Timo Saratto
@timomoilanen.bsky.social
Bioinformatician & software engineer. Formerly CTO of Solu Genomics
Reposted by Timo Saratto
Clinical significance and antifungal susceptibility profile of 103 clinical isolates of Scedosporium species complex and Lomentospora prolificans obtained from NIH patients | Journal of Clinical Microbiology journals.asm.org/doi/10.1128/...
Clinical significance and antifungal susceptibility profile of 103 clinical isolates of Scedosporium species complex and Lomentospora prolificans obtained from NIH patients | Journal of Clinical Micro...
Understanding the epidemiology and clinical spectrum of infections caused by Scedosporium species complex and Lomentospora prolificans is integral to improving outcomes, particularly in severely ill a...
journals.asm.org
March 12, 2025 at 7:32 AM
Clinical significance and antifungal susceptibility profile of 103 clinical isolates of Scedosporium species complex and Lomentospora prolificans obtained from NIH patients | Journal of Clinical Microbiology journals.asm.org/doi/10.1128/...
Reposted by Timo Saratto
Big news: we are setting up a new non-profit organization to run bioRxiv and medRxiv. It's called openRxiv [no it's not a new preprint server; it's dedicated organization to oversee the servers] openrxiv.org 1/n
Homepage - openRxiv
openRxiv is an independent non-profit, the new organizational home for bioRxiv and medRxiv, enabling researchers to instantly share groundbreaking findings with the global scientific community.
openrxiv.org
March 11, 2025 at 1:20 PM
Big news: we are setting up a new non-profit organization to run bioRxiv and medRxiv. It's called openRxiv [no it's not a new preprint server; it's dedicated organization to oversee the servers] openrxiv.org 1/n
Reposted by Timo Saratto
Hospital infections are a problem & 'go-to' methods have limits. We trailed @nanoporetech.com in outbreak detection & response
📌Implementing nanopore sequencing in a clinical laboratory: a social systems case study | NZ J Med Lab Sci
issuu.com/sharontozer/...
🖥️🧬💻
#AcademicSky
#MicroSky
🧪🧫🦠
📌Implementing nanopore sequencing in a clinical laboratory: a social systems case study | NZ J Med Lab Sci
issuu.com/sharontozer/...
🖥️🧬💻
#AcademicSky
#MicroSky
🧪🧫🦠
NZJMLS V.79 N0. 1 March 2025
New Zealand Journal of Medical Laboratory Science.
Volume 79, Number 1, March 2025
issuu.com
March 6, 2025 at 8:50 AM
Hospital infections are a problem & 'go-to' methods have limits. We trailed @nanoporetech.com in outbreak detection & response
📌Implementing nanopore sequencing in a clinical laboratory: a social systems case study | NZ J Med Lab Sci
issuu.com/sharontozer/...
🖥️🧬💻
#AcademicSky
#MicroSky
🧪🧫🦠
📌Implementing nanopore sequencing in a clinical laboratory: a social systems case study | NZ J Med Lab Sci
issuu.com/sharontozer/...
🖥️🧬💻
#AcademicSky
#MicroSky
🧪🧫🦠
New name, same old me! Me and my wife decided to take Saratto, from her father’s side, as our new surname. The wedding itself was already in September, we just were a bit slow with the name change 🎉
February 20, 2025 at 5:20 PM
New name, same old me! Me and my wife decided to take Saratto, from her father’s side, as our new surname. The wedding itself was already in September, we just were a bit slow with the name change 🎉
Reposted by Timo Saratto
New pre-print from folks @ Copenhagen University Hospital:
🔬 28-month WGS surveillance
🦠 7,760 patient infections
📊 27.1% genetically related, 69% w/ epi link
💰 €1.25M net savings/year if acted upon/prevented!
#IDSky more great evidence for WGS for IP&C
📄: www.medrxiv.org/content/10.1...
🔬 28-month WGS surveillance
🦠 7,760 patient infections
📊 27.1% genetically related, 69% w/ epi link
💰 €1.25M net savings/year if acted upon/prevented!
#IDSky more great evidence for WGS for IP&C
📄: www.medrxiv.org/content/10.1...
February 19, 2025 at 1:50 AM
New pre-print from folks @ Copenhagen University Hospital:
🔬 28-month WGS surveillance
🦠 7,760 patient infections
📊 27.1% genetically related, 69% w/ epi link
💰 €1.25M net savings/year if acted upon/prevented!
#IDSky more great evidence for WGS for IP&C
📄: www.medrxiv.org/content/10.1...
🔬 28-month WGS surveillance
🦠 7,760 patient infections
📊 27.1% genetically related, 69% w/ epi link
💰 €1.25M net savings/year if acted upon/prevented!
#IDSky more great evidence for WGS for IP&C
📄: www.medrxiv.org/content/10.1...
Exciting news from New Zealand!⚡️
Read how ESR and Awanui Labs run genomic surveillance with Solu and @nanoporetech.com, speeding up analysis from weeks to minutes. What’s best, the system is in routine use protecting #NICU patients
#IDSky #MicroSky #IPSky #ClinMicro 🧬🖥️🧫
tinyurl.com/solu-4c8a
Read how ESR and Awanui Labs run genomic surveillance with Solu and @nanoporetech.com, speeding up analysis from weeks to minutes. What’s best, the system is in routine use protecting #NICU patients
#IDSky #MicroSky #IPSky #ClinMicro 🧬🖥️🧫
tinyurl.com/solu-4c8a
How New Zealand’s ESR and Awanui Labs achieve ultrafast outbreak detection with Solu and Nanopore sequencing | Solu
New Zealand’s Institute of Environmental Science and Research (ESR) and Awanui Labs present an ultrafast outbreak surveillance model using nanopore sequencing and Solu's bioinformatics
tinyurl.com
February 17, 2025 at 6:08 PM
Exciting news from New Zealand!⚡️
Read how ESR and Awanui Labs run genomic surveillance with Solu and @nanoporetech.com, speeding up analysis from weeks to minutes. What’s best, the system is in routine use protecting #NICU patients
#IDSky #MicroSky #IPSky #ClinMicro 🧬🖥️🧫
tinyurl.com/solu-4c8a
Read how ESR and Awanui Labs run genomic surveillance with Solu and @nanoporetech.com, speeding up analysis from weeks to minutes. What’s best, the system is in routine use protecting #NICU patients
#IDSky #MicroSky #IPSky #ClinMicro 🧬🖥️🧫
tinyurl.com/solu-4c8a
Reposted by Timo Saratto
Kia ora koutou! 👋
I’ve put together a starter pack of amazing people working in #Genomics across Aotearoa New Zealand.
If I’ve missed anyone, please let me know!
go.bsky.app/KhMbQxK
I’ve put together a starter pack of amazing people working in #Genomics across Aotearoa New Zealand.
If I’ve missed anyone, please let me know!
go.bsky.app/KhMbQxK
November 27, 2024 at 9:14 PM
Kia ora koutou! 👋
I’ve put together a starter pack of amazing people working in #Genomics across Aotearoa New Zealand.
If I’ve missed anyone, please let me know!
go.bsky.app/KhMbQxK
I’ve put together a starter pack of amazing people working in #Genomics across Aotearoa New Zealand.
If I’ve missed anyone, please let me know!
go.bsky.app/KhMbQxK
Brilliant new preprint! Genomic outbreak analysis in minutes instead of weeks, by using the Solu Platform.
This is exactly what we built it for: fast onsite genomic analysis, paired with data sharing with national public health experts.
The future is here!
#IPSky #EpiSky #ClinMicro
🧬💻🧪🧫🦠
This is exactly what we built it for: fast onsite genomic analysis, paired with data sharing with national public health experts.
The future is here!
#IPSky #EpiSky #ClinMicro
🧬💻🧪🧫🦠
📌The need for speed: ultra-rapid high-resolution outbreak analysis in a front-line hospital microbiology laboratory |@medrxivpreprint
See how hospital labs can analyse outbreaks fast - no on-site #Bioinformatics needed, cutting delays
doi.org/10.1101/2025...
🖥️🧬💻
#AcademicSky
#MicroSky
🧪🧫🦠
See how hospital labs can analyse outbreaks fast - no on-site #Bioinformatics needed, cutting delays
doi.org/10.1101/2025...
🖥️🧬💻
#AcademicSky
#MicroSky
🧪🧫🦠
The need for speed: ultra-rapid high-resolution outbreak analysis in a front-line hospital microbiology laboratory
Many hospital laboratories have technical capacity to perform whole-genome sequencing but lack bioinformatic expertise to analyse sequence data. Sending isolates to reference laboratories creates dela...
doi.org
February 14, 2025 at 12:56 PM
Brilliant new preprint! Genomic outbreak analysis in minutes instead of weeks, by using the Solu Platform.
This is exactly what we built it for: fast onsite genomic analysis, paired with data sharing with national public health experts.
The future is here!
#IPSky #EpiSky #ClinMicro
🧬💻🧪🧫🦠
This is exactly what we built it for: fast onsite genomic analysis, paired with data sharing with national public health experts.
The future is here!
#IPSky #EpiSky #ClinMicro
🧬💻🧪🧫🦠
Reposted by Timo Saratto
📌The need for speed: ultra-rapid high-resolution outbreak analysis in a front-line hospital microbiology laboratory |@medrxivpreprint
See how hospital labs can analyse outbreaks fast - no on-site #Bioinformatics needed, cutting delays
doi.org/10.1101/2025...
🖥️🧬💻
#AcademicSky
#MicroSky
🧪🧫🦠
See how hospital labs can analyse outbreaks fast - no on-site #Bioinformatics needed, cutting delays
doi.org/10.1101/2025...
🖥️🧬💻
#AcademicSky
#MicroSky
🧪🧫🦠
The need for speed: ultra-rapid high-resolution outbreak analysis in a front-line hospital microbiology laboratory
Many hospital laboratories have technical capacity to perform whole-genome sequencing but lack bioinformatic expertise to analyse sequence data. Sending isolates to reference laboratories creates dela...
doi.org
February 13, 2025 at 9:30 PM
📌The need for speed: ultra-rapid high-resolution outbreak analysis in a front-line hospital microbiology laboratory |@medrxivpreprint
See how hospital labs can analyse outbreaks fast - no on-site #Bioinformatics needed, cutting delays
doi.org/10.1101/2025...
🖥️🧬💻
#AcademicSky
#MicroSky
🧪🧫🦠
See how hospital labs can analyse outbreaks fast - no on-site #Bioinformatics needed, cutting delays
doi.org/10.1101/2025...
🖥️🧬💻
#AcademicSky
#MicroSky
🧪🧫🦠
Reposted by Timo Saratto
K. variicola can be misID as K. pneumoniae. Our #OpenAccess paper reports an NICU #Outbreak
📌The rapid detection of a neonatal unit outbreak of a wild-type Klebsiella variicola using decentralized Oxford Nanopore sequencing
doi.org/10.1186/s137...
@nanoporetech.com
🖥️🧬💻
#AcademicSky
#Microsky
🧪🧫🦠
📌The rapid detection of a neonatal unit outbreak of a wild-type Klebsiella variicola using decentralized Oxford Nanopore sequencing
doi.org/10.1186/s137...
@nanoporetech.com
🖥️🧬💻
#AcademicSky
#Microsky
🧪🧫🦠
The rapid detection of a neonatal unit outbreak of a wild-type Klebsiella variicola using decentralized Oxford Nanopore sequencing - Antimicrobial Resistance & Infection Control
Background Klebsiella variicola has been implicated in neonatal intensive care unit (NICU) outbreaks previously and can be misidentified as Klebsiella pneumoniae. An increased incidence of K. pneumoni...
doi.org
February 11, 2025 at 3:13 AM
K. variicola can be misID as K. pneumoniae. Our #OpenAccess paper reports an NICU #Outbreak
📌The rapid detection of a neonatal unit outbreak of a wild-type Klebsiella variicola using decentralized Oxford Nanopore sequencing
doi.org/10.1186/s137...
@nanoporetech.com
🖥️🧬💻
#AcademicSky
#Microsky
🧪🧫🦠
📌The rapid detection of a neonatal unit outbreak of a wild-type Klebsiella variicola using decentralized Oxford Nanopore sequencing
doi.org/10.1186/s137...
@nanoporetech.com
🖥️🧬💻
#AcademicSky
#Microsky
🧪🧫🦠
Reposted by Timo Saratto
NEW Publication🥳 Solu enables easy genome-scale pathogen surveillance!
Solu is a cloud-based real-time #pathogen surveillance platform integrating privacy, speed & usability. It automatically assembles, characterizes & compares WGS data—no bioinformatics expertise required.
🔗: tinyurl.com/y8p24uya
Solu is a cloud-based real-time #pathogen surveillance platform integrating privacy, speed & usability. It automatically assembles, characterizes & compares WGS data—no bioinformatics expertise required.
🔗: tinyurl.com/y8p24uya
January 30, 2025 at 6:18 PM
NEW Publication🥳 Solu enables easy genome-scale pathogen surveillance!
Solu is a cloud-based real-time #pathogen surveillance platform integrating privacy, speed & usability. It automatically assembles, characterizes & compares WGS data—no bioinformatics expertise required.
🔗: tinyurl.com/y8p24uya
Solu is a cloud-based real-time #pathogen surveillance platform integrating privacy, speed & usability. It automatically assembles, characterizes & compares WGS data—no bioinformatics expertise required.
🔗: tinyurl.com/y8p24uya
So excited about our new publication with @jlsteenwyk.bsky.social & co 🎉
NEW Publication🥳 Solu enables easy genome-scale pathogen surveillance!
Solu is a cloud-based real-time #pathogen surveillance platform integrating privacy, speed & usability. It automatically assembles, characterizes & compares WGS data—no bioinformatics expertise required.
🔗: tinyurl.com/y8p24uya
Solu is a cloud-based real-time #pathogen surveillance platform integrating privacy, speed & usability. It automatically assembles, characterizes & compares WGS data—no bioinformatics expertise required.
🔗: tinyurl.com/y8p24uya
January 30, 2025 at 6:28 PM
So excited about our new publication with @jlsteenwyk.bsky.social & co 🎉
Reposted by Timo Saratto
Senior post at LSHTM closes in 2 days (31st Jan). Do apply if you want to lead/join a department focussed on infectious disease epi and dynamics.
Unrelated: the UK doesn’t have executive orders.
Unrelated: the UK doesn’t have executive orders.
Open Recruitment of a Full Professor and Head of the Department of Infectious Disease Epidemiology & Dynamics: jobs.lshtm.ac.uk/vacancy.aspx...
Good research culture, friendly colleagues, inspiring public health leaders, great connections across epi & PH, & very dedicated students.
Join!
Good research culture, friendly colleagues, inspiring public health leaders, great connections across epi & PH, & very dedicated students.
Join!
Job Opportunity at LSHTM: Professor (and Head of Department)
The London School of Hygiene & Tropical Medicine (LSHTM) is one of the world’s leading public health universities. Our mission is to improve health and health equity in the UK and worldwide; working i...
jobs.lshtm.ac.uk
January 29, 2025 at 1:45 PM
Senior post at LSHTM closes in 2 days (31st Jan). Do apply if you want to lead/join a department focussed on infectious disease epi and dynamics.
Unrelated: the UK doesn’t have executive orders.
Unrelated: the UK doesn’t have executive orders.
In London for the amazing Festival of Genomics and Biodata! Looking forward to all the amazing talks and encounters. If you’re also here, DM me for a chat on pathogen genomic surveillance
🧬💻🦠
🧬💻🦠
January 29, 2025 at 11:23 AM
In London for the amazing Festival of Genomics and Biodata! Looking forward to all the amazing talks and encounters. If you’re also here, DM me for a chat on pathogen genomic surveillance
🧬💻🦠
🧬💻🦠
Interested in bacterial/fungal sequencing for epidemiology?
We’re piloting a new service with ONT sequencing, DNA extraction and analysis with Solu platform for €95/sample. Results within a week. Limited batch available!
See more: solu-bio.notion.site/18561663af81...
#IDSky #MicroSky #IPSky 🧬💻
We’re piloting a new service with ONT sequencing, DNA extraction and analysis with Solu platform for €95/sample. Results within a week. Limited batch available!
See more: solu-bio.notion.site/18561663af81...
#IDSky #MicroSky #IPSky 🧬💻
https://solu-bio.notion.site/18561663af8180a98e85fd2bc7b498f7?pvs=105
t.co
January 29, 2025 at 10:31 AM
Interested in bacterial/fungal sequencing for epidemiology?
We’re piloting a new service with ONT sequencing, DNA extraction and analysis with Solu platform for €95/sample. Results within a week. Limited batch available!
See more: solu-bio.notion.site/18561663af81...
#IDSky #MicroSky #IPSky 🧬💻
We’re piloting a new service with ONT sequencing, DNA extraction and analysis with Solu platform for €95/sample. Results within a week. Limited batch available!
See more: solu-bio.notion.site/18561663af81...
#IDSky #MicroSky #IPSky 🧬💻
Our publication on Solu Platform is now out in BMC Bioinformatics! So excited and proud to see this out. A huge thanks for the whole author team 🥳
rdcu.be/d57Cd #IDSky #MicroSky #IPSky 🧬🖥️
PS. I'm changing my surname to Saratto due to getting married, just in time for this publication!
rdcu.be/d57Cd #IDSky #MicroSky #IPSky 🧬🖥️
PS. I'm changing my surname to Saratto due to getting married, just in time for this publication!
Solu: a cloud platform for real-time genomic pathogen surveillance
rdcu.be
January 14, 2025 at 3:59 PM
Our publication on Solu Platform is now out in BMC Bioinformatics! So excited and proud to see this out. A huge thanks for the whole author team 🥳
rdcu.be/d57Cd #IDSky #MicroSky #IPSky 🧬🖥️
PS. I'm changing my surname to Saratto due to getting married, just in time for this publication!
rdcu.be/d57Cd #IDSky #MicroSky #IPSky 🧬🖥️
PS. I'm changing my surname to Saratto due to getting married, just in time for this publication!
Exciting times ahead! Our manuscript for Solu Platform just got accepted and is in final proofreading 🧬🖥️ 🦠
December 17, 2024 at 2:37 PM
Exciting times ahead! Our manuscript for Solu Platform just got accepted and is in final proofreading 🧬🖥️ 🦠
Reposted by Timo Saratto
Don't miss out on the free registration for the The Festival of Genomics & Biodata in London!
I will be speaking at The Festival, taking place on the 29th-30th of January 2025 at ExCeL London.
Register now ! hubs.la/Q02TptWZ0
#FOG2025
I will be speaking at The Festival, taking place on the 29th-30th of January 2025 at ExCeL London.
Register now ! hubs.la/Q02TptWZ0
#FOG2025
December 6, 2024 at 5:14 PM
Don't miss out on the free registration for the The Festival of Genomics & Biodata in London!
I will be speaking at The Festival, taking place on the 29th-30th of January 2025 at ExCeL London.
Register now ! hubs.la/Q02TptWZ0
#FOG2025
I will be speaking at The Festival, taking place on the 29th-30th of January 2025 at ExCeL London.
Register now ! hubs.la/Q02TptWZ0
#FOG2025
Helen Wang on plasmid copy number variation as a tradeoff between resistance and fitness. Fascinating!
#NCMG24 #ClinMicro
#NCMG24 #ClinMicro
December 5, 2024 at 10:15 AM
Helen Wang on plasmid copy number variation as a tradeoff between resistance and fitness. Fascinating!
#NCMG24 #ClinMicro
#NCMG24 #ClinMicro
Reposted by Timo Saratto
Sequencing is an important tool for connecting across disciplines, organization types, geography, human/animal, and time. In this article I use the 2022-2023 Pseudomonas outbreak in artificial tears as a case study on the power of sequencing for surveillance. genomicepi.substack.com/p/the-perfec...
The perfect outbreak...for showcasing the value of sequencing
Pseudomonas outbreak brings genomics to the forefront
genomicepi.substack.com
December 2, 2024 at 12:11 AM
Sequencing is an important tool for connecting across disciplines, organization types, geography, human/animal, and time. In this article I use the 2022-2023 Pseudomonas outbreak in artificial tears as a case study on the power of sequencing for surveillance. genomicepi.substack.com/p/the-perfec...
Reposted by Timo Saratto
As the great migration from Twitter to Bluesky begins, I have created the "Clinical Microbiology" starter pack to help you find your colleagues. Please let me know if you would like to be added!
go.bsky.app/VTpSjBL
go.bsky.app/VTpSjBL
November 12, 2024 at 1:29 PM
As the great migration from Twitter to Bluesky begins, I have created the "Clinical Microbiology" starter pack to help you find your colleagues. Please let me know if you would like to be added!
go.bsky.app/VTpSjBL
go.bsky.app/VTpSjBL
I view bioinformaticians and automated pipelines like airplane pilots and auto-pilot. The system runs the day-to-day and the expert jumps in when needed
#genomics #clinmicro #MicroSky
#genomics #clinmicro #MicroSky
November 25, 2024 at 11:54 AM
I view bioinformaticians and automated pipelines like airplane pilots and auto-pilot. The system runs the day-to-day and the expert jumps in when needed
#genomics #clinmicro #MicroSky
#genomics #clinmicro #MicroSky
Reposted by Timo Saratto
A list of bands in order of efficacy:
3. Placebo
2. The Cure
1. Prevention
3. Placebo
2. The Cure
1. Prevention
November 22, 2024 at 12:05 PM
A list of bands in order of efficacy:
3. Placebo
2. The Cure
1. Prevention
3. Placebo
2. The Cure
1. Prevention