Reto Fiolka @RetoPaul Twitter profile

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Reto Fiolka

@RetoPaul

4 years

We have submitted a manuscript yesterday... Sneak peak of ‘natural born killer’ cell at work, courtesy of @alexcarisey .

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Reto Fiolka

@RetoPaul

7 years

Okay, one more actin movie for the weekend, neuron growth cone, imaged with #3DSIM a while back when I was at @HHMIJanelia . Crazy dynamics!

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Reto Fiolka

@RetoPaul

2 years

We present light-sheet microscopy combined with structured illumination. This enables rapid volumetric imaging in a light-sheet format with doubled resolution. This will need a few tweets to discuss the details... 1/n

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Reto Fiolka

@RetoPaul

7 years

Actin in a HeLa cell. I imaged this cell with the #3DSIM system I built at @HHMIJanelia which is now available at the @AICjanelia .

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Reto Fiolka

@RetoPaul

1 year

Important change in our department: You can earn $91k as a postdoc in your first year in @LHBioinf_UTSW if you get a fellowship.

Lyda Hill Department of Bioinformatics

@LHBioinf_UTSW

1 year

Starting this Fall, we have comprehensively revised our #PostDoc pay plan. Base salary $70K + incentives & bonuses for mentored teaching & getting grants. Concrete steps towards showing our appreciation for our PostDoc workforce. #NPAW

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Reto Fiolka

@RetoPaul

3 years

We present rapid projection imaging under variable viewing angles. We apply this method in light-sheet and spinning disk microscopy to visualize 3D samples in real time. We further demonstrate that 3D information can be gathered from a set of projections.

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Reto Fiolka

@RetoPaul

2 years

We present doubled resolution in light-sheet microscopy via multi-directional structured illumination. This enables SIM imaging at 1Hz volume rate of subcellular dynamics.

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Reto Fiolka

@RetoPaul

7 years

Mitochondria labeled with mitotracker green imaged with 3D SIM. Substructures within the organelles are clearly visible.

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Reto Fiolka

@RetoPaul

7 years

@Oxfordni @patrina_pellett 2700 frames/s (corresponding to a single frame exposure of 370 microseconds) on our fast light-sheet system to follow action potentials in 3D.

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Reto Fiolka

@RetoPaul

7 years

Cell migration in 3D collagen imaged over 12h with #ASLM : Epithelial to mesenchymal transition shows some fascinating cellular dynamics.

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Reto Fiolka

@RetoPaul

6 years

We present #FieldSynthesis , a new mathematical theorem, with applications for light-sheets: below: same time-averaged light-sheet, same initial fluorescence signal, different rates of photobleaching between conventional and Field synthesis approach.

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Reto Fiolka

@RetoPaul

3 years

This is nuts! With this optical unit, you can multiply the scan rate of a galvo (or any optical scanner) with the number of lenslets. In their work, a 16kHz resonant galvo becomes a 592khz scanner with a 37 lenslet pair! Wow!! By Jerome Mertz' group:

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Reto Fiolka

@RetoPaul

4 years

Our manuscript on oblique plane microscopy with high spatiotemporal resolution is now available in its full version: Good timing for the roll-out, I would say. CC: @kD3AN @amsikking @AndrewGYork @jenscs83 @Samanthastehbe2 @DougPShepherd @Bin_YANG_Optics

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Reto Fiolka

@RetoPaul

3 years

Microscope core facility directors may relate...

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Reto Fiolka

@RetoPaul

2 years

I find this overlay of Expansion microscopy and EM data of the centriole quite stunning, and also beautiful. Well done, @GonczyLab !

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Reto Fiolka

@RetoPaul

2 years

Our latest manuscript about increasing the field of view in oblique plane microscopy using a two-dimensional scanning approach: By @bingy_C , in collaboration with @AndrewGYork and @amsikking . Here are some Keratinocytes labeled for Keratin.

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Reto Fiolka

@RetoPaul

5 years

Cleared tissue ASLM is online: It enables isotropic, subcellular resolution over large field of views and is compatible with all clearing techniques (n=1.33-1.559). We use ctASLM to image mouse brains, kidneys and bone marrow. Image shows stem cell niche.

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Reto Fiolka

@RetoPaul

4 years

Manuscript submitted. Grab your 3D glasses, we are going live and pro! pro: shorthand for projection mode, enabling real time sample viewing under variable angles.

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Reto Fiolka

@RetoPaul

4 years

@kareem_carr Is this normal?

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Reto Fiolka

@RetoPaul

4 years

Anti-goat antibodies, visualized.

James Parker

@panoparker

4 years

Today I learned that aggressive baby goats have to wear horn noodles to avoid hurting each other

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Reto Fiolka

@RetoPaul

10 months

We present projective oblique plane structured illumination microscopy (POPSIM): POPSIM allows imaging of an entire cell under structured illumination using nine 2D projections, and as such presents a rapid alternative to conventional 3D stacking in SIM.

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Reto Fiolka

@RetoPaul

2 years

With over 120 light-sheet fluorescence microscopy (LSFM) techniques, I would not go as far as saying “everything LSFM” is in it. We tried to be comprehensive, but our draft turned out far too long and had to be cut down quite a bit. Apologies to any technique we left out.

Nature Reviews Methods Primers

@MethodsPrimers

2 years

Everything you need to know about light-sheet fluoresence microscopy - from fundamental concepts to applications across the life sciences, and a discussion on enhancing resolution and imaging depth. @bojuichang @FritzPreusser @preibischs @RetoPaul

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Reto Fiolka

@RetoPaul

3 years

Xmas present idea for SIM aficionados!

Gonzalo de Polavieja

@dePolavieja

3 years

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Reto Fiolka

@RetoPaul

10 months

Our mesoscopic oblique plane microscope is online: It enables rapid volumetric imaging of a whole zebrafish embryo with ~2.3 micron lateral resolution. This is enabled by merging a couple of optical innovations and tricks. 1/N

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Reto Fiolka

@RetoPaul

1 year

Mitochondria in an U2OS cell, provided by @madeleinemarlar . Color coded for height.

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Reto Fiolka

@RetoPaul

5 years

We present axially swept light sheet microscopy (ASLM) for cleared tissue imaging. It combines a large field of view with submicron x-y-z resolution across a wide refractive index range. Its isotropic resolution is helpful for computer vision applications.

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Reto Fiolka

@RetoPaul

6 years

We present a new Fourier theorem, its mathematical proof and applications to light-sheet microscopy. We leverage the 'Field Synthesis' theorem to re-create dithered lattice light-sheets more efficiently and with less complexity.

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Reto Fiolka

@RetoPaul

3 years

This reminded me of the colorful Axon SMLM images from ⁦ @christlet ⁩ . I could not find periodic spectrin or actin structures though.

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Reto Fiolka

@RetoPaul

5 years

News and views article on latest development in single objective light-sheet microscopy: I am really fascinated by this, single objective LSFM got transformed from medium to high resolution imaging! (CC @Bin_YANG_Optics , @AndrewGYork , @amsikking ).

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Reto Fiolka

@RetoPaul

1 year

This meal cost me $15,005 at Nikon. This is why Americans think the diffraction barrier is terrible.

David Brooks

@nytdavidbrooks

1 year

This meal just cost me $78 at Newark Airport. This is why Americans think the economy is terrible.

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Reto Fiolka

@RetoPaul

1 year

@Quasilocal That reminds me of an add by a Swiss political party, whose fit of immigration data predicted that by 2030, 150% of Swiss population would be foreigners. It was a full page add.

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Reto Fiolka

@RetoPaul

1 year

This is my 10 year anniversary @UTSWnews . I had started as an instructor, and after getting my first grant I established my own lab in 2016. I am grateful for the support by @slschmid_CZB and @gdanuser1 , and all the inspiring colleagues I have the privilege to work with.

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Reto Fiolka

@RetoPaul

4 years

Happy to see Mr. Snouty out in @eLife !

eLife - the journal

@eLife

4 years

Researchers have developed a new single-objective light-sheet microscope and demonstrate its unparalleled resolution on a range of biological phenomena that would usually be challenging or even impossible to image in this way

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Reto Fiolka

@RetoPaul

1 year

@girlscientist

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Reto Fiolka

@RetoPaul

4 years

Came to US under J1, then H1B. I have submitted 6 patent applications, 20 research papers, employed half a dozen of people, helped establishing two advanced imaging centers, been involved in research programs for cancer and neurodegenerative diseases... Please give us a chance.

Jeremy Liew

@jeremysliew

4 years

I came to the US on an h1b visa. I’d like to think I’ve been a net positive for the country. RT if you or a family member are also an immigrant who has been net positive for the US

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Reto Fiolka

@RetoPaul

3 years

How much power did you use...

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Reto Fiolka

@RetoPaul

3 years

@bojuichang and I are looking forward to present work that has been ~10 years in the making: How to combine Light-sheet and structured illumination microscopy. I will show our first results this Thursday at 15:50 – 16:05 CET #EESimaging .

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Reto Fiolka

@RetoPaul

1 year

#FOM2023 I will present a new imaging technique, termed confocal projections, where one can flexibly adjust the depth and axial location of a projection. left: our previous projection technique right: confocal projection

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Reto Fiolka

@RetoPaul

5 months

I had to take a thyroid ultrasound today, should I be concerned? #MedTwitter #Imaging

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Reto Fiolka

@RetoPaul

5 months

We present projection imaging with parameter selection (PROPS) for light-sheet microscopy. With PROPS, we can control the depth and location of a projection, and optically unwrap a curved surface, here of a drosophila embryo. Invention by @bingy_C !

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Reto Fiolka

@RetoPaul

2 years

#FOM2022 Wednesday, SR8: Other SR Modes, 14:25-14:40. I will present our efforts to combine structured illumination with light-sheet microscopy, advantageously but not too painfully.

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Reto Fiolka

@RetoPaul

6 months

We present oblique plane microscopy with adaptive optics (AO): One deformable mirror corrects both the light-sheet and the fluorescence detection. Movie shows cancer cells in a zebrafish xenograft model, before and after application of AO.

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Reto Fiolka

@RetoPaul

2 years

Field of view extension in oblique plane microscopy: We leverage the native field of view of a NA 1.1 /25X lens by funneling it through the tertiary imaging system via optical tiling. In collaboration with @AndrewGYork @amsikking

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Reto Fiolka

@RetoPaul

5 years

Always wanted some Xmas lights. At least we have a microscope edition. Only missing some music...

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Reto Fiolka

@RetoPaul

3 years

Live cell imaging.

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Reto Fiolka

@RetoPaul

3 years

The lies we tell ourselves...

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Reto Fiolka

@RetoPaul

10 months

Wobble wobble! Happy Thanksgiving to all my optics, microscopy, imaging and other shenanigans followers!

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Reto Fiolka

@RetoPaul

4 years

We present a new spin on extended depth of focusing in 2 photon microscopy. We use the phase mask form @FourierPower in reverse, and with ultrafast laser pulses instead of fluorescence: simple, high light-throughput, achromatic and pulse multiplexing.

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Reto Fiolka

@RetoPaul

1 year

We present a meso Oblique plane microscope. A microprism below the sample tilts the sheet, improving resolution and sectioning with a low magnification objectives. We analyzed blood flow in zebrafish embryos at 12Hz.

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Reto Fiolka

@RetoPaul

9 months

Monomeric StayGold: the go-to green fluorescent protein?

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Reto Fiolka

@RetoPaul

2 years

Y'all, this is nuts, you can keep zooming past 0.01 lightyears and still see stuff 😎.

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Reto Fiolka

@RetoPaul

5 years

We are happy to present a new spin on remote focusing. Our method converts lateral scanning into axial refocusing. We demonstrate spherical-aberration-free remote focusing at a rate of 12kHz and speed up ASLM imaging by one order of magnitude.

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Reto Fiolka

@RetoPaul

2 years

I met over zoom with Eric Betzig and @gokul_upad to discuss their latest paper. They patiently walked me through it, and we discussed areas where we had differing views. To me it was very helpful to have this exchange, so I am glad it happened.

Characterization, Comparison, and Optimization of Lattice Light Sheets

Lattice light sheet microscopy excels at the non-invasive imaging of three-dimensional (3D) dynamic processes at high spatiotemporal resolution within cells and developing embryos. Recently, several...

www.biorxiv.org

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Reto Fiolka

@RetoPaul

3 years

After a long day of imaging...

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Reto Fiolka

@RetoPaul

3 years

Structured illumination microscopy Light-show.

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Reto Fiolka

@RetoPaul

9 months

Todays work was a bit scary, ~10 micron remaining working distance (or free space) between O2 and O3. But it worked out, 🇨🇭precision.

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Reto Fiolka

@RetoPaul

6 years

Scaled up point spread functions (20k :1) and an antibody on the right. Thanks to Ian Dobbie for sharing this! This should be useful teaching tools!

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Reto Fiolka

@RetoPaul

2 years

Structured illumination with 4 beam interference by mirroring the zero order beam. Very impressive work by the lab of Hari Shroff. I did not believe this would be possible, as closing the OTF gaps appeared hard. I am very excited that they pulled it off!

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Reto Fiolka

@RetoPaul

7 months

We have an open position for a postdoctoral researcher. If you are interested in building optical microscopes and applying 3D imaging at the interface of cancer cell biology and computer vision, please apply.

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Reto Fiolka

@RetoPaul

3 years

Collagen jungle, scale bar 10 microns.

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Reto Fiolka

@RetoPaul

4 years

The projections are computed optically, no numerical processing is needed and it goes fast. So you can watch them live on the camera stream, or also via eye-pieces.

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Reto Fiolka

@RetoPaul

2 years

An X-ray "light"-sheet microscope: The sheet is < 130 nm thick over a ~400 µm × 400 µm FOV and excites nanoparticles emitting in the visible. Since LLSM already claims the term ultra-thin sheets, I am not sure what to call those. Hyper-ultra-thin?

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Reto Fiolka

@RetoPaul

3 years

The struggles with live cell imaging.

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Reto Fiolka

@RetoPaul

1 year

#FluorescenceFriday Vasculature in Zebrafish, imaged with a diffractive OPM, inspired by @benjulab and Maximilian Hoffman. I like it, captures entire embryo up to 5DPF at ~1Hz, resolution good enough to see nuclei of endothelial cells in this example.

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Reto Fiolka

@RetoPaul

1 year

#FOM2023 I would like to thank the organizers for giving me the opportunity to present our work remotely. I would have loved to discuss the ideas in person, but happy to reply to any questions over e-mail, twitter, zoom chat or other means.

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Reto Fiolka

@RetoPaul

1 year

#FluorescenceFriday Blood flow in a zebrafish embryo, imaged at two volumes per second. (Heavily down-sampled, twitter did not like the original size of 3000x800 pixels).

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Reto Fiolka

@RetoPaul

5 years

Congratulations to Meghan Driscoll, her 3D morphological motif detector (u-shape3D) is now out as an advanced online publication: Another step towards making sense of the light-sheet data deluge.

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Reto Fiolka

@RetoPaul

4 years

Our work to speed up spherical-aberration free remote focusing is now published in @LightSciAppl : We have added two photon imaging with 12 kHz axial scan rate in the revision. Congrats to @TonmoyC59869398 , Bingying Chen, @Daetwyler_St @bojuichang @kD3AN

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Reto Fiolka

@RetoPaul

1 year

Blood flow in a Zebrafish embryo, imaged at 10Hz. Imaged with @Daetwyler_St on the meso OPM. Downsampled as a courtesy of twitter (original video is 3200x700 pixels and 100 frames long).

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Reto Fiolka

@RetoPaul

3 years

We are honored that our projection imaging technique is highlighted on the blog of ⁦⁦ @NIHDirector ⁩ Dr. Francis Collins. We are grateful to ⁦⁦⁦ @NIGMS ⁩ to fund this exploratory instrument development. ⁦ @UTSWNews ⁩

New Microscope Technique Provides Real-Time 3D Views

Most of the “cool” videos shared on my blog are borne of countless hours behind a microscope. Researchers must move a biological sample through a microscope’s focus, slowly acquiring hundreds of hi…

directorsblog.nih.gov

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Reto Fiolka

@RetoPaul

4 years

Our analysis of Gaussian and square lattice light-sheets is published in @OSAPublishing : We found that square lattices are similar to Gaussian-based light-sheets in terms of thickness, confocal parameter and point-spread functions. @kD3AN @bojuichang

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Reto Fiolka

@RetoPaul

10 months

Check out the mainframe of our latest meso SPIM for 100X mouse expansion microscopy. @voigtvision

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Reto Fiolka

@RetoPaul

4 years

Never transfected cells in my career, but today I put mRNA in some muscle cells, following the protocol by @KizzyPhD et al. Not happy about the ethics (I.e. that I was already eligible, but so many others outside of our institution are not), but grateful to have gotten it.

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Reto Fiolka

@RetoPaul

7 months

As an update, my car can now be retired.

Reto Fiolka

@RetoPaul

11 months

Redneck tire repair. Car only has to make till my tenure decision. Then either there will be a new used car, or in case of no tenure, I won’t need a car anymore.

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Reto Fiolka

@RetoPaul

1 year

#FOM2023 Today at 14:00 I will present in Superresolution III: Projective structured illumination microscopy. Projection imaging with doubled resolution, and selectable projection depth and axial position. First time this will be shown, and these are new capabilities, AFAIK.

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Reto Fiolka

@RetoPaul

5 years

Ten years ago, on Thanksgiving, I arrived in the US. I underestimated the importance of the holiday and found myself stranded at Janelia research campus. Security was supposed to leave me a key, but there was nobody to be found. It was kinda cold and I got a bit desperate..1/n

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Reto Fiolka

@RetoPaul

4 years

Deconvolved one of the Neuron datasets taken with Mr. Snouty. This guy was not in a mood to fire much:(.

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Reto Fiolka

@RetoPaul

3 years

#OSABiophotonics21 I will present rapid multi angle projection imaging in NW4C • Super-resolution I; Apr 14, 2021 17:00 PCT. Video shows blood flow in a zebrafish embryo, projected over a depth of 100 microns, imaged by @bingy_C at 10ms exposure time under two viewing angles.

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Reto Fiolka

@RetoPaul

5 years

#EESImaging @EMBLevents I will present the latest data from Mr. Snouty (single objective light-sheet microscope), including microfluidics, various cancer cells, optogenetics and ASLM for larger volume imaging. First public showing (not even tweeted).

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Reto Fiolka

@RetoPaul

1 year

With @bojuichang and @DougPShepherd we present: Projective oblique plane structured illumination microscopy (POPSIM). We combine light-sheet, structured illumination and projection imaging to capture an entire cell in a 2D view at doubled resolution.

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Reto Fiolka

@RetoPaul

2 years

Blog post about our ASLM protocol, a technique that allows light-sheet imaging of large samples with isotropic (i.e. the same in any spatial direction) resolution.

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Reto Fiolka

@RetoPaul

5 years

#EESImaging @EMBLEvents Now Harald Hess blows our minds with their cryo SIM/PALM and FIB SEM imaging. Optical imaging at ~8K to exploit exotic photo-physics and FIB SEM for 3D ultrastructure. Heroic efforts by the team at Janelia and collaborators!

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Reto Fiolka

@RetoPaul

3 years

Behold the king of snouts!

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Reto Fiolka

@RetoPaul

3 years

30 years later and people are digging it.

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Reto Fiolka

@RetoPaul

4 years

"Extended depth of focus multiphoton microscopy via incoherent pulse splitting" is online, including a proof that the focus extension scales linearly with the number of annuli: Congrats Bingying, @TonmoyC59869398 , @Daetwyler_St , @JamesDManton and @kD3AN !

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Reto Fiolka

@RetoPaul

3 years

Lattice light-sheet microscopy with interferometric (4Pi) detection by Bin Cao et al: My thoughts on this manuscript are published here:

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Reto Fiolka

@RetoPaul

6 years

#ASCBEMBO18 I will present a poster on Field Synthesis, a novel way to generate light-sheets, including dithered lattices. There are some advantages to use the Field Synthesis approach and I am looking forward to a lively discussion. Monday, Board Number: B59 12:00pm to 1:30pm

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Reto Fiolka

@RetoPaul

7 years

Vasculature in the hindbrain of a zebrafish imaged at isotropic 350nm resolution with our two-photon Bessel beam light sheet microscope. Volume measures 160x176x100 microns. Maximum intensity projection of raw data.

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Reto Fiolka

@RetoPaul

2 years

We discuss theory, comparisons to other techniques, applications, alignment and practical tips about axially swept light-sheet microscopy: in collaboration with @kD3AN @voigtvision @Daetwyler_St @TonmoyC59869398 et al Brief tweetorial of the protocol 1/n

Isotropic imaging across spatial scales with axially swept light-sheet microscopy

Nature Protocols - This protocol describes the working principle and implementation of axially swept light-sheet microscopy, which can image subcellular features at organ scales in 3D. It discusses...

www.nature.com

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Reto Fiolka

@RetoPaul

3 years

@tomdalynh Rest of the worlds: let’s order units in increasing or decreasing order of magnitude. US:

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Reto Fiolka

@RetoPaul

4 years

Worried about cell migration? In collaborative work @ErikWelf , Meghan Driscoll, @vasanth1786 , @roh_johnson_lab , @MuthrNaturzSon , @kD3AN ⁦ @gdanuser1 ⁩ et al describe a new mechanism where cells bust their way through the ECM with polarized blebbing.

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Reto Fiolka

@RetoPaul

2 years

Microscopists can relate: running out of working distance!

Scott Manley

@DJSnM

2 years

We have arrived

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Reto Fiolka

@RetoPaul

1 year

I have not taken vacation for a year, as I wanted to get some work done. That has not worked out well (2 grants rejected, unable to wrap up manuscripts). Low on motivation right now, so "write a paragraph for a tweet" rule comes to the rescue. (Pictures and memes welcome too.)

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Reto Fiolka

@RetoPaul

3 years

Please send some of your favorite pictures (microscopy, astronomy, pets/animals, landscapes, clouds, airplanes,..). I am not in a good spot right now and would appreciate something to cheer up/distract.

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Reto Fiolka

@RetoPaul

2 years

As a half-Finn, I would say one should judge the Prime minister by her performance record. Under her and president Niinistö's leadership, Finland navigated the Pandemic well and the country is poised to join NATO. Such things are relevant for discussion, not her private life.

Janne M. Korhonen

@jmkorhonen

2 years

A short explainer to the "scandal" of Finnish prime minister Sanna Marin partying, for those who don't read Finnish. 1. Someone had leaked a video of Marin dancing with her friends.

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Reto Fiolka

@RetoPaul

2 years

How is your Friday going...

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Reto Fiolka

@RetoPaul

1 year

#FOM2023 I will present projective oblique plane structured illumination microscopy (POPSIM). You can project a cell into a 2D plane, and perform Gustafssonian SIM. Combined with confocal projections, you can further choose how much of the cell you project and do SIM on.

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Reto Fiolka

@RetoPaul

6 months

The self driving multi-scale microscope from @Daetwyler_St is now on BioRxiV: Here some immune - cancer cell interactions. The whole Zebrafish is imaged as well during this time lapse acquisition.

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Reto Fiolka

@RetoPaul

2 years

Congrats @MuthrNaturzSon and everyone involved on elucidating how blebs help cancer cells avoid anoikis (cell death when losing attachment). Study involves 3D microscopy, and doing math on cell surfaces, courtesy of the @DanuserLab computer vision wizards.

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Reto Fiolka

@RetoPaul

5 months

@howie_hua No solution, but on the positive side: Euler and the 7 bridges of Königsberg brought us graph theory.

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