Sign in

Daniel Mende

@pangenomics.bsky.social
193 followers 203 following 17 posts

PI at Bio2Q - Keio University in Tokyo bio2q.keio.ac.jp Microbiome, Computational Biology, Evolution

PostsRepliesMedia
Daniel Mende @pangenomics.bsky.social · 14/08/2026
Good points but also reads like it came straight out of Claude
020
Daniel Mende @pangenomics.bsky.social · 02/06/2026
In Seoul for IHMC this week, let's connect
010
Daniel Mende @pangenomics.bsky.social · 17/04/2026
In a way that's true, when data is not available we still can't do much as a community (and sadly some of those are really high profile). The case you blogged about was even worse as the data was claimed to be accessible but wasn't. I meant that generally data is available and reusable
010
Daniel Mende @pangenomics.bsky.social · 17/04/2026
True, it is depressing but overall I still think there is a good amount of progress
110
Reposted by Daniel Mende
Keio University Bio2Q @keiobio2q.bsky.social · 15/04/2026
1)Call for Principal Investigator Positions at Quantum Computing (Q) core bio2q.keio.ac.jp/wp-content/u... 2)Call for Bio2Q Postdoctoral Fellows bio2q.keio.ac.jp/wp-content/u... 3)Call for Bio2Q Q Core Postdoctoral Internships bio2q.keio.ac.jp/wp-content/u...
045
Daniel Mende @pangenomics.bsky.social · 20/01/2026
Congrats Milot!
010
Reposted by Daniel Mende
Itai Yanai @itaiyanai.bsky.social · 18/01/2026
20 | Peer Bork and the scientific candy shop Apple: podcasts.apple.com/us/podcast/n... Spotify: open.spotify.com/episode/17ux...
podcasts.apple.com
20 | Peer Bork and the scientific candy shop
Podcast Episode · Night Science · 09/02/2022 · 29m
094
Reposted by Daniel Mende
James McInerney @jomcinerney.bsky.social · 14/10/2025
Last day to apply to come work with me on developing AI approaches to understanding pangenome evolution www.jobs.ac.uk/job/DOU184/p...
jobs.ac.uk
Postdoctoral Research Associate - Grade 7 at University of Liverpool
An opportunity for an academic position as a Postdoctoral Research Associate - Grade 7 is available, as advertised on jobs.ac.uk. Apply now and explore other academic job openings.
034
Daniel Mende @pangenomics.bsky.social · 16/09/2025
Looking forward to a few great days of science at the 2025 EMBO/EMBL Human Microbiome conference #EESMicrobiome
080
Reposted by Daniel Mende
Michael Kuhn @biocs.bsky.social · 15/08/2025
We're very happy to release our new database Metalog metalog.embl.de ! It offers manually curated and harmonised contextual data for 110k metagenomics samples across the globe, incl. precomputed taxonomic profiles, for interactive browsing and for download 🧵 1/7 #microsky
metalog.embl.de
Metalog
Metalog is a repository of manually annotated metadata (or contextual data) for metagenomic sequencing data from across the globe.
37345
Daniel Mende @pangenomics.bsky.social · 19/07/2025
Spending some time in Germany at my parents' place after moving to Bio2Q / Keio University in Tokyo at the beginning of the year. Feels good to contemplate and find that's it was an awesome move. We have a few open positions at Postdoc level with lots of freedom and resources. DM if interested
0103
Daniel Mende @pangenomics.bsky.social · 19/07/2025
Looking forward to reading this! Sounds awesome. Have been thinking about trait-based approaches myself, so hoping this will be something I can build upon
000
Daniel Mende @pangenomics.bsky.social · 16/07/2025
It would make my figure_nitpicking.txt as well which usually is like a whole A4 page for an average manuscript in the end
010
Reposted by Daniel Mende
Jaime Huerta-Cepas @jhcepas.bsky.social · 25/06/2025
The rare microbial biosphere harbors many chemosensitive microorganisms undetectable by regular shotgun metagenomics. We can now explore them using our custom target-capture sequencing approach. Impressive work by Claudia Sanchis, part of her PhD thesis! www.biorxiv.org/content/10.1...
1189
Daniel Mende @pangenomics.bsky.social · 27/06/2025
Thanks for sharing! Looks super interesting. I guess the strain sharing answer is somewhere between different potential sources of strains, different ecology esp for the newborns and a quite conservative cutoff. Unrelated, but I hope you are well, Tami!
010
Reposted by Daniel Mende
Jim Shaw @jimshaw.bsky.social · 28/05/2025
Announcing myloasm, a new long-read (ONT R10/PacBio) metagenome assembler that I've been working on during my postdoc in the Heng Li lab (@lh3lh3.bsky.social). myloasm-docs.github.io
myloasm-docs.github.io
myloasm - metagenomic assembly with (noisy) long reads
513378
Reposted by Daniel Mende
Svetlana Ugarcina Perovic @svetlanaup.bsky.social · 14/02/2025
New #MicrobiomeDigest is OUT microbiomedigest.com/2025/02/13/1... - infant gut /‪ @pangenomics.bsky.social‬ - gut-brain / @johannajoyce.bsky.social - PHLAME / @quevan.bsky.social - invitation for the next week @microbiomevif.bsky.social - Outreachy open call & more. Happy Friday!
microbiomedigest.com
February 14, 2025
Check out my list of selected latest microbiome studies and see you next week at #MVIF! Gut microbiome Gut microbiota-derived hexa-acylated lipopolysaccharides enhance cancer immunotherapy response…
0126
Daniel Mende @pangenomics.bsky.social · 12/02/2025
Though it's already a weeks ago, the newest paper from the (old) lab came out. We explored the drivers of Bifidobacterium longum subspecies dynamics in the infant gut in detail. Still fascinated by the interplay of ecology, metabolic capacity and diet peerj.com/articles/186...
peerj.com
Priority effects, nutrition and milk glycan-metabolic potential drive Bifidobacterium longum subspecies dynamics in the infant gut microbiome
Background The initial colonization of the infant gut is a complex process that defines the foundation for a healthy microbiome development. Bifidobacterium longum is one of the first colonizers of ne...
181
Daniel Mende @pangenomics.bsky.social · 30/01/2025
In the beginning of the year, I moved to the Bio2Q Institute at Keio University in Tokyo (bio2q.keio.ac.jp). Really happy to be here and it's an amazing place to do microbiome research. We are looking for postdocs, so if you're interested please DM or email
bio2q.keio.ac.jp
Bio2Q : Keio University Human Biology-Microbiome-Quantum Research Center
Bio2Q will develop novel research techniques to understand the interactions between multiple organs and the microbiome, and develop methods to apply quantum computing to human biology.
2139
Daniel Mende @pangenomics.bsky.social · 03/12/2024
Stay safe guys!
030
Daniel Mende @pangenomics.bsky.social · 21/11/2024
Another year, another attempt to fix my affiliation for that clarivate list everyone is posting about. Let's see if my postdoc institution ask for a quick interview with me again
010
Daniel Mende @pangenomics.bsky.social · 19/11/2023
Today in how to destroy a social Network: Partner with a despised entity. What will be the next episode in this ongoing series?
110
Daniel Mende @pangenomics.bsky.social · 20/09/2023
I'm at #EESMicrobiome this week, will try to post about some highlights
030
Daniel Mende @pangenomics.bsky.social · 20/09/2023
New site, and a new attempt at being more active online!
131