Reposted by Shoichi Sakaguchi
RNA Virus Journal Club – Upcoming Talk - this thursday (Nov 6th !)
With @rdrpsummit.bsky.social - excited to announce talk and discussion with Dr Sanguu Kim about HF nanopore sequencing strategy for virology :)
calendar.app.google/oyRVP6v5Tvjg...
CET: 14:00–15:00,
Format: 30 min + 30 min
With @rdrpsummit.bsky.social - excited to announce talk and discussion with Dr Sanguu Kim about HF nanopore sequencing strategy for virology :)
calendar.app.google/oyRVP6v5Tvjg...
CET: 14:00–15:00,
Format: 30 min + 30 min
CLAE: A High‐Fidelity Nanopore Sequencing Strategy for Read‐Level Viral Variant Detection and Environmental RNA Virus Discovery
High-fidelity Nanopore sequencing offers a cost-effective, portable path to uncovering viral dark matter in complex environments—but suffers from severe read-length bias, low throughput, and limited ...
doi.org
November 4, 2025 at 3:10 PM
RNA Virus Journal Club – Upcoming Talk - this thursday (Nov 6th !)
With @rdrpsummit.bsky.social - excited to announce talk and discussion with Dr Sanguu Kim about HF nanopore sequencing strategy for virology :)
calendar.app.google/oyRVP6v5Tvjg...
CET: 14:00–15:00,
Format: 30 min + 30 min
With @rdrpsummit.bsky.social - excited to announce talk and discussion with Dr Sanguu Kim about HF nanopore sequencing strategy for virology :)
calendar.app.google/oyRVP6v5Tvjg...
CET: 14:00–15:00,
Format: 30 min + 30 min
Reported the RdRp Summit 2025 on Experimental Medicine magazine (in Japanese).
Seeing my name on a book sold on Amazon is an incredible feeling! ✨
amzn.asia/d/00tKPNE
Seeing my name on a book sold on Amazon is an incredible feeling! ✨
amzn.asia/d/00tKPNE
Amazon.co.jp: 実験医学 2025年8月 Vol.43 No.13 特集1：細胞外小胞学の次の10年 世界で進展する最先端のエクソソーム・EV研究と臨床応用／特集2：RNAウイルスハンティング2.0 なぜいま新発見が相次ぐのか？ : 横井 暁, 中川 草, 坂口 翔一: 本
Amazon.co.jp: 実験医学 2025年8月 Vol.43 No.13 特集1：細胞外小胞学の次の10年 世界で進展する最先端のエクソソーム・EV研究と臨床応用／特集2：RNAウイルスハンティング2.0 なぜいま新発見が相次ぐのか？ : 横井 暁, 中川 草, 坂口 翔一: 本
amzn.asia
July 16, 2025 at 5:23 AM
Reported the RdRp Summit 2025 on Experimental Medicine magazine (in Japanese).
Seeing my name on a book sold on Amazon is an incredible feeling! ✨
amzn.asia/d/00tKPNE
Seeing my name on a book sold on Amazon is an incredible feeling! ✨
amzn.asia/d/00tKPNE
Reposted by Shoichi Sakaguchi
New pre-print out \o/ All about CRISPR, metagenomes, and what you learn when you collect (a lot of) spacers from natural communities, with @apcamargo.bsky.social @urineri.bsky.social @lhug.bsky.social but also Uri Gophna, Nikhil George (not on Bsky I think) & others at JGI doi.org/10.1101/2025...
doi.org
June 13, 2025 at 8:22 PM
New pre-print out \o/ All about CRISPR, metagenomes, and what you learn when you collect (a lot of) spacers from natural communities, with @apcamargo.bsky.social @urineri.bsky.social @lhug.bsky.social but also Uri Gophna, Nikhil George (not on Bsky I think) & others at JGI doi.org/10.1101/2025...
Reposted by Shoichi Sakaguchi
I'm thinking of organising a meeting on endogenous viral elements (RNA, DNA and retroviral) - if you'd potentially be interested, please fill out the form here - forms.gle/wrCiWMw4yXZe... - so I can gauge interest. Please RT or share with anyone maybe interested! 🧪🧬🖥️🦠 #virology #bioinformatics
EVE Meeting Expression of Interest
forms.gle
May 27, 2025 at 11:53 AM
I'm thinking of organising a meeting on endogenous viral elements (RNA, DNA and retroviral) - if you'd potentially be interested, please fill out the form here - forms.gle/wrCiWMw4yXZe... - so I can gauge interest. Please RT or share with anyone maybe interested! 🧪🧬🖥️🦠 #virology #bioinformatics
Tried PyMOL for the first time today, and thanks to ChatGPT, I could do exactly what I wanted. While there’s a trend in bioinformatics toward developing GUIs to make tools more accessible, I wonder if, in the era of AI, command-line tools might actually get you to the result faster 🤔
May 27, 2025 at 10:40 AM
Tried PyMOL for the first time today, and thanks to ChatGPT, I could do exactly what I wanted. While there’s a trend in bioinformatics toward developing GUIs to make tools more accessible, I wonder if, in the era of AI, command-line tools might actually get you to the result faster 🤔
Reposted by Shoichi Sakaguchi
Thanks again for the organization and invitation, and also thanks for the food, for the help and everything!! Definitely amazing to be in Lisbon to share our work!!!
Unravelling the viral dark matter! Our first keynote speaker Xin Hou works with transformer-based AI models for structural prediction, helping detect highly divergent RNA viruses! @xinhou.bsky.social
May 12, 2025 at 11:04 AM
Thanks again for the organization and invitation, and also thanks for the food, for the help and everything!! Definitely amazing to be in Lisbon to share our work!!!
Reposted by Shoichi Sakaguchi
I cannot say anything what F stands for.
I'm thrilled to present BFVD at RdRp summit, finally found right place. Thank you for organizers for inviting to this awesome meeting and city.
I would appreciate any feedback and feel free to discuss in-person or cia message. Explore BFVD🧭
I'm thrilled to present BFVD at RdRp summit, finally found right place. Thank you for organizers for inviting to this awesome meeting and city.
I would appreciate any feedback and feel free to discuss in-person or cia message. Explore BFVD🧭
Our next keynote speaker, Rachel Kim, introduces us to BVFD. Now we know what the "F" stands for :)
Truly FANTASTIC work!
#RdRpSummit2025
Truly FANTASTIC work!
#RdRpSummit2025
May 12, 2025 at 12:15 PM
I cannot say anything what F stands for.
I'm thrilled to present BFVD at RdRp summit, finally found right place. Thank you for organizers for inviting to this awesome meeting and city.
I would appreciate any feedback and feel free to discuss in-person or cia message. Explore BFVD🧭
I'm thrilled to present BFVD at RdRp summit, finally found right place. Thank you for organizers for inviting to this awesome meeting and city.
I would appreciate any feedback and feel free to discuss in-person or cia message. Explore BFVD🧭
Reposted by Shoichi Sakaguchi
Introducing our invited speaker for the session on 'Viral Dark Matter' we have Rachel Seongeun Kim from the Seoul National University!!!!
The registrations for on-site & remote participation are still open! More info: RdRp.io
#RdRpSummit2025
The registrations for on-site & remote participation are still open! More info: RdRp.io
#RdRpSummit2025
May 2, 2025 at 2:54 PM
Introducing our invited speaker for the session on 'Viral Dark Matter' we have Rachel Seongeun Kim from the Seoul National University!!!!
The registrations for on-site & remote participation are still open! More info: RdRp.io
#RdRpSummit2025
The registrations for on-site & remote participation are still open! More info: RdRp.io
#RdRpSummit2025
Reposted by Shoichi Sakaguchi
The previous RdRp summit manifested in the consensus statement. What the second @rdrpsummit.bsky.social brings us?:)
We just published a consensus statement (with 47 institutes) on advancing #RdRp-based RNA virus discovery! We sum up the challenges identified at the 1st #RdRpSummit and propose solutions to ensure greater interoperability. Here’s a summary-
t.ly/Uwqge
t.ly/Uwqge
Consensus statement from the first RdRp Summit: advancing RNA virus discovery at scale across communities
Improved RNA virus understanding is critical to studying animal and plant health, and environmental processes. However, the continuous and rapid RNA virus evolution makes their identification and char...
t.ly
May 2, 2025 at 6:28 PM
The previous RdRp summit manifested in the consensus statement. What the second @rdrpsummit.bsky.social brings us?:)
I’m in charge of IT for #RdRpSummit2025 and will coordinate the YouTube Live streaming. I’m preparing engaging features like dynamic camera work, seamless scene transitions and incorporating remote participant’s comments into the Q&A sessions!
Ummm... did we not mention that the #RdRpSummit2025 is a HYBRID event?
We will consider remote presentation and you can attend the summit online!
The abstract submission deadline is on the 22nd of April!
Visit RdRp.io for more information!
We will consider remote presentation and you can attend the summit online!
The abstract submission deadline is on the 22nd of April!
Visit RdRp.io for more information!
EXCITING NEWS🥳! @isme-microbes.bsky.social is now sponsoring 3 travels grants worth EUR 500 each to support early career researchers presenting at the #RdRpSummit2025.
Abstract submissions & registrations are still open!✍️
More info at RdRp.io
Abstract submissions & registrations are still open!✍️
More info at RdRp.io
April 17, 2025 at 2:06 PM
I’m in charge of IT for #RdRpSummit2025 and will coordinate the YouTube Live streaming. I’m preparing engaging features like dynamic camera work, seamless scene transitions and incorporating remote participant’s comments into the Q&A sessions!
Reposted by Shoichi Sakaguchi
The abstract submission & registration for #RdRpSummit2025 is NOW OPEN!!! 🎉🙌
Do you work on RNA virus discovery using RdRps? Are you joining the #ViBioM2025 in Portugal?
Consider submitting your research in one of our sessions!
More info: RdRp.io
Do you work on RNA virus discovery using RdRps? Are you joining the #ViBioM2025 in Portugal?
Consider submitting your research in one of our sessions!
More info: RdRp.io
February 19, 2025 at 9:10 PM
The abstract submission & registration for #RdRpSummit2025 is NOW OPEN!!! 🎉🙌
Do you work on RNA virus discovery using RdRps? Are you joining the #ViBioM2025 in Portugal?
Consider submitting your research in one of our sessions!
More info: RdRp.io
Do you work on RNA virus discovery using RdRps? Are you joining the #ViBioM2025 in Portugal?
Consider submitting your research in one of our sessions!
More info: RdRp.io
Reposted by Shoichi Sakaguchi
We're looking for suggestions on how to update and adapt the Minimum Information about an Uncultured Viral Genome (MIUVIG) reporting standard. What works? What needs updating? Check out the survey forms.gle/DPHvMFe8Gsdj... 🧵
MIUViG Update Survey
Since the development of the Minimum Information about an Uncultured Viral Genome (MIUViG) standard (Roux et al. 2019), there has been an explosion in the number of genomic data generated on unculture...
forms.gle
February 11, 2025 at 5:47 AM
We're looking for suggestions on how to update and adapt the Minimum Information about an Uncultured Viral Genome (MIUVIG) reporting standard. What works? What needs updating? Check out the survey forms.gle/DPHvMFe8Gsdj... 🧵
Reposted by Shoichi Sakaguchi
SAVE THE DATES & plan your trip to Lisbon (for #RdRpSummit2025 & #EVBC #ViBioM) this summer accordingly! Information on registration and abstract submissions coming very very soon! 🚄✈️✨🇵🇹🌊🌉
RdRp Summit 2025 will take place on May 11-12, 2025, in Lisbon, Portugal! 🏛️✨
More details coming soon, but for now, mark your calendars!
Currently working on the official logo 🎨✍️
@rdrpsummit.bsky.social #RdRpSummit2025 #Procreate
More details coming soon, but for now, mark your calendars!
Currently working on the official logo 🎨✍️
@rdrpsummit.bsky.social #RdRpSummit2025 #Procreate
February 7, 2025 at 4:43 AM
SAVE THE DATES & plan your trip to Lisbon (for #RdRpSummit2025 & #EVBC #ViBioM) this summer accordingly! Information on registration and abstract submissions coming very very soon! 🚄✈️✨🇵🇹🌊🌉
RdRp Summit 2025 will take place on May 11-12, 2025, in Lisbon, Portugal! 🏛️✨
More details coming soon, but for now, mark your calendars!
Currently working on the official logo 🎨✍️
@rdrpsummit.bsky.social #RdRpSummit2025 #Procreate
More details coming soon, but for now, mark your calendars!
Currently working on the official logo 🎨✍️
@rdrpsummit.bsky.social #RdRpSummit2025 #Procreate
February 7, 2025 at 4:23 AM
RdRp Summit 2025 will take place on May 11-12, 2025, in Lisbon, Portugal! 🏛️✨
More details coming soon, but for now, mark your calendars!
Currently working on the official logo 🎨✍️
@rdrpsummit.bsky.social #RdRpSummit2025 #Procreate
More details coming soon, but for now, mark your calendars!
Currently working on the official logo 🎨✍️
@rdrpsummit.bsky.social #RdRpSummit2025 #Procreate
Structure-guided engineering of a mutation-tolerant inhibitor peptide against variable SARS-CoV-2 spikes | PNAS www.pnas.org/doi/10.1073/...
Structure-guided engineering of a mutation-tolerant inhibitor peptide against variable SARS-CoV-2 spikes | PNAS
Pathogen mutations present an inevitable and challenging problem for therapeutics
and the development of mutation-tolerant anti-infective drugs to ...
www.pnas.org
January 24, 2025 at 9:28 PM
Structure-guided engineering of a mutation-tolerant inhibitor peptide against variable SARS-CoV-2 spikes | PNAS www.pnas.org/doi/10.1073/...
Reposted by Shoichi Sakaguchi
I made a quick Starter Pack for scientists working on virus discovery - please reply if you’d like me to add you to the pack (or remove you) or to recommend anyone! #scisky go.bsky.app/HK1wxRb
November 16, 2024 at 4:44 PM
I made a quick Starter Pack for scientists working on virus discovery - please reply if you’d like me to add you to the pack (or remove you) or to recommend anyone! #scisky go.bsky.app/HK1wxRb
Reposted by Shoichi Sakaguchi
We just published a consensus statement (with 47 institutes) on advancing #RdRp-based RNA virus discovery! We sum up the challenges identified at the 1st #RdRpSummit and propose solutions to ensure greater interoperability. Here’s a summary-
t.ly/Uwqge
t.ly/Uwqge
Consensus statement from the first RdRp Summit: advancing RNA virus discovery at scale across communities
Improved RNA virus understanding is critical to studying animal and plant health, and environmental processes. However, the continuous and rapid RNA virus evolution makes their identification and char...
t.ly
April 30, 2024 at 9:31 AM
We just published a consensus statement (with 47 institutes) on advancing #RdRp-based RNA virus discovery! We sum up the challenges identified at the 1st #RdRpSummit and propose solutions to ensure greater interoperability. Here’s a summary-
t.ly/Uwqge
t.ly/Uwqge
NeoRdRp2, our HMM profile for detecting RNA viruses, has been updated on GitHub! 🦠🔬 A paper detailing the improvements will be published shortly. Check out the latest version here: github.com/shoichisakag... #RNAviruses #bioinformatics
GitHub - shoichisakaguchi/NeoRdRp
Contribute to shoichisakaguchi/NeoRdRp development by creating an account on GitHub.
github.com
April 8, 2024 at 9:21 AM
NeoRdRp2, our HMM profile for detecting RNA viruses, has been updated on GitHub! 🦠🔬 A paper detailing the improvements will be published shortly. Check out the latest version here: github.com/shoichisakag... #RNAviruses #bioinformatics