Nicolas Denans
@nicolasdenans.bsky.social
Scientist- Jack of all trades - Interest in #microscopy #immunology #devbio
Reposted by Nicolas Denans
🧪 We are excited to share this novel open access paper on Phasor Mixing Coefficient to analyze colocalization, developed by folks @i2janelia.bsky.social and @aicjanelia.bsky.social. This is also the first technical paper jointly published with our sister imaging center @malacridalab.bsky.social!
January 28, 2026 at 4:20 PM
🧪 We are excited to share this novel open access paper on Phasor Mixing Coefficient to analyze colocalization, developed by folks @i2janelia.bsky.social and @aicjanelia.bsky.social. This is also the first technical paper jointly published with our sister imaging center @malacridalab.bsky.social!
Wow, @erturklab.bsky.social team did it again! Bringing science fiction to the real world 👋👋
Most transcriptomics studies sample ~0.001% of a mouse. Which region do we choose? Often: we guess.
Meet DISCO-seq 🤗 flipping the order: RNA-preserving clearing → whole-organ/whole-body 3D imaging → pick ROIs in 3D → unbiased scRNA-seq.
Preprint: www.biorxiv.org/content/10.6...
Meet DISCO-seq 🤗 flipping the order: RNA-preserving clearing → whole-organ/whole-body 3D imaging → pick ROIs in 3D → unbiased scRNA-seq.
Preprint: www.biorxiv.org/content/10.6...
December 18, 2025 at 3:01 PM
Wow, @erturklab.bsky.social team did it again! Bringing science fiction to the real world 👋👋
really cool, congrats! #microscopy
New paper out! Combining single-objective light-sheet microscopy and time-resolved SPAD array detection, we massively accelerate fluorescence lifetime imaging (FLIM) compared to confocal FLIM, making FLIM applicable to 3D specimen such as organoids and embryos.
www.nature.com/articles/s42...
www.nature.com/articles/s42...
December 16, 2025 at 7:05 PM
really cool, congrats! #microscopy
Reposted by Nicolas Denans
Getting started with analysis can be daunting, especially given the many tools available. In our latest @focalplane.bsky.social post, @scientistrachel.bsky.social & Owen Puls discuss framing analysis questions to extract informative biological information. focalplane.biologists.com/2025/12/15/h...
How do I get started with image analysis? - FocalPlane
How do I get started with image analysis? - AIC at HHMI Janelia
focalplane.biologists.com
December 15, 2025 at 2:29 PM
Getting started with analysis can be daunting, especially given the many tools available. In our latest @focalplane.bsky.social post, @scientistrachel.bsky.social & Owen Puls discuss framing analysis questions to extract informative biological information. focalplane.biologists.com/2025/12/15/h...
Pretty cool tool! Would have been extremely useful during my academic career. #Microscopy
Pleased to say that Jonas Hartmann (bs-less) and I have finally released DySTrack (“diss track”) - Dynamic Sample Tracking.
It’s a Python-based, modular tool that brings smart microscopy to everyday imaging on commercial systems.
Preprint: www.biorxiv.org/content/10.6...
[1/6]
It’s a Python-based, modular tool that brings smart microscopy to everyday imaging on commercial systems.
Preprint: www.biorxiv.org/content/10.6...
[1/6]
December 8, 2025 at 2:02 PM
Pretty cool tool! Would have been extremely useful during my academic career. #Microscopy
Reposted by Nicolas Denans
📢Did you know that researchers from around the world can apply for access to the latest microscopy technology & expert advice @aicjanelia.bsky.social?
In this blog series, the AIC team will give us an insight into how the Center works & their global impact.
focalplane.biologists.com/2025/11/20/a...
In this blog series, the AIC team will give us an insight into how the Center works & their global impact.
focalplane.biologists.com/2025/11/20/a...
AIC at HHMI Janelia
Introduction to the AIC at HHMI Janelia blog on FocalPlane
focalplane.biologists.com
November 24, 2025 at 1:42 PM
📢Did you know that researchers from around the world can apply for access to the latest microscopy technology & expert advice @aicjanelia.bsky.social?
In this blog series, the AIC team will give us an insight into how the Center works & their global impact.
focalplane.biologists.com/2025/11/20/a...
In this blog series, the AIC team will give us an insight into how the Center works & their global impact.
focalplane.biologists.com/2025/11/20/a...
Reposted by Nicolas Denans
ahem, ONE of THE chemical biology conferences of 2026:) www.janelia.org/you-janelia/...
Chemical Tools for Complex Biological Systems IV
Organizers Luke Lavis, HHMI/Janelia Research Campus Matthew Bogyo, Stanford University Zev Gartner, University of California, San Francisco Jennifer Prescher, University of California, Irvine
www.janelia.org
November 11, 2025 at 6:03 PM
ahem, ONE of THE chemical biology conferences of 2026:) www.janelia.org/you-janelia/...
Another #FluorescenceFriday contribution for #Halloween a dive inside zebrafish vasculature
October 31, 2025 at 8:37 PM
Another #FluorescenceFriday contribution for #Halloween a dive inside zebrafish vasculature
For #SpookyMicroscopyFriday I present the mugshot of the head of the zebrafish mafia
October 31, 2025 at 12:49 PM
For #SpookyMicroscopyFriday I present the mugshot of the head of the zebrafish mafia
Reposted by Nicolas Denans
Our team is hard at work preparing for #InsightFromImaging 2025! We can't wait to welcome HHMI #HannaGrayFellows to @hhmijanelia.bsky.social next week for lectures, hands-on labs, and activities focused on designing informative and quantitative bioimaging experiments 🔬
October 27, 2025 at 5:24 PM
Our team is hard at work preparing for #InsightFromImaging 2025! We can't wait to welcome HHMI #HannaGrayFellows to @hhmijanelia.bsky.social next week for lectures, hands-on labs, and activities focused on designing informative and quantitative bioimaging experiments 🔬
For #MicroscopyMonday a cleared mouse embryos labeled with an antibody targeting neurofilaments (2H3, DSHB) @hhmijanelia.bsky.social @aicjanelia.bsky.social
October 20, 2025 at 5:19 PM
For #MicroscopyMonday a cleared mouse embryos labeled with an antibody targeting neurofilaments (2H3, DSHB) @hhmijanelia.bsky.social @aicjanelia.bsky.social
for #FluorescenceFriday : is your ExM sample too large to be imaged with high NA objectives? VIPS it! Very clever way to tackle one of the biggest challenge in large volumetric ExM www.science.org/doi/10.1126/...
Mesoscale volumetric fluorescence imaging at nanoscale resolution by photochemical sectioning
Optical nanoscopy of intact biological specimens has been transformed by recent advancements in hydrogel-based tissue clearing and expansion, enabling the imaging of cellular and subcellular structure...
www.science.org
October 17, 2025 at 12:29 PM
for #FluorescenceFriday : is your ExM sample too large to be imaged with high NA objectives? VIPS it! Very clever way to tackle one of the biggest challenge in large volumetric ExM www.science.org/doi/10.1126/...
The WB-ExM protocol described here works with.... every sample we tested! Here a 3do quail embryo (white= pan-protein; red=MF20) www.biorxiv.org/content/10.1...
September 19, 2025 at 7:39 PM
The WB-ExM protocol described here works with.... every sample we tested! Here a 3do quail embryo (white= pan-protein; red=MF20) www.biorxiv.org/content/10.1...
Reposted by Nicolas Denans
Today was a super fun first day of imaging @aicjanelia.bsky.social with @vanderspuy.bsky.social and @samarar.bsky.social.
All hail the quail!🧪🔬#DevBio
All hail the quail!🧪🔬#DevBio
July 21, 2025 at 11:44 PM
Today was a super fun first day of imaging @aicjanelia.bsky.social with @vanderspuy.bsky.social and @samarar.bsky.social.
All hail the quail!🧪🔬#DevBio
All hail the quail!🧪🔬#DevBio
Reposted by Nicolas Denans
🧠 Excited by synapse-level brain mapping? Join us at a world-class institute to build molecular tools based on our new #LICONN work — and push the frontier of #MolecularConnectomics. Let’s decode the brain, one synapse at a time.
hhmi.wd1.myworkdayjobs.com/en-US/Extern...
hhmi.wd1.myworkdayjobs.com/en-US/Extern...
Research Specialist - Tavakoli Lab
Primary Work Address: 19700 Helix Drive, Ashburn, VA, 20147 Current HHMI Employees, click here to apply via your Workday account. The Howard Hughes Medical Institute’s Janelia Research Campus is a pio...
hhmi.wd1.myworkdayjobs.com
July 17, 2025 at 2:56 PM
🧠 Excited by synapse-level brain mapping? Join us at a world-class institute to build molecular tools based on our new #LICONN work — and push the frontier of #MolecularConnectomics. Let’s decode the brain, one synapse at a time.
hhmi.wd1.myworkdayjobs.com/en-US/Extern...
hhmi.wd1.myworkdayjobs.com/en-US/Extern...
Reposted by Nicolas Denans
Just over a week left to apply for this round of the AIC Call for Proposals! Submit at www.aicjanelia.org/apply by Monday, June 16 (5 pm US ET).
The latest AIC Call for Proposals is now open! Deadline is June 16, 2025. Come use @hhmijanelia.bsky.social imaging technology and expertise for FREE. Visit www.aicjanelia.org/apply for details. Before applying, contact us to schedule a technical consultation!
Apply | aicjanelia
Apply to use the advanced microscopes housed at the AIC.
www.aicjanelia.org
June 6, 2025 at 4:12 PM
Just over a week left to apply for this round of the AIC Call for Proposals! Submit at www.aicjanelia.org/apply by Monday, June 16 (5 pm US ET).
Is this amazing ExM conference still happening? www.rizzoli-lab.de/gef25/
GEF25-Homepage - rizzoli-lab
Program Location & Travel About Home GEF25, organized in the 10th anniversary year of ExM, focuses on cutting-edge advancements in expansion microscopy, as a part of global initiatives to democratize ...
www.rizzoli-lab.de
May 13, 2025 at 4:30 PM
Is this amazing ExM conference still happening? www.rizzoli-lab.de/gef25/
Reposted by Nicolas Denans
🥼A new tissue expansion method developed by researchers in the Wang & Tillberg labs & collaborators @uwmadison.bsky.social enables scientists to use mass spectrometry imaging to simultaneously detect hundreds of molecules at the single cell level in their native locations ➡️ hhmi.news/4ixHOZZ
New technique expands tissues so hundreds of biomolecules can be seen inside cells
A new tissue expansion method developed by Janelia and University of Wisconsin-Madison researchers enables scientists to use mass spectrometry imaging to simultaneously detect hundreds of molecules
hhmi.news
April 22, 2025 at 2:45 PM
🥼A new tissue expansion method developed by researchers in the Wang & Tillberg labs & collaborators @uwmadison.bsky.social enables scientists to use mass spectrometry imaging to simultaneously detect hundreds of molecules at the single cell level in their native locations ➡️ hhmi.news/4ixHOZZ
I guess they renamed their protein from mYongHong to mScarlet3H www.nature.com/articles/s41...
A highly stable monomeric red fluorescent protein for advanced microscopy - Nature Methods
The red fluorescent protein mScarlet3-H is bright, photostable and very robust to high temperature, chaotropic conditions and oxidative environments. mScarlet3-H works well in correlative light and el...
www.nature.com
April 17, 2025 at 1:17 PM
I guess they renamed their protein from mYongHong to mScarlet3H www.nature.com/articles/s41...
A new call for proposals just opened with @aicjanelia.bsky.social . Do not miss this unique opportunity to collaborate with microscopy experts to advance your project!
The latest AIC Call for Proposals is now open! Deadline is June 16, 2025. Come use @hhmijanelia.bsky.social imaging technology and expertise for FREE. Visit www.aicjanelia.org/apply for details. Before applying, contact us to schedule a technical consultation!
Apply | aicjanelia
Apply to use the advanced microscopes housed at the AIC.
www.aicjanelia.org
April 15, 2025 at 1:25 PM
A new call for proposals just opened with @aicjanelia.bsky.social . Do not miss this unique opportunity to collaborate with microscopy experts to advance your project!
Amazing opportunity!! #microscopy #bioImaging
We have an open #opportunity for a BioImage Analyst to join our team! This is an excellent role for a problem solver with an empathetic, collaborative mentality who enjoys partnering with interdisciplinary scientists. Read more and apply here: hhmi.wd1.myworkdayjobs.com/en-US/Extern...
BioImage Analyst
Primary Work Address: 19700 Helix Drive, Ashburn, VA, 20147 Current HHMI Employees, click here to apply via your Workday account. The Howard Hughes Medical Institute’s Janelia Research Campus is a pio...
hhmi.wd1.myworkdayjobs.com
February 12, 2025 at 5:22 PM
Amazing opportunity!! #microscopy #bioImaging
Looks impressive! Check it out!
🔬🎤 As pre-announced a few days ago... please let us proudly present to you: 𝑴𝒊𝒄𝒓𝒐𝕊𝒑𝒍𝒊𝒕 - your ticket to imaging more, imaging more gentle, and/or imaging more efficient. 🔬
doi.org/10.1101/2025...
Like ❤️, repost 🔂, and most importantly... please send feedback ✉️ our way! 🙏
doi.org/10.1101/2025...
Like ❤️, repost 🔂, and most importantly... please send feedback ✉️ our way! 🙏
February 11, 2025 at 7:30 PM
Looks impressive! Check it out!
Do you want to help developing new groundbreaking methodologies with US @i2janelia.bsky.social ? We need another BioImage Analyst to join our growing team! hhmi.wd1.myworkdayjobs.com/en-US/Extern...
BioImage Analyst
Primary Work Address: 19700 Helix Drive, Ashburn, VA, 20147 Current HHMI Employees, click here to apply via your Workday account. The Howard Hughes Medical Institute’s Janelia Research Campus is a pio...
hhmi.wd1.myworkdayjobs.com
February 11, 2025 at 2:41 PM
Do you want to help developing new groundbreaking methodologies with US @i2janelia.bsky.social ? We need another BioImage Analyst to join our growing team! hhmi.wd1.myworkdayjobs.com/en-US/Extern...
Reposted by Nicolas Denans
Please welcome our official #mesoSPIM channel on this platform, @mesospim.bsky.social. Repost is appreciated!
January 20, 2025 at 10:22 AM
Please welcome our official #mesoSPIM channel on this platform, @mesospim.bsky.social. Repost is appreciated!
VVDviewer developed @hhmijanelia.bsky.social is a FREE software that makes beautiful rendering, is very easy to use and can handle large datasets. Did I mentioned it is FREE? #microscopy
I used VVD Viewer for this #FluorescenceFriday video: 141 volumes from the #HHMIJanelia FlyLight Split-GAL4 #Drosophila driver collection. The animation comes from a high-level description processed by neuVid. Such a rapid tour of the data has questionable scientific value, but it's fun to watch!
December 20, 2024 at 4:10 PM
VVDviewer developed @hhmijanelia.bsky.social is a FREE software that makes beautiful rendering, is very easy to use and can handle large datasets. Did I mentioned it is FREE? #microscopy