RT-SuperES
@rt-superes.bsky.social
Microscopy reproducibility should include the analysis path, not only acquisition metadata.
As imaging becomes adaptive, decisions that alter what is acquired next should be traceable and reproducible.
@galaxyproject.bsky.social
doi.org/10.1111/jmi....
#RTSuperES
As imaging becomes adaptive, decisions that alter what is acquired next should be traceable and reproducible.
@galaxyproject.bsky.social
doi.org/10.1111/jmi....
#RTSuperES
September 13, 2026 at 8:18 AM
Microscopy reproducibility should include the analysis path, not only acquisition metadata.
As imaging becomes adaptive, decisions that alter what is acquired next should be traceable and reproducible.
@galaxyproject.bsky.social
doi.org/10.1111/jmi....
#RTSuperES
As imaging becomes adaptive, decisions that alter what is acquired next should be traceable and reproducible.
@galaxyproject.bsky.social
doi.org/10.1111/jmi....
#RTSuperES
“Most informative” is not intrinsic to an image. SimuScan can identify features and steer AFM follow-up scans, but targets are ranked by user-defined criteria. AI can choose where to look; science still defines what matters.
doi.org/10.1038/s414...
#ORNL #RTSuperES
doi.org/10.1038/s414...
#ORNL #RTSuperES
September 12, 2026 at 8:37 AM
“Most informative” is not intrinsic to an image. SimuScan can identify features and steer AFM follow-up scans, but targets are ranked by user-defined criteria. AI can choose where to look; science still defines what matters.
doi.org/10.1038/s414...
#ORNL #RTSuperES
doi.org/10.1038/s414...
#ORNL #RTSuperES
Biology can disappear when the field of view ends.
WHOLISTIC records cellular Ca²⁺ activity across larval zebrafish. During hypoxia, it revealed brainstem control of blood-flow redistribution between organs.
doi.org/10.1038/s415...
#RTSuperES
WHOLISTIC records cellular Ca²⁺ activity across larval zebrafish. During hypoxia, it revealed brainstem control of blood-flow redistribution between organs.
doi.org/10.1038/s415...
#RTSuperES
September 11, 2026 at 11:02 AM
Biology can disappear when the field of view ends.
WHOLISTIC records cellular Ca²⁺ activity across larval zebrafish. During hypoxia, it revealed brainstem control of blood-flow redistribution between organs.
doi.org/10.1038/s415...
#RTSuperES
WHOLISTIC records cellular Ca²⁺ activity across larval zebrafish. During hypoxia, it revealed brainstem control of blood-flow redistribution between organs.
doi.org/10.1038/s415...
#RTSuperES
What if, instead of filtering background away, we moved the signal somewhere the background isn't?
PP-LID makes upconversion nanoparticles generate a beat-frequency signal absent from the excitation itself, enabling camera-based isolation.
doi.org/10.1038/s413...
#RTSuperES
PP-LID makes upconversion nanoparticles generate a beat-frequency signal absent from the excitation itself, enabling camera-based isolation.
doi.org/10.1038/s413...
#RTSuperES
September 10, 2026 at 6:52 AM
What if, instead of filtering background away, we moved the signal somewhere the background isn't?
PP-LID makes upconversion nanoparticles generate a beat-frequency signal absent from the excitation itself, enabling camera-based isolation.
doi.org/10.1038/s413...
#RTSuperES
PP-LID makes upconversion nanoparticles generate a beat-frequency signal absent from the excitation itself, enabling camera-based isolation.
doi.org/10.1038/s413...
#RTSuperES
Does microscopy analysis always need the full image volume?
DeepWonder3D works from multiview projections rather than every voxel, improving 3D neuronal localization with ~10× lower computational cost.
Sometimes the representation is part of the solution.
doi.org/10.1038/s415...
#RTSuperES
DeepWonder3D works from multiview projections rather than every voxel, improving 3D neuronal localization with ~10× lower computational cost.
Sometimes the representation is part of the solution.
doi.org/10.1038/s415...
#RTSuperES
September 8, 2026 at 6:43 AM
Does microscopy analysis always need the full image volume?
DeepWonder3D works from multiview projections rather than every voxel, improving 3D neuronal localization with ~10× lower computational cost.
Sometimes the representation is part of the solution.
doi.org/10.1038/s415...
#RTSuperES
DeepWonder3D works from multiview projections rather than every voxel, improving 3D neuronal localization with ~10× lower computational cost.
Sometimes the representation is part of the solution.
doi.org/10.1038/s415...
#RTSuperES
What if multiple imaging modes could be encoded into the coverslip?
A new preprint demonstrates a meta-coverslip for bright-field, differential, fluorescence and holographic imaging, switching functions simply by changing wavelength.
arxiv.org/abs/2609.02335
#RTSuperES
A new preprint demonstrates a meta-coverslip for bright-field, differential, fluorescence and holographic imaging, switching functions simply by changing wavelength.
arxiv.org/abs/2609.02335
#RTSuperES
September 7, 2026 at 5:28 AM
What if multiple imaging modes could be encoded into the coverslip?
A new preprint demonstrates a meta-coverslip for bright-field, differential, fluorescence and holographic imaging, switching functions simply by changing wavelength.
arxiv.org/abs/2609.02335
#RTSuperES
A new preprint demonstrates a meta-coverslip for bright-field, differential, fluorescence and holographic imaging, switching functions simply by changing wavelength.
arxiv.org/abs/2609.02335
#RTSuperES
Sometimes nanometres are not just resolution. They are biology.
A new study shows that membrane-to-cortex distance can regulate mDia1 activity and cell mechanics, making nanoscale geometry itself a functional cellular parameter.
doi.org/10.1038/s414...
#RTSuperES
A new study shows that membrane-to-cortex distance can regulate mDia1 activity and cell mechanics, making nanoscale geometry itself a functional cellular parameter.
doi.org/10.1038/s414...
#RTSuperES
September 5, 2026 at 8:21 AM
Sometimes nanometres are not just resolution. They are biology.
A new study shows that membrane-to-cortex distance can regulate mDia1 activity and cell mechanics, making nanoscale geometry itself a functional cellular parameter.
doi.org/10.1038/s414...
#RTSuperES
A new study shows that membrane-to-cortex distance can regulate mDia1 activity and cell mechanics, making nanoscale geometry itself a functional cellular parameter.
doi.org/10.1038/s414...
#RTSuperES
Broad first, detailed where it matters.
A new Euro-BioImaging case study uses multiplex spatial phenotyping for tumour context, then confocal microscopy for more detailed questions.
A useful example of matching imaging depth to the biology.
www.eurobioimaging.eu/news/underst...
#RTSuperES
A new Euro-BioImaging case study uses multiplex spatial phenotyping for tumour context, then confocal microscopy for more detailed questions.
A useful example of matching imaging depth to the biology.
www.eurobioimaging.eu/news/underst...
#RTSuperES
September 2, 2026 at 3:15 PM
Broad first, detailed where it matters.
A new Euro-BioImaging case study uses multiplex spatial phenotyping for tumour context, then confocal microscopy for more detailed questions.
A useful example of matching imaging depth to the biology.
www.eurobioimaging.eu/news/underst...
#RTSuperES
A new Euro-BioImaging case study uses multiplex spatial phenotyping for tumour context, then confocal microscopy for more detailed questions.
A useful example of matching imaging depth to the biology.
www.eurobioimaging.eu/news/underst...
#RTSuperES
How much biological time is hidden inside one super-resolution image?
SPIFFI gets ~1.7× instantaneous resolution enhancement from a single exposure and captured live-cell dynamics blurred by methods integrating many frames.
doi.org/10.1038/s415...
#RTSuperES
SPIFFI gets ~1.7× instantaneous resolution enhancement from a single exposure and captured live-cell dynamics blurred by methods integrating many frames.
doi.org/10.1038/s415...
#RTSuperES
September 1, 2026 at 6:31 AM
How much biological time is hidden inside one super-resolution image?
SPIFFI gets ~1.7× instantaneous resolution enhancement from a single exposure and captured live-cell dynamics blurred by methods integrating many frames.
doi.org/10.1038/s415...
#RTSuperES
SPIFFI gets ~1.7× instantaneous resolution enhancement from a single exposure and captured live-cell dynamics blurred by methods integrating many frames.
doi.org/10.1038/s415...
#RTSuperES
How far has microscopy advanced if only specialist labs can use it?
IMC21 considers open-source instruments, low-cost optics, shared facilities, training and standards. Accessibility can be part of method design.
www.imc21.org.uk/congress/con...
#IMC21 #RTSuperES
IMC21 considers open-source instruments, low-cost optics, shared facilities, training and standards. Accessibility can be part of method design.
www.imc21.org.uk/congress/con...
#IMC21 #RTSuperES
August 30, 2026 at 6:34 AM
How far has microscopy advanced if only specialist labs can use it?
IMC21 considers open-source instruments, low-cost optics, shared facilities, training and standards. Accessibility can be part of method design.
www.imc21.org.uk/congress/con...
#IMC21 #RTSuperES
IMC21 considers open-source instruments, low-cost optics, shared facilities, training and standards. Accessibility can be part of method design.
www.imc21.org.uk/congress/con...
#IMC21 #RTSuperES
Does a smart microscope always need to interpret an image before deciding what to do next?
A new SPAD-array study estimates active fluorophore number from photon-count statistics.
Could detector-level information eventually drive acquisition?
doi.org/10.1038/s415...
#RTSuperES
A new SPAD-array study estimates active fluorophore number from photon-count statistics.
Could detector-level information eventually drive acquisition?
doi.org/10.1038/s415...
#RTSuperES
August 29, 2026 at 9:17 AM
Does a smart microscope always need to interpret an image before deciding what to do next?
A new SPAD-array study estimates active fluorophore number from photon-count statistics.
Could detector-level information eventually drive acquisition?
doi.org/10.1038/s415...
#RTSuperES
A new SPAD-array study estimates active fluorophore number from photon-count statistics.
Could detector-level information eventually drive acquisition?
doi.org/10.1038/s415...
#RTSuperES
Where does an imaging system begin?
Not necessarily at the microscope.
New fluorogenic peptide probes enable multicolour, wash-free real-time live-cell microscopy—a reminder that acquisition quality can be engineered into the reporter itself.
doi.org/10.1038/s415...
#RTSuperES
Not necessarily at the microscope.
New fluorogenic peptide probes enable multicolour, wash-free real-time live-cell microscopy—a reminder that acquisition quality can be engineered into the reporter itself.
doi.org/10.1038/s415...
#RTSuperES
August 27, 2026 at 3:19 PM
Where does an imaging system begin?
Not necessarily at the microscope.
New fluorogenic peptide probes enable multicolour, wash-free real-time live-cell microscopy—a reminder that acquisition quality can be engineered into the reporter itself.
doi.org/10.1038/s415...
#RTSuperES
Not necessarily at the microscope.
New fluorogenic peptide probes enable multicolour, wash-free real-time live-cell microscopy—a reminder that acquisition quality can be engineered into the reporter itself.
doi.org/10.1038/s415...
#RTSuperES
What should “high-content” microscopy mean?
Not necessarily more images.
Chem-SIM combines SIM with mid-IR photothermal modulation, adding chemical fingerprints to spatial information.
Could what kind of information to acquire become an adaptive decision?
doi.org/10.1038/s414...
#RTSuperES
Not necessarily more images.
Chem-SIM combines SIM with mid-IR photothermal modulation, adding chemical fingerprints to spatial information.
Could what kind of information to acquire become an adaptive decision?
doi.org/10.1038/s414...
#RTSuperES
August 25, 2026 at 5:35 AM
What should “high-content” microscopy mean?
Not necessarily more images.
Chem-SIM combines SIM with mid-IR photothermal modulation, adding chemical fingerprints to spatial information.
Could what kind of information to acquire become an adaptive decision?
doi.org/10.1038/s414...
#RTSuperES
Not necessarily more images.
Chem-SIM combines SIM with mid-IR photothermal modulation, adding chemical fingerprints to spatial information.
Could what kind of information to acquire become an adaptive decision?
doi.org/10.1038/s414...
#RTSuperES
A super-resolution artifact can start before reconstruction.
A new HPFM method uses a first-order Bessel beam to improve excitation-PSF matching and suppress subtraction artifacts, with about 100 nm lateral resolution reported.
doi.org/10.1364/OL.6...
#RTSuperES
A new HPFM method uses a first-order Bessel beam to improve excitation-PSF matching and suppress subtraction artifacts, with about 100 nm lateral resolution reported.
doi.org/10.1364/OL.6...
#RTSuperES
August 24, 2026 at 7:25 AM
A super-resolution artifact can start before reconstruction.
A new HPFM method uses a first-order Bessel beam to improve excitation-PSF matching and suppress subtraction artifacts, with about 100 nm lateral resolution reported.
doi.org/10.1364/OL.6...
#RTSuperES
A new HPFM method uses a first-order Bessel beam to improve excitation-PSF matching and suppress subtraction artifacts, with about 100 nm lateral resolution reported.
doi.org/10.1364/OL.6...
#RTSuperES
Where should a smart microscope’s feedback loop end?
At adapting acquisition, or could it also perturb the biology?
A new preprint uses fluorescence feedback to control chemical stimulation of mammalian cells.
doi.org/10.64898/202...
#RTSuperES
At adapting acquisition, or could it also perturb the biology?
A new preprint uses fluorescence feedback to control chemical stimulation of mammalian cells.
doi.org/10.64898/202...
#RTSuperES
August 22, 2026 at 5:44 AM
Where should a smart microscope’s feedback loop end?
At adapting acquisition, or could it also perturb the biology?
A new preprint uses fluorescence feedback to control chemical stimulation of mammalian cells.
doi.org/10.64898/202...
#RTSuperES
At adapting acquisition, or could it also perturb the biology?
A new preprint uses fluorescence feedback to control chemical stimulation of mammalian cells.
doi.org/10.64898/202...
#RTSuperES
A pathway can look different depending on where in the cell you measure it.
A new live-cell Ras biosensor found slower endogenous Ras activation at the Golgi than at the plasma membrane after EGF.
That spatial difference is itself biology.
doi.org/10.1038/s415...
A new live-cell Ras biosensor found slower endogenous Ras activation at the Golgi than at the plasma membrane after EGF.
That spatial difference is itself biology.
doi.org/10.1038/s415...
August 21, 2026 at 7:08 AM
A pathway can look different depending on where in the cell you measure it.
A new live-cell Ras biosensor found slower endogenous Ras activation at the Golgi than at the plasma membrane after EGF.
That spatial difference is itself biology.
doi.org/10.1038/s415...
A new live-cell Ras biosensor found slower endogenous Ras activation at the Golgi than at the plasma membrane after EGF.
That spatial difference is itself biology.
doi.org/10.1038/s415...
200.8 volumes/s sounds like a microscope specification.
But voltage signals unfold on millisecond timescales.
Should adaptive microscopy aim for maximum acquisition speed, or dynamically match its speed to the biology being observed?
doi.org/10.1038/s415...
#RTSuperES
But voltage signals unfold on millisecond timescales.
Should adaptive microscopy aim for maximum acquisition speed, or dynamically match its speed to the biology being observed?
doi.org/10.1038/s415...
#RTSuperES
August 20, 2026 at 8:01 AM
200.8 volumes/s sounds like a microscope specification.
But voltage signals unfold on millisecond timescales.
Should adaptive microscopy aim for maximum acquisition speed, or dynamically match its speed to the biology being observed?
doi.org/10.1038/s415...
#RTSuperES
But voltage signals unfold on millisecond timescales.
Should adaptive microscopy aim for maximum acquisition speed, or dynamically match its speed to the biology being observed?
doi.org/10.1038/s415...
#RTSuperES
A lesson from AI4Life: bioimage AI can be limited less by missing models than by data, annotations and shared infrastructure.
The new preprint includes RT-SuperES partners Anna Kreshuk and Ricardo Henriques.
www.biorxiv.org/content/10.6...
The new preprint includes RT-SuperES partners Anna Kreshuk and Ricardo Henriques.
www.biorxiv.org/content/10.6...
August 19, 2026 at 12:14 PM
A lesson from AI4Life: bioimage AI can be limited less by missing models than by data, annotations and shared infrastructure.
The new preprint includes RT-SuperES partners Anna Kreshuk and Ricardo Henriques.
www.biorxiv.org/content/10.6...
The new preprint includes RT-SuperES partners Anna Kreshuk and Ricardo Henriques.
www.biorxiv.org/content/10.6...
What makes an AI microscopy reconstruction successful?
A convincing image is not enough if the biological signal used for analysis has changed.
Should we evaluate reconstruction by visual similarity, or by whether downstream measurements remain correct?
#RTSuperES
A convincing image is not enough if the biological signal used for analysis has changed.
Should we evaluate reconstruction by visual similarity, or by whether downstream measurements remain correct?
#RTSuperES
August 18, 2026 at 7:23 AM
What makes an AI microscopy reconstruction successful?
A convincing image is not enough if the biological signal used for analysis has changed.
Should we evaluate reconstruction by visual similarity, or by whether downstream measurements remain correct?
#RTSuperES
A convincing image is not enough if the biological signal used for analysis has changed.
Should we evaluate reconstruction by visual similarity, or by whether downstream measurements remain correct?
#RTSuperES
How far into a sample can nanoscale resolution survive?
A new preprint reports 37 nm lateral resolution at 200 µm depth with ISES nanoscopy, combining emission saturation, image scanning and Fourier-domain fusion.
arxiv.org/abs/2608.00456
#RTSuperES
A new preprint reports 37 nm lateral resolution at 200 µm depth with ISES nanoscopy, combining emission saturation, image scanning and Fourier-domain fusion.
arxiv.org/abs/2608.00456
#RTSuperES
August 17, 2026 at 6:59 AM
How far into a sample can nanoscale resolution survive?
A new preprint reports 37 nm lateral resolution at 200 µm depth with ISES nanoscopy, combining emission saturation, image scanning and Fourier-domain fusion.
arxiv.org/abs/2608.00456
#RTSuperES
A new preprint reports 37 nm lateral resolution at 200 µm depth with ISES nanoscopy, combining emission saturation, image scanning and Fourier-domain fusion.
arxiv.org/abs/2608.00456
#RTSuperES
The smarter microscopes become, the more microscopy judgement matters.
Automation cannot compensate for an artefact, poor sample preparation or the wrong imaging method.
Our experimental judgement increasingly has to become part of the acquisition logic.
#RTSuperES
Automation cannot compensate for an artefact, poor sample preparation or the wrong imaging method.
Our experimental judgement increasingly has to become part of the acquisition logic.
#RTSuperES
August 16, 2026 at 12:08 PM
The smarter microscopes become, the more microscopy judgement matters.
Automation cannot compensate for an artefact, poor sample preparation or the wrong imaging method.
Our experimental judgement increasingly has to become part of the acquisition logic.
#RTSuperES
Automation cannot compensate for an artefact, poor sample preparation or the wrong imaging method.
Our experimental judgement increasingly has to become part of the acquisition logic.
#RTSuperES
Myelin is not as static as it looks.
Live imaging reveals organelles moving through cytoplasmic routes within myelin, with peroxisome motility changing with neuronal activity.
The authors call this transport network TRAM.
doi.org/10.1038/s415...
#RTSuperES
Live imaging reveals organelles moving through cytoplasmic routes within myelin, with peroxisome motility changing with neuronal activity.
The authors call this transport network TRAM.
doi.org/10.1038/s415...
#RTSuperES
August 14, 2026 at 6:02 AM
Myelin is not as static as it looks.
Live imaging reveals organelles moving through cytoplasmic routes within myelin, with peroxisome motility changing with neuronal activity.
The authors call this transport network TRAM.
doi.org/10.1038/s415...
#RTSuperES
Live imaging reveals organelles moving through cytoplasmic routes within myelin, with peroxisome motility changing with neuronal activity.
The authors call this transport network TRAM.
doi.org/10.1038/s415...
#RTSuperES
Smart microscopy can start before acquisition.
@henriqueslab.bsky.social’s VLab4Mic lets researchers test labels and imaging modalities computationally before going to the microscope.
Better decisions before an experiment can complement adaptive decisions during it.
vlab4mic.henriqueslab.org
@henriqueslab.bsky.social’s VLab4Mic lets researchers test labels and imaging modalities computationally before going to the microscope.
Better decisions before an experiment can complement adaptive decisions during it.
vlab4mic.henriqueslab.org
August 13, 2026 at 3:32 PM
Smart microscopy can start before acquisition.
@henriqueslab.bsky.social’s VLab4Mic lets researchers test labels and imaging modalities computationally before going to the microscope.
Better decisions before an experiment can complement adaptive decisions during it.
vlab4mic.henriqueslab.org
@henriqueslab.bsky.social’s VLab4Mic lets researchers test labels and imaging modalities computationally before going to the microscope.
Better decisions before an experiment can complement adaptive decisions during it.
vlab4mic.henriqueslab.org
Should fluorescence always be the surveillance channel?
If a gentler modality can monitor the sample, perhaps fluorescence is better reserved for moments when molecular specificity is needed.
Should choosing the imaging modality itself become an adaptive decision?
#RTSuperES
If a gentler modality can monitor the sample, perhaps fluorescence is better reserved for moments when molecular specificity is needed.
Should choosing the imaging modality itself become an adaptive decision?
#RTSuperES
August 13, 2026 at 7:46 AM
Should fluorescence always be the surveillance channel?
If a gentler modality can monitor the sample, perhaps fluorescence is better reserved for moments when molecular specificity is needed.
Should choosing the imaging modality itself become an adaptive decision?
#RTSuperES
If a gentler modality can monitor the sample, perhaps fluorescence is better reserved for moments when molecular specificity is needed.
Should choosing the imaging modality itself become an adaptive decision?
#RTSuperES
In live-cell super-resolution, the label is part of the imaging system.
A new preprint uses fluorogenic dyes and reversible HaloTag ligands for protein-based live-cell PAINT, including two-colour super-resolution.
doi.org/10.64898/202...
#RTSuperES
A new preprint uses fluorogenic dyes and reversible HaloTag ligands for protein-based live-cell PAINT, including two-colour super-resolution.
doi.org/10.64898/202...
#RTSuperES
August 12, 2026 at 5:33 AM
In live-cell super-resolution, the label is part of the imaging system.
A new preprint uses fluorogenic dyes and reversible HaloTag ligands for protein-based live-cell PAINT, including two-colour super-resolution.
doi.org/10.64898/202...
#RTSuperES
A new preprint uses fluorogenic dyes and reversible HaloTag ligands for protein-based live-cell PAINT, including two-colour super-resolution.
doi.org/10.64898/202...
#RTSuperES