Rosy Favicchio
@rosyf.bsky.social
π bluesky research π reproducible science is excellent science. Editor @NatureProtocols / I have views and theyβre mine!
Currently based in China
Currently based in China
Pinned
Rosy Favicchio
@rosyf.bsky.social
Β· Feb 27
Find the readcube link here: rdcu.be/eRElg
Multiplexed genetic tags for electron and fluorescence microscopy
Nature Protocols - This protocol for the use and quality control of genetically encoded reporters to label proteins and cells in correlative light and electron microscopy workflows enables the...
rdcu.be
November 25, 2025 at 7:13 AM
Find the readcube link here: rdcu.be/eRElg
In this Protocol you will find comprehensive guidance for researchers, including those with limited electron microscopy experience, on the effective use of genetically encoded, multichannel EM-capsulin reporters for both fluorescence microscopy and EM workflows.
@natprot.nature.com π§ͺ π¬
@natprot.nature.com π§ͺ π¬
Multiplexed genetic tags for electron and fluorescence microscopy - Nature Protocols
This protocol for the use and quality control of genetically encoded reporters to label proteins and cells in correlative light and electron microscopy workflows enables the acquisition of molecular, ...
www.nature.com
November 25, 2025 at 7:12 AM
In this Protocol you will find comprehensive guidance for researchers, including those with limited electron microscopy experience, on the effective use of genetically encoded, multichannel EM-capsulin reporters for both fluorescence microscopy and EM workflows.
@natprot.nature.com π§ͺ π¬
@natprot.nature.com π§ͺ π¬
Catch me at the meet the editor session tomorrow at 12pm where we can discuss all things protocols @natprot.nature.com
November 14, 2025 at 5:48 AM
Catch me at the meet the editor session tomorrow at 12pm where we can discuss all things protocols @natprot.nature.com
Happy to be attending the Cellular therapy and immunotherapy conference 2025 in Hangzhou. Iβm looking forward to learning about the latest developments in the field!
π§ͺ #medsky
mm.sciconf.cn/en/minisite/...
π§ͺ #medsky
mm.sciconf.cn/en/minisite/...
Cellular Therapy and Immunotherapy Conference 2025
mm.sciconf.cn
November 14, 2025 at 5:48 AM
Happy to be attending the Cellular therapy and immunotherapy conference 2025 in Hangzhou. Iβm looking forward to learning about the latest developments in the field!
π§ͺ #medsky
mm.sciconf.cn/en/minisite/...
π§ͺ #medsky
mm.sciconf.cn/en/minisite/...
Reposted by Rosy Favicchio
Longer walks linked with less mortality and cardiovascular risk compared with short bouts of physical activity
@annalsofim.bsky.social
www.acpjournals.org/doi/10.7326/...
@annalsofim.bsky.social
www.acpjournals.org/doi/10.7326/...
Step Accumulation Patterns and Risk for Cardiovascular Events and Mortality Among Suboptimally Active Adults | Annals of Internal Medicine
Background: Although physical activity recommendations increasingly consider daily step counts, it remains unclear whether step accumulation patternsβshort versus sustained longer boutsβaffect associa...
www.acpjournals.org
October 28, 2025 at 7:29 AM
Longer walks linked with less mortality and cardiovascular risk compared with short bouts of physical activity
@annalsofim.bsky.social
www.acpjournals.org/doi/10.7326/...
@annalsofim.bsky.social
www.acpjournals.org/doi/10.7326/...
Reposted by Rosy Favicchio
Something to think about when talking to your favourite AI system:
How to write effective prompts for large language models
www.nature.com/articles/s41...
How to write effective prompts for large language models
www.nature.com/articles/s41...
How to write effective prompts for large language models - Nature Human Behaviour
Effectively engaging with large language models is becoming increasingly vital as they proliferate across research landscapes. This Comment presents a practical guide for understanding their capabilities and limitations, along with strategies for crafting well-structured queries, to extract maximum utility from these artificial intelligence tools.
www.nature.com
October 13, 2025 at 7:55 AM
Something to think about when talking to your favourite AI system:
How to write effective prompts for large language models
www.nature.com/articles/s41...
How to write effective prompts for large language models
www.nature.com/articles/s41...
Reposted by Rosy Favicchio
π§΅π¨
The UKβs independent scientific bodies are highly vulnerable to politicisation - over the past 5 months I've been working with @martinmckee.bsky.social to map out their vulnerabilities and it's not good news.
Today our report is published!
www.ucl.ac.uk/policy-lab/n...
1/11
The UKβs independent scientific bodies are highly vulnerable to politicisation - over the past 5 months I've been working with @martinmckee.bsky.social to map out their vulnerabilities and it's not good news.
Today our report is published!
www.ucl.ac.uk/policy-lab/n...
1/11
UKβs armβs length public bodies are highly vulnerable to politicisation
Seven in ten Britons say it is important for top scientific institutions to be independent in exclusive new polling.
www.ucl.ac.uk
October 9, 2025 at 3:47 PM
π§΅π¨
The UKβs independent scientific bodies are highly vulnerable to politicisation - over the past 5 months I've been working with @martinmckee.bsky.social to map out their vulnerabilities and it's not good news.
Today our report is published!
www.ucl.ac.uk/policy-lab/n...
1/11
The UKβs independent scientific bodies are highly vulnerable to politicisation - over the past 5 months I've been working with @martinmckee.bsky.social to map out their vulnerabilities and it's not good news.
Today our report is published!
www.ucl.ac.uk/policy-lab/n...
1/11
Reposted by Rosy Favicchio
After a long pause, I've just done another England Covid & NHS update as we head into the autumn/winter season.
TLDR: we're in a significant Covid wave now, the NHS is stretched, get boosted if you're eligible.
christinapagel.substack.com/p/england-is...
TLDR: we're in a significant Covid wave now, the NHS is stretched, get boosted if you're eligible.
christinapagel.substack.com/p/england-is...
England is now experiencing a significant Covid wave, after 10 months of relative quiet
The latest Covid situation in England and a look at where NHS services are as we head into winter
christinapagel.substack.com
October 10, 2025 at 1:10 PM
After a long pause, I've just done another England Covid & NHS update as we head into the autumn/winter season.
TLDR: we're in a significant Covid wave now, the NHS is stretched, get boosted if you're eligible.
christinapagel.substack.com/p/england-is...
TLDR: we're in a significant Covid wave now, the NHS is stretched, get boosted if you're eligible.
christinapagel.substack.com/p/england-is...
π§ π Nerd-chic π
"Reproducibility isnβt glamorous, but itβs essential."
@annechurchland.bsky.social speaks candidly in @thetransmitter.bsky.social about the obstacles to reproducibility and shares practical advice for other neuroscience labs.
π§ π www.thetransmitter.org/reproducibil...
@annechurchland.bsky.social speaks candidly in @thetransmitter.bsky.social about the obstacles to reproducibility and shares practical advice for other neuroscience labs.
π§ π www.thetransmitter.org/reproducibil...
Reproducibility is a team sport
Building reproducible systems across labs is possible, even in large-scale neuroscienceβwith rigor and collaboration.
www.thetransmitter.org
October 10, 2025 at 12:59 PM
π§ π Nerd-chic π
Reposted by Rosy Favicchio
Congratulations to all three winners!
Susumu Kitagawa, Richard Robson and Omar M. Yaghi βfor the development of metal-organic frameworksβ
We are honoured to have a Nature Protocol from Prof. Yaghi
rdcu.be/eJ0Es
www.nature.com/articles/s41...
Susumu Kitagawa, Richard Robson and Omar M. Yaghi βfor the development of metal-organic frameworksβ
We are honoured to have a Nature Protocol from Prof. Yaghi
rdcu.be/eJ0Es
www.nature.com/articles/s41...
High-yield, green and scalable methods for producing MOF-303 for water harvesting from desert air
Nature Protocols - MOF-303 is a promising water-harvesting sorbent that can take up water at low relative humidity and release it under mild heating. This metalβorganic framework can be made...
rdcu.be
October 8, 2025 at 10:46 AM
Congratulations to all three winners!
Susumu Kitagawa, Richard Robson and Omar M. Yaghi βfor the development of metal-organic frameworksβ
We are honoured to have a Nature Protocol from Prof. Yaghi
rdcu.be/eJ0Es
www.nature.com/articles/s41...
Susumu Kitagawa, Richard Robson and Omar M. Yaghi βfor the development of metal-organic frameworksβ
We are honoured to have a Nature Protocol from Prof. Yaghi
rdcu.be/eJ0Es
www.nature.com/articles/s41...
Reposted by Rosy Favicchio
BREAKING: The Nobel Prize in Chemistry has been awarded to Susumu Kitagawa, Richard Robson and Omar M. Yaghi βfor the development of metal-organic frameworksβ
Stay tuned for more.
#NobelPrize
Stay tuned for more.
#NobelPrize
October 8, 2025 at 9:49 AM
BREAKING: The Nobel Prize in Chemistry has been awarded to Susumu Kitagawa, Richard Robson and Omar M. Yaghi βfor the development of metal-organic frameworksβ
Stay tuned for more.
#NobelPrize
Stay tuned for more.
#NobelPrize
Reposted by Rosy Favicchio
Good to know: There is a free online training course for peer review from Nature Masterclasses
masterclasses.nature.com/focus-on-pee...
masterclasses.nature.com/focus-on-pee...
Focus on Peer Review
FREE - Explore the role of a peer reviewer and the foundations of a good peer review β In-depth course
masterclasses.nature.com
September 29, 2025 at 8:53 AM
Good to know: There is a free online training course for peer review from Nature Masterclasses
masterclasses.nature.com/focus-on-pee...
masterclasses.nature.com/focus-on-pee...
This Protocol results from the Joint Undertaking for Morphological Profiling Cell Painting Consortium, and improves the Cell Painting assay by quantitatively detecting morphological phenotypes, improving the ability to group perturbations with similar behavior.
Optimizing the Cell Painting assay for image-based profiling
Nature Protocols - We provide an updated protocol for image-based profiling with Cell Painting. A detailed procedure, with standardized conditions for the assay, is presented, along with a...
rdcu.be
October 8, 2025 at 8:20 AM
This Protocol results from the Joint Undertaking for Morphological Profiling Cell Painting Consortium, and improves the Cell Painting assay by quantitatively detecting morphological phenotypes, improving the ability to group perturbations with similar behavior.
This protocol provides detailed guidelines for using rMATS-turbo, the latest implementation of the popular software for the discovery and quantification of alternative splicing events from RNA sequencing data. The software is exemplified in two representative scenarios. rdcu.be/eJYYF
rMATS-turbo: an efficient and flexible computational tool for alternative splicing analysis of large-scale RNA-seq data
Nature Protocols - This protocol provides detailed guidelines for using rMATS-turboβthe latest implementation of the popular software for the discovery and quantification of alternative...
rdcu.be
October 8, 2025 at 8:20 AM
This protocol provides detailed guidelines for using rMATS-turbo, the latest implementation of the popular software for the discovery and quantification of alternative splicing events from RNA sequencing data. The software is exemplified in two representative scenarios. rdcu.be/eJYYF
Acoustic tweezers enable the fast, high-throughput handling of single cells and particles. This protocol covers the fabrication of a microfluidic chamber, the interdigital transducer, as well as the experimental setup for the manipulation of single cells and particles, data acquisition and analysis
Acoustic tweezers for high-throughput single-cell analysis
Nature Protocols - A protocol for the construction of acoustic tweezers to manipulate single cells in a high-throughput, precise, selective and contact-free manner, which can be broadly adapted for...
rdcu.be
October 8, 2025 at 8:20 AM
Acoustic tweezers enable the fast, high-throughput handling of single cells and particles. This protocol covers the fabrication of a microfluidic chamber, the interdigital transducer, as well as the experimental setup for the manipulation of single cells and particles, data acquisition and analysis
A protocol covering a robust, multisite-applicable, infant-tailored computational pipeline that leverages deep learning and can handle T1w and T2w structural infant brain MR images from birth to 6 years of age and is effective for different imaging protocols/scanners. rdcu.be/eJYVn
iBEAT V2.0: a multisite-applicable, deep learning-based pipeline for infant cerebral cortical surface reconstruction
Nature Protocols - The iBEAT V2.0 is a robust, multisite-applicable, infant-tailored computational pipeline that uses deep learning to process and analyze infant brain magnetic resonance images....
rdcu.be
October 8, 2025 at 8:20 AM
A protocol covering a robust, multisite-applicable, infant-tailored computational pipeline that leverages deep learning and can handle T1w and T2w structural infant brain MR images from birth to 6 years of age and is effective for different imaging protocols/scanners. rdcu.be/eJYVn
Fibrillar aggregates of the amyloid-Ξ² protein (AΞ²) are found in brain plaques of patients with Alzheimerβs disease (AD). Here, a near-infrared aggregation-induced-emission-active fluorescent probe can cross the bloodβbrain barrier and detect AΞ² plaques in brain tissue and in vivo in mice.
Preparation of near-infrared AIEgen-active fluorescent probes for mapping amyloid-Ξ² plaques in brain tissues and living mice
Nature Protocols - We present a protocol for the synthesis and usage of QM-FN-SO3, a near-infrared aggregation-induced-emission-active fluorescent probe capable of crossing the bloodβbrain...
rdcu.be
October 8, 2025 at 8:20 AM
Fibrillar aggregates of the amyloid-Ξ² protein (AΞ²) are found in brain plaques of patients with Alzheimerβs disease (AD). Here, a near-infrared aggregation-induced-emission-active fluorescent probe can cross the bloodβbrain barrier and detect AΞ² plaques in brain tissue and in vivo in mice.
Enzymes are natural catalysts susceptible to non-physiological environments, limiting their industrial applications. This protocol covers a strategy for enzyme encapsulation using a hydrogen-bonded organic framework resulting in different surface chemistries to design biocatalytic HOF materials.
Encapsulating and stabilizing enzymes using hydrogen-bonded organic frameworks
Nature Protocols - We present a protocol for the encapsulation and stabilization of enzymes by using hydrogen-bonded organic frameworks (HOFs)βenzyme@HOF-101βalong with procedures for...
rdcu.be
October 8, 2025 at 8:20 AM
Enzymes are natural catalysts susceptible to non-physiological environments, limiting their industrial applications. This protocol covers a strategy for enzyme encapsulation using a hydrogen-bonded organic framework resulting in different surface chemistries to design biocatalytic HOF materials.
Nanozymes are nanoparticles designed to have catalytic properties similar to those of natural enzymes. This is a protocol for measuring their catalytic behavior based on data from measured physical properties and density functional theory calculations into the MichaelisβMenten approach.
Optimizing the standardized assays for determining the catalytic activity and kinetics of peroxidase-like nanozymes
Nature Protocols - Developing optimal nanozymes requires standardized methods for measuring their catalytic activity and reaction kinetics. This protocol integrates enzyme based...
rdcu.be
October 8, 2025 at 8:20 AM
Nanozymes are nanoparticles designed to have catalytic properties similar to those of natural enzymes. This is a protocol for measuring their catalytic behavior based on data from measured physical properties and density functional theory calculations into the MichaelisβMenten approach.
Tetrahedral DNA nanostructures (TDN) can be used to deliver bioactive molecules. However, static structures and passive targeting may introduce off-target effects. Here, an active targeting strategy which uses stimuli-sensitive conformation changes allow targeted on-site cargo release.
A dynamic DNA tetrahedron framework for active targeting
Nature Protocols - This Protocol Extension presents an updated tetrahedral DNA nanostructure for the delivery of various bioactive molecules that enables an active targeting strategy to be used for...
rdcu.be
October 8, 2025 at 8:20 AM
Tetrahedral DNA nanostructures (TDN) can be used to deliver bioactive molecules. However, static structures and passive targeting may introduce off-target effects. Here, an active targeting strategy which uses stimuli-sensitive conformation changes allow targeted on-site cargo release.
This protocol for web-based multi-omics integration covers single-omics data analysis using ExpressAnalyst and MetaboAnalyst, followed by knowledge-driven integration using OmicsNet and data-driven integration using OmicsAnalyst.
Web-based multi-omics integration using the Analyst software suite
Nature Protocols - This multi-omics data integration protocol, which uses the web-based Analyst tool suite, covers knowledge-driven integration using biological networks and data-driven integration...
rdcu.be
October 8, 2025 at 8:20 AM
This protocol for web-based multi-omics integration covers single-omics data analysis using ExpressAnalyst and MetaboAnalyst, followed by knowledge-driven integration using OmicsNet and data-driven integration using OmicsAnalyst.
Luminescent materials are an attractive for environmental sensing. The synthesis of metalβorganic frameworks bearing multiple luminescent centers such as metal cations and organic ligands, chosen for selectivity for the analytes of interest, results in a complex with sensing properties.
Preparation and quantitative analysis of multicenter luminescence materials for sensing function
Nature Protocols - In many environmental or clinical settings, it is useful to detect and quantify analytes instantaneously in situ. This protocol describes how to develop metalβorganic...
rdcu.be
October 8, 2025 at 8:20 AM
Luminescent materials are an attractive for environmental sensing. The synthesis of metalβorganic frameworks bearing multiple luminescent centers such as metal cations and organic ligands, chosen for selectivity for the analytes of interest, results in a complex with sensing properties.
The protocol covers the analysis of highly multiplexed tissue imaging data, including data visualization, data preprocessing, image segmentation, single-cell feature extraction, reading data into R, spillover correction, quality control, cell phenotyping and spatially resolved single-cell analysis.
An end-to-end workflow for multiplexed image processing and analysis
Nature Protocols - An integrated workflow for multiplexed tissue image processing and analysis, including interactive inspection of raw data, cell segmentation, feature extraction, single-cell...
rdcu.be
October 8, 2025 at 8:20 AM
The protocol covers the analysis of highly multiplexed tissue imaging data, including data visualization, data preprocessing, image segmentation, single-cell feature extraction, reading data into R, spillover correction, quality control, cell phenotyping and spatially resolved single-cell analysis.
Misfolded alpha-synuclein (Ξ±Syn) aggregates are a hallmark in synucleinopathies. This protocol covers Ξ±Syn seed amplification assays for the detection of Ξ±Syn aggregates in cerebrospinal fluid samples from patients affected by Parkinson disease, dementia with Lewy bodies or multiple-system atrophy
Seed amplification assay for the detection of pathologic alpha-synuclein aggregates in cerebrospinal fluid
Nature Protocols - The amplification of misfolded alpha-synuclein aggregates in vitro can be used for the detection, via fluorescent dyes, of pathologic amyloids in cerebrospinal fluid samples from...
rdcu.be
October 8, 2025 at 8:20 AM
Misfolded alpha-synuclein (Ξ±Syn) aggregates are a hallmark in synucleinopathies. This protocol covers Ξ±Syn seed amplification assays for the detection of Ξ±Syn aggregates in cerebrospinal fluid samples from patients affected by Parkinson disease, dementia with Lewy bodies or multiple-system atrophy
MXenes are two-dimensional materials with diverse and unique properties. This protocol provides a detailed guideline for the synthesis of a Ti3AlC2 MAX phase precursor, wet chemical etching of MAX to yield multilayer Ti3C2Tx and its delamination into single-layer flakes.
Comprehensive synthesis of Ti3C2Tx from MAX phase to MXene
Nature Protocols - MXenes are two-dimensional materials with diverse optoelectronic, biological, mechanical and chemical properties. This protocol describes how to prepare single-layer flakes of...
rdcu.be
October 8, 2025 at 8:20 AM
MXenes are two-dimensional materials with diverse and unique properties. This protocol provides a detailed guideline for the synthesis of a Ti3AlC2 MAX phase precursor, wet chemical etching of MAX to yield multilayer Ti3C2Tx and its delamination into single-layer flakes.