Rachel Lee, PhD
@scientistrachel.bsky.social
BioImage Analysis Lead at AIC Janelia
Reposted by Rachel Lee, PhD
In a new post from @aicjanelia.bsky.social and @anjanja1024.bsky.social, Kevin Hamill shares ‘a day in the life’ of an AIC visitor. Kevin’s team went to the AIC to image components of the basal membrane using iPALM.
focalplane.biologists.com/2025/11/24/y...
focalplane.biologists.com/2025/11/24/y...
You can appreciate a lot by looking – using the best microscope in the world – A day in the life of an AIC visitor - FocalPlane
You can appreciate a lot by looking – using the best microscope in the world – A day in the life of an AIC visitor - AIC at HHMI Janelia
focalplane.biologists.com
November 27, 2025 at 1:19 PM
In a new post from @aicjanelia.bsky.social and @anjanja1024.bsky.social, Kevin Hamill shares ‘a day in the life’ of an AIC visitor. Kevin’s team went to the AIC to image components of the basal membrane using iPALM.
focalplane.biologists.com/2025/11/24/y...
focalplane.biologists.com/2025/11/24/y...
Reposted by Rachel Lee, PhD
And, if you've ever wondered what it is like to be a visitor to the AIC, check out this post by @anjanja1024.bsky.social and Kevin Hamill about visiting to use our iPALM system: focalplane.biologists.com/2025/11/24/y...
You can appreciate a lot by looking – using the best microscope in the world – A day in the life of an AIC visitor - FocalPlane
You can appreciate a lot by looking – using the best microscope in the world – A day in the life of an AIC visitor - AIC at HHMI Janelia
focalplane.biologists.com
November 24, 2025 at 5:25 PM
And, if you've ever wondered what it is like to be a visitor to the AIC, check out this post by @anjanja1024.bsky.social and Kevin Hamill about visiting to use our iPALM system: focalplane.biologists.com/2025/11/24/y...
Reposted by Rachel Lee, PhD
We are kicking off a blog series with @focalplane.bsky.social to provide insight into life at the AIC, microscopy careers, image analysis, and more! Read our intro post here: 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 5:25 PM
We are kicking off a blog series with @focalplane.bsky.social to provide insight into life at the AIC, microscopy careers, image analysis, and more! Read our intro post here: focalplane.biologists.com/2025/11/20/a...
Reposted by Rachel Lee, PhD
We moved the AI@MBL course "Deep Learning for Microscopy Image Analysis" to HHMI Janelia (@hhmijanelia.bsky.social).
Join us for two weeks of intense lectures, exercise, and hands-on project work!
Course dates: June 4-18 2026
Application by: January 15 2026
www.janelia.org/you-janelia/...
Join us for two weeks of intense lectures, exercise, and hands-on project work!
Course dates: June 4-18 2026
Application by: January 15 2026
www.janelia.org/you-janelia/...
November 17, 2025 at 7:44 PM
We moved the AI@MBL course "Deep Learning for Microscopy Image Analysis" to HHMI Janelia (@hhmijanelia.bsky.social).
Join us for two weeks of intense lectures, exercise, and hands-on project work!
Course dates: June 4-18 2026
Application by: January 15 2026
www.janelia.org/you-janelia/...
Join us for two weeks of intense lectures, exercise, and hands-on project work!
Course dates: June 4-18 2026
Application by: January 15 2026
www.janelia.org/you-janelia/...
Reposted by Rachel Lee, PhD
I learned so much from the @aicjanelia.bsky.social team at the #InsightFromImaging 2025 workshop this past week. Thank you so much! It was so fun and informative. I enjoyed the discussions between #HannaGrayFellows and the AIC team at @hhmijanelia.bsky.social. I’m off to do bioimaging experiments! 🔬
November 8, 2025 at 4:31 PM
I learned so much from the @aicjanelia.bsky.social team at the #InsightFromImaging 2025 workshop this past week. Thank you so much! It was so fun and informative. I enjoyed the discussions between #HannaGrayFellows and the AIC team at @hhmijanelia.bsky.social. I’m off to do bioimaging experiments! 🔬
Reposted by Rachel Lee, PhD
One last Bob's coffee break at @hhmijanelia.bsky.social before our final #InsightFromImaging activity: Participants are working in groups to formulate a hypothesis and design an imaging experiment to test it 🔬
November 7, 2025 at 9:37 PM
One last Bob's coffee break at @hhmijanelia.bsky.social before our final #InsightFromImaging activity: Participants are working in groups to formulate a hypothesis and design an imaging experiment to test it 🔬
Reposted by Rachel Lee, PhD
We spent the afternoon at #InsightFromImaging in the lab exploring 5 different microscopes (& 5 different samples!) to understand approaches for imaging depth.
Kidney slice prep by Ellen, imaged by Jenny using 2P (green tubulin) + SHG (magenta), viz by @scientistrachel.bsky.social in #AGAVE
Kidney slice prep by Ellen, imaged by Jenny using 2P (green tubulin) + SHG (magenta), viz by @scientistrachel.bsky.social in #AGAVE
November 6, 2025 at 10:20 PM
We spent the afternoon at #InsightFromImaging in the lab exploring 5 different microscopes (& 5 different samples!) to understand approaches for imaging depth.
Kidney slice prep by Ellen, imaged by Jenny using 2P (green tubulin) + SHG (magenta), viz by @scientistrachel.bsky.social in #AGAVE
Kidney slice prep by Ellen, imaged by Jenny using 2P (green tubulin) + SHG (magenta), viz by @scientistrachel.bsky.social in #AGAVE
Reposted by Rachel Lee, PhD
Today at #InsightFromImaging we're focusing on imaging depth, starting with a lecture by @cmhobson.bsky.social. Adaptive optics (available on our MOSAIC system!) can improve deep imaging, as shown by these mitochondria in a zebrafish embryo.
November 6, 2025 at 2:53 PM
Today at #InsightFromImaging we're focusing on imaging depth, starting with a lecture by @cmhobson.bsky.social. Adaptive optics (available on our MOSAIC system!) can improve deep imaging, as shown by these mitochondria in a zebrafish embryo.
Working with #TrackMate, participants at #InsightFromImaging were able to explore tracking parameters and the tradeoffs inherent in analysis. It was another fun discussion! 🤓
This morning at #InsightFromImaging we focused on particle tracking. After a lecture by @jesseaic.bsky.social, participants split into groups to use #TrackMate to track our HL60 migration data from yesterday, followed by presentations on their results 📈
November 5, 2025 at 8:10 PM
Working with #TrackMate, participants at #InsightFromImaging were able to explore tracking parameters and the tradeoffs inherent in analysis. It was another fun discussion! 🤓
HL60 cells take on so many fun shapes as they migrate! This #InsightFromImaging data features cells prepared by Leanna and imaged on the @aicjanelia.bsky.social LLSM by @cmhobson.bsky.social
November 4, 2025 at 10:36 PM
HL60 cells take on so many fun shapes as they migrate! This #InsightFromImaging data features cells prepared by Leanna and imaged on the @aicjanelia.bsky.social LLSM by @cmhobson.bsky.social
Reposted by Rachel Lee, PhD
Continuing our speed theme at #InsightFromImaging, we spent the afternoon at the microscope exploring imaging speed, as well as tradeoffs in imaging scale. Video featuring imaging of neutrophil-like HL60 cells on a widefield vs the AIC's LLSM.
November 4, 2025 at 10:33 PM
Continuing our speed theme at #InsightFromImaging, we spent the afternoon at the microscope exploring imaging speed, as well as tradeoffs in imaging scale. Video featuring imaging of neutrophil-like HL60 cells on a widefield vs the AIC's LLSM.
Reposted by Rachel Lee, PhD
Today's theme at #InsightFromImaging 2025 is imaging speed. We're kicking things off with a lecture by Chad Hobson.
November 4, 2025 at 4:33 PM
Today's theme at #InsightFromImaging 2025 is imaging speed. We're kicking things off with a lecture by Chad Hobson.
Reposted by Rachel Lee, PhD
For our first #InsightFromImaging lab, we're exploring imaging resolution across a variety of microscopy systems. When is increased resolution really necessary? What trade-offs does it require?
November 3, 2025 at 10:31 PM
For our first #InsightFromImaging lab, we're exploring imaging resolution across a variety of microscopy systems. When is increased resolution really necessary? What trade-offs does it require?
I had a wonderful time discussing image analysis with HHMI #HannaGrayFellows this morning. I look forward to continuing the chat throughout #InsightFromImaging this week.
This morning at #InsightFromImaging we jumped into hands on image analysis activities, including comparing the pros and cons of imaging denoising approaches
November 3, 2025 at 6:05 PM
I had a wonderful time discussing image analysis with HHMI #HannaGrayFellows this morning. I look forward to continuing the chat throughout #InsightFromImaging this week.
Reposted by Rachel Lee, PhD
We're kicking off #InsightFromImaging 2025 with a keynote lecture by @scopeshifu.bsky.social on advanced microscopy and the resources available through the Advanced Imaging Center's visitor program 🔬
November 2, 2025 at 10:28 PM
We're kicking off #InsightFromImaging 2025 with a keynote lecture by @scopeshifu.bsky.social on advanced microscopy and the resources available through the Advanced Imaging Center's visitor program 🔬
Reposted by Rachel Lee, PhD
When #halloween meets #FluorescenceFriday 🎃
October 31, 2025 at 4:21 PM
When #halloween meets #FluorescenceFriday 🎃
Reposted by Rachel Lee, PhD
Wishing everyone a happy #FluorescenceFriday and a #HappyHalloween! This expansion microscopy visualization of blood vessels in a zebrafish is the result of a collaboration between Ellen, Jenny, @nicolasdenans.bsky.social, and @scientistrachel.bsky.social.
October 31, 2025 at 3:35 PM
Wishing everyone a happy #FluorescenceFriday and a #HappyHalloween! This expansion microscopy visualization of blood vessels in a zebrafish is the result of a collaboration between Ellen, Jenny, @nicolasdenans.bsky.social, and @scientistrachel.bsky.social.
Reposted by Rachel Lee, PhD
Hippocampus masquerading as a 🦇 for Halloween 🎃
#FluorescenceFriday
Image credit to the @lieberinstitute.bsky.social Microscopy and Spatial Biology Core 🧠🔬🧪
#FluorescenceFriday
Image credit to the @lieberinstitute.bsky.social Microscopy and Spatial Biology Core 🧠🔬🧪
October 31, 2025 at 12:31 PM
Hippocampus masquerading as a 🦇 for Halloween 🎃
#FluorescenceFriday
Image credit to the @lieberinstitute.bsky.social Microscopy and Spatial Biology Core 🧠🔬🧪
#FluorescenceFriday
Image credit to the @lieberinstitute.bsky.social Microscopy and Spatial Biology Core 🧠🔬🧪
When #FluorescenceFriday falls on Halloween, we break out the spooky data 👻 Here we are looking at the blood vessels of a zebrafish through its eye 🎃
October 31, 2025 at 3:29 PM
When #FluorescenceFriday falls on Halloween, we break out the spooky data 👻 Here we are looking at the blood vessels of a zebrafish through its eye 🎃
Reposted by Rachel Lee, PhD
A halloween cartoon for @newscientist.com
October 31, 2025 at 11:27 AM
A halloween cartoon for @newscientist.com
I'm excited to be co-organizing #InsightFromImaging 2025! We have many interactive activities planned, including hands-on image analysis labs 🤓
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 5:28 PM
I'm excited to be co-organizing #InsightFromImaging 2025! We have many interactive activities planned, including hands-on image analysis labs 🤓
Today marks 4 years of enjoying the beautiful @hhmijanelia.bsky.social campus 🌳
October 12, 2025 at 12:17 AM
Today marks 4 years of enjoying the beautiful @hhmijanelia.bsky.social campus 🌳
Reposted by Rachel Lee, PhD
Today we're wrapping up a flatworm imaging project on our SiMView microscope. We've enjoyed having @kinglhung.bsky.social and team from the lab of @ardemp.bskyverified.social here and look forward to working with them on analyzing their images!
October 10, 2025 at 4:16 PM
Today we're wrapping up a flatworm imaging project on our SiMView microscope. We've enjoyed having @kinglhung.bsky.social and team from the lab of @ardemp.bskyverified.social here and look forward to working with them on analyzing their images!
Reposted by Rachel Lee, PhD
Who does microscopy and has never heard of Bio-Formats? You probably used it anyway
June 4, 2025 at 9:13 PM
Who does microscopy and has never heard of Bio-Formats? You probably used it anyway
Reposted by Rachel Lee, PhD
We've enjoyed having Marise and Samara from the lab of @melaniedwhite.bsky.social here to image quail embryos on our MOSAIC system. We wish them safe travels home and happy data analyzing!
August 8, 2025 at 8:47 PM
We've enjoyed having Marise and Samara from the lab of @melaniedwhite.bsky.social here to image quail embryos on our MOSAIC system. We wish them safe travels home and happy data analyzing!