked with an…

2024

updates-from-data-resources

23 August 2024

Welcome: David Ocaña

EMBL-EBI’s new Head of Applications will use his expertise in cloud infrastructure and security to support the institute’s open data resources.

PEOPLE & PERSPECTIVES

2024

people-perspectivesperspectives

25 July 2024

DECIPHER v11.27 release

The v11.27 DECIPHER release is out now. Find out about the new features and improvements.

2024

updates-from-data-resources

21 June 2024

Welcome: Mallory Freeberg

The new Team Leader for Human Genomics at EMBL-EBI shares how curiosity and maths shaped her career and what it takes to be a community builder.

PEOPLE & PERSPECTIVES

2024

people-perspectivesperspectives

28 May 2024 DECIPHER logo

DECIPHER v11.26 release

The latest DECIPHER release includes AlphaMissense scores, links to the Open Targets Platform and more.

2024

updates-from-data-resources

17 May 2024 Expression Atlas logo

Expression Atlas 40 released

The latest Expression Atlas 40 release is now live, containing new RNA-seq datasets, including a featured experiment resulting from a collaboration with Genotype Tissue Expression (GTEx) project as well as new proteomics data derived from our collaboration with PRIDE. In total, this release…

2024

updates-from-data-resources

13 May 2024 Ensembl logo in white circle on blue and green background

Ensembl 112 has been released

Ensembl 112 and the corresponding release of Ensembl Genomes 59 has released. This includes exciting new fish species, many more drosophila species and new VEP updates.

2024

updates-from-data-resources

2 April 2024

DECIPHER v11.25 released

The latest DECIPHER update, version 11.25, introduces new key features including the integration of functional data from multiplexed assays of variant effect (MAVEs) and much more.

2024

updates-from-data-resources

27 March 2024

Using Data Hubs to analyse SARS-CoV-2 and other pathogen sequences

The SARS-CoV-2 Data Hubs are a set of tools coupled with infrastructure that support four components: the submission, analysis, presentation and visualisation of SARS-CoV-2 raw read data, and its resulting analyses. What makes Data Hubs attractive is a unique set of features: A new publication in…

2024

updates-from-data-resources

8 March 2024 MGnify logo with text underneath which reads release

MGnify Genomes mouse gut catalogue v1.0 released

The MGnify data resource for microbiome data has launched the latest MGnify Genomes catalogue comprising 112,951 genomes derived from mouse gut datasets, represented by 2,847 species-level cluster representative genomes. This catalogue was generated as part of our work with the MRC funded…

2024

updates-from-data-resources

28 February 2024 DECIPHER logo

DECIPHER v11.24 Released

Version 11.24 of DECIPHER introduces a new ACMG/AMP pathogenicity interface for sequence variant predictions, displays ClinGen Variant Curation Expert Panel recommendations on gene pages, and updates ACMG secondary finding information to v3.2.

2024

updates-from-data-resources

29 January 2024 InterPro logo

InterPro 98.0 released

InterPro version 98.0 and InterProScan 5.66-98.0 are now available. InterPro now features hundreds of new methods integrated from partner databases, and InterProScan draws on over 40000 entries. InterPro version 98.0 New features include: InterPro 98.0 covers 81.7% of UniProt Knowledgebase release…

2024

updates-from-data-resources

12 January 2024 Ensembl logo in white circle on blue and green background

Ensembl 111 has been released

The Ensembl 111 features a range of new Ensembl VEP plugins and updated agricultural, fish, plant and metazoa species.

2024

updates-from-data-resources

14 November 2023 InterPro logo

InterPro 97.0 released

InterPro version 97.0 and InterProScan 5.64-97.0 are now available. InterPro now features hundreds of new methods integrated from partner databases, and InterProScan draws on over 40000 entries.

2023

updates-from-data-resources

26 September 2023 InterPro logo

InterPro 96.0 released

InterPro version 96.0 and InterProScan 5.64-96.0 are now available.

2023

updates-from-data-resources

21 September 2023

Understanding the mechanisms of enzyme catalysis

Enzymes constitute a large fraction of genomes – 20% in humans – which makes them a very important part of life. Despite decades of studies and a rich literature dedicated to understanding the reaction mechanisms of enzymes, the rules of enzyme catalysis are still not fully clear. A new…

SCIENCE & TECHNOLOGY

2023

science-technologytechnology-and-innovation

21 September 2023 Man standing outside

Welcome: David Hulcoop

David Hulcoop discusses how his experience bridging organisational cultures will help address critical challenges in drug discovery and target selection at Open Targets.

LAB MATTERSPEOPLE & PERSPECTIVES

2023

announcementslab-matterspeople-perspectives

25 July 2023 Ensembl logo in white circle on blue and green background

Ensembl Bacteria releases new annotation for all its genomes

Ensembl 110 and Ensembl Genomes 57 have introduced in-house prokaryotic gene annotation across genomes available in Ensembl Bacteria.  Since its inception, Ensembl Bacteria has imported user-submitted annotations from the International Nucleotide Sequence Database Collaboration (INSDC) for…

2023

updates-from-data-resources

17 July 2023 Ensembl logo in white circle on blue and green background

Ensembl 110 has been released

Ensembl 100 release brings exciting updates, such as the addition of regulation data to 5 animal genomes studied extensively in agriculture.

2023

updates-from-data-resources

7 July 2023 InterPro logo

InterPro 95.0 released

InterPro version 95.0 and InterProScan 5.63-95.0 are now available! InterPro now features hundreds of new methods integrated from partner databases, and InterProScan draws on over 39000 entries. InterPro version 95.0 – new features include: InterPro 95.0 covers 81.7% of UniProt Knowledgebase…

2023

updates-from-data-resources

3 July 2023 In the foreground: an intrinsically disordered protein, which has a form of a tangled, unstructured string. In the background: a set of parallel curved lines.

Bringing research on disordered proteins to order

A third of all known proteins are either completely or partially unstructured. EMBL scientists contributed to a new set of guidelines – Minimum Information About a Disorder Experiment (MIADE) – that will help researchers share data on unstructured proteins in a more useful way and will enable…

SCIENCE & TECHNOLOGY

2023

sciencescience-technology

16 May 2023

Managing a bioinformatics core facility

BioImage Archive Team Leader Matthew Hartley shares his experience and tips for people interested in managing a bioinformatics core facility.

2023

technology-and-innovation

18 April 2023 Decorative image showing WormBase ParaSite logo

WormBase ParaSite 18 released

WormBase ParaSite release 18 adds largest number of new genomes and annotations since launch, as well as full integration with AlphaFold.

SCIENCE & TECHNOLOGY

2023

science-technologyupdates-from-data-resources

29 March 2023 Photographs of two male scientists in circular insets against a decorative background

EMBL Alumni Awards Announced for 2023

Two former EMBL scientists have been recognised for their outstanding contributions to the fields of science communication and multiple sequence alignment research, respectively.

2023

alumni

22 March 2023 Artistic representation that features a long, winding helix joining together a doughnut-figure to a small shaggy ball to indicate the connections long-read sequencing can make about DNA mutations.

The ‘long read’ for cancer

Using Oxford Nanopore long-read sequencing, EMBL scientists sequenced a primary childhood brain tumour known as a medulloblastoma, uncovering a novel complex mutation pattern.

2023

science

7 March 2023 InterPro logo

New releases: InterPro 93.0 and InterProScan 5.61-93.0

InterPro now features hundreds of new methods integrated from partner databases, and InterProScan draws on over 38,000 entries. InterPro version 93.0 InterPro 93.0 integrates 300 new methods from the CDD (261), PANTHER (12), PROSITE profiles (17), SMART (9), TIGRFAMs (1) databases, and covers 81.7%…

2023

updates-from-data-resources

23 February 2023 Decorative image

New Job Dispatcher website launched

EMBL-EBI’s Software Development and Operations team is delighted to announce the launch of a brand-new Job Dispatcher website, currently in development.  The updated website provides a landing page for the Job Dispatcher services, making it easier for users to find and navigate services…

2023

updates-from-data-resources

8 February 2023 Ensembl logo in white circle on blue and green background

Ensembl 109 has been released

Latest Ensembl and Ensembl Genomes releases bring updates to donkey and horse assemblies, and lots of new plants and metazoa.

2023

updates-from-data-resources

4 January 2023 InterPro logo

New releases: InterPro 92.0 and InterProScan 5.60-92.0

InterPro version 92.0 and InterProScan 5.60-92.0 are now available. InterPro now features hundreds of new methods integrated from partner databases, and InterProScan draws on over 38000 entries.

2023

updates-from-data-resources

20 December 2022

First linked dataset on Pathogens Portal

The first  cohort study linking data across categories was recently added on the Pathogens Portal Cohort Browser and is also accessible from the BioSamples browser. This pilot study comes from Erasmus Medical Centre through the ReCoDID project, one of the COVID-19 Data Platform supporting…

2022

updates-from-data-resources

11 November 2022 Photos of four panel discussion speakers

Open science for climate justice

Our experts discuss the importance of open science for food security and preserving global biodiversity.

2022

perspectivesscience

2 November 2022 Fluorescent microscopy image of skeletal muscle with biological data imagery

AI4LIFE: AI models for bioimaging

Researchers across EMBL are helping to make artificial intelligence (AI) models for bioimaging analysis interoperable and openly available to the scientific community.

2022

announcementsscience

21 October 2022 Ensembl logo in white circle on blue and green background

Ensembl 108 has been released

We are pleased to announce the release of Ensembl 108, and the corresponding release of Ensembl Genomes 55 featuring changes in the human default tracks, new genomes in Ensembl Plants and Ensembl Metazoa, and the addition of mitochondrial annotation for Tasmanian devil. Genome assemblies and…

2022

updates-from-data-resources

9 September 2022 Monochrome decorative image with the word "statement" on grey background.

In tribute to Her Majesty Queen Elizabeth II

The United Kingdom is a founding member of EMBL, and has hosted EMBL’s European Bioinformatics Institute since 1994. We recognise that the passing of Her Majesty Queen Elizabeth II will have a profound impact on the country, and we extend our deepest sympathies to the Royal Family at this…

2022

announcements

9 August 2022 InterPro logo

New releases: InterPro 90.0 and InterProScan 5.57-90.0

InterPro version 90.0 and InterProScan 5.57-90.0 are now available. InterPro now features hundreds of new methods integrated from partner databases, and InterProScan draws on over 40000 entries

2022

updates-from-data-resources

12 July 2022 Ensembl logo in white circle on blue and green background

Ensembl 107 has been released

The Ensembl 107 release contains updates to regulatory annotations and updated vertebrate and metazoan species.

2022

updates-from-data-resources

7 July 2022 Single Cell Expression Atlas logo on green background

Interactive data visualisation for Single Cell Expression Atlas

Using powerful data visualisation and interactive search results across datasets allows users to explore hypotheses across a range of metadata, and discover new insights backed by expertly curated, consistently reanalysed single cell sequencing data. Searching for metadata, allows a powerful…

2022

updates-from-data-resources

9 June 2022 ArrayExpress logo; a red A and green E in a circle with the word ArrayExpress

ArrayExpress interface to close

On 30 September 2022 the ArrayExpress interface will close. All datasets have now been migrated from ArrayExpress into the BioStudies ArrayExpress collection

2022

updates-from-data-resources

21 April 2022 Portrait of Guy Cochrane, Team Leader at EMBL-EBI's European Nucleotide Archive. Credit: Jeff Dowling/EMBL-EBI.

Guy Cochrane appointed Executive Director of Global Biodata Coalition

The GBC is a coalition of life sciences and biomedical research funders that aims to optimise the funding and management of biodata resources worldwide. The organisation has two priority aims: to better coordinate and share approaches for efficient management and growth of the biodata…

2022

announcements

28 January 2022 Collage with protein structure in the background and text in the foreground. Text says "17 organisms on the WHO’s neglected tropical diseases list and 10 organisms on its antimicrobial resistance list"

AlphaFold update – neglected tropical diseases

Latest AlphaFold database update adds 27 new organisms and almost 200,000 new protein structure predictions relevant to neglected tropical diseases and antimicrobial resistance

2022

updates-from-data-resources

21 May 2021 Image of a mosquito on a clear surface

EMBL scientists support malaria research

EMBL scientists support research on malaria by providing freely available data resources and using innovative experimental approaches. Our Course and Conference Office facilitates the exchange of knowledge in the field by hosting the annual BioMalPar conference.

SCIENCE & TECHNOLOGY

2021

sciencescience-technology

28 April 2021 Artistic representation of brain and DNA

Uniting strengths to expand research

The European Molecular Biology Laboratory and the Italian Institute of Technology have signed an agreement to expand the scope of their collaboration to include areas of mutual interest and in the context of EMBL’s 2022-2026 Programme “Molecules to Ecosystems”.

CONNECTIONSLAB MATTERS

2021

connectionslab-matters

16 February 2021 Microscopy images of coronavirus-infected cells in blue and red, arranged on a clockface. Illustrations of virus particles.

Finding coronavirus’s helper proteins

A team of EMBL scientists and colleagues have analysed how the novel coronavirus affects proteins in human cells. They identified several human proteins as potential drug targets to prevent viral replication.

SCIENCE & TECHNOLOGY

2021

sciencescience-technology

15 October 2020 Four blue circular objects are surrounded with green structures, and the central blue circle with pink structures. The blue circles are human cell nuclei, and pink and green structures are proteins.

Repurposing drugs for a pan-coronavirus treatment

Scientists from the Beltrao Group at EMBL-EBI and collaborators identified drug targets common to SARS-CoV-2, SARS-CoV-1, and MERS-CoV, three pathogenic coronaviruses. They also found potential drugs that could be repurposed as COVID-19 treatments, and against emerging coronavirus strains in the…

SCIENCE & TECHNOLOGY

2020

sciencescience-technology

20 August 2020 A portrait photo of Geetika Malhotra, new Head of Web Development at EMBL-EBI.

Welcome: Geetika Malhotra

The Web Development team provides a central source of web design and development for EMBL’s European Bioinformatics Institute (EMBL-EBI). In July, Geetika Malhotra joined the team as their new Head.

LAB MATTERSPEOPLE & PERSPECTIVES

2020

lab-matterspeople-perspectives

3 August 2020 A woman with glasses holds a book. The book cover says "Gene naming rules". Thought bubbles float around her head and display gene symbols like BRCA1.

Bagpipe and Pokemon, or how not to name a human gene

The human genome harbours about 19 000 protein-coding genes, many of which still have no known function. As scientists unveil the secrets of our DNA, they come across novel genes that they need to refer to using a unique name. The Human Genome Organisation’s Gene Nomenclature Committee (HGNC) at…

SCIENCE & TECHNOLOGY

2020

sciencescience-technology

20 July 2020 A magnifying glass hovers over the human gut, revealing its biodiversity.

Unparalleled inventory of the human gut ecosystem

An international team of scientists has collated all known bacterial genomes from the human gut microbiome into a single large database. Their work will allow researchers to explore the links between bacterial genes and proteins, and their effects on human health.

SCIENCE & TECHNOLOGY

2020

sciencescience-technology

13 July 2020 scientists teaching about the microbiome

Applications for virtual learning lab open

The European Learning Laboratory for the Life Sciences (ELLS), EMBL’s education facility, invites secondary school science teachers to participate in a virtual training course this autumn entitled ‘Introducing your microbiome’.

LAB MATTERS

2020

lab-matters

8 July 2020 Alexander Aulehla on the left and Paul Flicek on the Right

Two EMBL scientists become EMBO Members

This year, EMBO elected 63 new members, including Alexander Aulehla, Group Leader and Senior Scientist at EMBL Heidelberg, and Paul Flicek, Associate Director of EMBL-EBI Services, Senior Scientist, Group and Team Leader at EMBL-EBI.

EMBL ANNOUNCEMENTSLAB MATTERS

2020

embl-announcementslab-matters

3 March 2020

Snowy day

Colder winter weather has finally arrived EMBL-EBI. It’s the first time the site has seen snow this winter.

LAB MATTERS

2020

lab-matterspicture-of-the-week

5 February 2020

Cancer mutations occur decades before diagnosis

Researchers at EMBL’s European Bioinformatics Institute (EMBL-EBI) and the Francis Crick Institute have analysed the whole genomes of over 2600 tumours from 38 different cancer types to determine the chronology of genomic changes during cancer development.

SCIENCE & TECHNOLOGY

2020

sciencescience-technology

5 February 2020

Chromothripsis in human cancer

Researchers at Harvard Medical School and EMBL-EBI have carried out the largest analysis across cancer types of the newly discovered mutational phenomenon chromothripsis.

SCIENCE & TECHNOLOGY

2020

sciencescience-technology

31 January 2020

Statement on Brexit

Today marks the next chapter in the UK’s relationship with Europe. While we wait to see what a future relationship brings, researchers will continue to work across borders to tackle society’s most pressing problems, such as climate change, ageing, and disease.

EMBL ANNOUNCEMENTSLAB MATTERS

2020

embl-announcementslab-matters

9 October 2019

Science for everyone

During the Nacht der Forschung 2019, everyone was able to become a scientist for a day at EMBL

LAB MATTERS

2019

eventslab-matters

27 August 2019

Where science meets art

The most basic building blocks of life are the biological molecules in our cells. While these molecules are too small to see with most microscopes, they have incredibly complex and beautiful structures. Therefore, the Protein Data Bank in Europe (PDBe), The Art Society CANTAB and The Art Society…

LAB MATTERS

2019

lab-matterspicture-of-the-week

25 June 2019

A colourful day at EMBL-EBI

EMBL is an intergovernmental organisation, currently supported by 26 member states, one prospect and two associate member states. There are more than 1700 people working at EMBL, who come from more than 80 countries, creating a multicultural environment. EMBL also operates from six sites in Europe:…

LAB MATTERS

2019

lab-matterspicture-of-the-week

28 May 2019

A fiery end to a productive day

EMBL’s sites provide spectacular views, such as this fiery sunset at the Wellcome Genome Campus in Hinxton. The campus, in the heart of the Cambridgeshire countryside, is home to several institutes and organisations working on genomics and computational biology. Among them is EMBL’s European…

LAB MATTERS

2019

lab-matterspicture-of-the-week

4 August 2016 45 pupils from Saarland, Germany visit EMBL-EBI

Just try!

German students visit EMBL-EBI on a tour to explore a new culture and different career paths

LAB MATTERS

2016

lab-matters

24 November 2015 No coincidence: organisers of this year’s PhD Symposium gather at EMBL Heidelberg 22–24 October for Just by Chance? Randomness and variability shaping biology. PHOTO: EMBL Photolab/Marietta Shupp

EMBL in pictures

A snapshot of the many activities and events that took place in the world of EMBL this Autumn.

LAB MATTERS

2015

eventslab-matters

22 June 2015 More than 130 visitors bustled into the Cambridge Union Society for the event on 3 June.

Pandemic! A public event

EMBL-EBI organises an evening of talks and discussion about the global spread of infectious disease.

2015

events

27 May 2015

ELIXIR accelerates

ELIXIR receives major Horizon 2020 funding to ‘EXCELERATE' activities over the next four years.

LAB MATTERS

2015

lab-matters

20 January 2015 COMPARE project

Beyond COMPARE

New project aims to speed up detection and response to disease outbreaks using genome technology.

LAB MATTERS

2015

lab-matters

21 November 2014

Big biology, big success

EMBL-EBI supports Big Biology Day, inspiring 500 youngsters with jelly-baby DNA and golf-tee viruses.

2014

events

21 October 2014 Map of EMBL-EBI users

Job dispatched

How does EMBL-EBI run millions of jobs for its users while moving its two large data centres?

LAB MATTERS

2014

lab-matters

8 October 2014

EU Codefest

Pooling programming and problem-solving expertise in bioinformatics at EMBL-EBI.

2014

events

31 July 2014 Global Alliance for Genomics and Health

New genomics API

New genomics API allows researchers to share anonymised genetic data seamlessly across platforms.

LAB MATTERS

2014

lab-matters

1 July 2014 Illustration: Aad Goudappel, Rotterdam

Five for the future

Scientists from EMBL's five sites reflect on the opportunities and challenges that might lie ahead

LAB MATTERS

2014

lab-matters

1 July 2014 Question mark

Q&A

Which scientific breakthroughs would EMBL scientists most like to see in the next 40 years?

LAB MATTERS

2014

lab-matters

25 June 2014

On target

A new EMBL-EBI biomedical initiative works to determine the best target proteins for new drugs.

CONNECTIONSLAB MATTERS

2014

connectionslab-matters

12 January 2012

Evolution by ‘copy-paste’

A team of geneticists and computational biologists at the European Molecular Biology Laboratory’s European Bioinformatics Institute (EMBL-EBI), the Wellcome Trust Sanger Institute and Cancer Research UK reveal how an ancient mechanism is involved in gene control and continues to drive genome…

SCIENCE & TECHNOLOGY

2012

sciencescience-technology

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