Sandy Rogers

Scientific software developer. Marathoner.

[MGnify @MGnifyDB]

@MGnifyDB is excited to be offering a day-long hands-on workshop in Bangkok, Thailand on August 11th.
This a unique opportunity to meet and train with the MGnify team outside the UK and learn about the MGnify platform and metagenomic data analysis.

[Sandy Rogers @sndyrgrs]

@BioMickWatson @MGnifyDB @HoloFood_EU @emblebi :)

The Chicken Gut v1.0 catalogue (on @MGnifyDB) is a superset of the HoloFood Chicken Gut (on the @HoloFood_EU portal). The MGnify catalogue also includes other publicly available MAGs – (the catalogue README at https://t.co/hLZaZudnns lists all included project accessions)

[Sandy Rogers @sndyrgrs]

Very happy to see the public release of our @HoloFood_EU dataset, with richly annotated and linked data now usable by future projects. The portal connects multiomics data in various @emblebi repositories, with a data model derived from the overall experimental design.

[EMBL @embl]

On #WorldMicrobiomeDay, we celebrate the launch of the HoloFood Data Portal from @emblebi containing microbiome and molecular data from chicken and salmon gut microbiome. A great resource for developing new, sustainable animal feed!

https://t.co/rz6IaO3sGN

#Microbiomes4Life

[Sandy Rogers @sndyrgrs]

@BioMickWatson @MGnifyDB @HoloFood_EU @emblebi Manuscript ✨coming soon✨ – but the portal is open for exploration at https://t.co/YNT31oum3d . Key things for me: 1. host/sample hierarchies are quite project specific to model – so a bespoke portal helps discovery. 2. as does designing a solid metadata schema for BioSamples

[EMBL-EBI @emblebi]

The project generated the world’s most comprehensive hologenomic dataset for chicken and salmon – now open to all via the Holo Food Data Portal courtesy of our @MGnifyDB, Biosamples, @ENASequence, and @MetaboLights teams.

https://t.co/8z2HmmmV4c

[EMBL-EBI @emblebi]

🐔🐟Chicken & salmon are two of the biggest protein sources worldwide, but their production is resource intensive.

@HoloFood_EU leveraged #hologenomics data to explore more sustainable animal feed alternatives.

https://t.co/KnWdIFnZut

#Microbiomes4Life #Food2030

[ELIXIR Europe @ELIXIREurope]

🎉Thank you all for joining #BioHackEU22! A special thanks to our online and overseas participants 🙌 staying up late hacking through different projects with us.
👏It has been a great week, we had BiohackaTONs of fun!! Look forward to seeing you next year for #BioHackEU23!🥳

[MGnify @MGnifyDB]

Our second #BioHackEU22 development is thanks to @sndyrgrs - a Jupyter Lab extension for our notebooks servers that keeps MGnify-specific help and links close by.

[Rob Finn @robdfinn]

Amazing to see a structural model for nearly every @MGnifyDB protein. This dataset will provide new insights to the functional diversity encoded by microbes - congratulations @alexrives and @MetaAI team.

[MGnify @MGnifyDB]

A huge achievement for #metagenomics today as @MetaAI releases their ESM Metagenomic Atlas comprising >600M protein structures from the @MGnifyDB protein database.

[Sandy Rogers @sndyrgrs]

It was comforting to be travelling with a poster tube again :)

[HoloFood @HoloFood_EU]

Thank you so all virtual and in person attendees to the first ever Applied HoloGenomics Conference in beautiful Bilbao!!!
@AppliedHoloConf

[HoloFood @HoloFood_EU]

🐓Next up we've had a sneak peak of the @HoloFood_EU data portal by @sndyrgrs & a short practical on considerations for data organisation and accessibility!

[Alexandre Almeida @alexmsalmeida]

Looking for a PhD in microbial genomics to investigate the human #microbiome's role in host health? I am recruiting PhD students to start throughout 2023 @Cambridge_Uni with several projects available: https://t.co/f2kNgkHmKv. Please RT and share

[MGnify @MGnifyDB]

This year #WorldMicrobiomeDay is celebrating the microbial world, and we want to share our key projects and releases over the last year by celebrating some of the incredible team behind @MGnifyDB and the @robdfinn research group contributing to exploration of microbiomes.

[EMBL-EBI Training @EBItraining]

Today is #WorldMicrobiomeDay celebrating #microbes and the way they help us in our daily lives.

Join our #metagenomics #bioinformatics course to learn about #Microbiomes, and the tools, processes and analytical approaches used in the field.

🔗https://t.co/fdZp0qQpML

[Sandy Rogers @sndyrgrs]

Working on this Jupyter project is fun in a technical sense - but I really believe it will make data and tools more accessible

[MGnify @MGnifyDB]

MGnify's Notebook Server is an @EMBL_BioIT-hosted @ProjectJupyter Lab environment, to help you explore MGnify's #microbiome derived datasets.
Jump from a MGnify Study on the website into an R or Python session ready to begin your own analysis on it.
https://t.co/TKCKokE9U3

[Sandy Rogers @sndyrgrs]

@aineclareob @UKMeteorNetwork Of course - done.

[Jeff Dean @JeffDean]

Delighted to see @GoogleAI collaborate w/@MGnifyDB to use ML to provide 1.5 billion protein function predictions (!). While protein structure prediction is useful, accurate protein function predictions can truly unlock all kinds of new possibilities!

[Google AI @GoogleAI]

Congrats to the team at @MGnifyDB on their 2.4B sequence protein database release! We're glad to have supported this effort with an #ML generated collection of 1.5B protein function predictions. Read more about this project, including prior work, below: https://t.co/5BtFo1iXAo