Rachel Lee, PhD
@scientistrachel.bsky.social
π€ 198
π₯ 156
π 17
BioImage Analysis Lead at AIC Janelia
Starting with your biological question can help focus your
#bioimageAnalysis
goals. Learn more in the latest
@aicjanelia.bsky.social
post on
@focalplane.bsky.social
π
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8 days ago
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reposted by
Rachel Lee, PhD
FocalPlane
26 days ago
In a new post from
@aicjanelia.bsky.social
and
@anjanja1024.bsky.social
, Kevin Hamill shares βa day in the lifeβ of an AIC visitor. Kevinβs team went to the AIC to image components of the basal membrane using iPALM.
focalplane.biologists.com/2025/11/24/y...
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You can appreciate a lot by looking β using the best microscope in the world β A day in the life of an AIC visitor - FocalPlane
You can appreciate a lot by looking β using the best microscope in the world β A day in the life of an AIC visitor - AIC at HHMI Janelia
https://focalplane.biologists.com/2025/11/24/you-can-appreciate-a-lot-by-looking-using-the-best-microscope-in-the-world-a-day-in-the-life-of-an-aic-visitor/
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reposted by
Rachel Lee, PhD
AIC at Janelia
29 days ago
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...
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You can appreciate a lot by looking β using the best microscope in the world β A day in the life of an AIC visitor - FocalPlane
You can appreciate a lot by looking β using the best microscope in the world β A day in the life of an AIC visitor - AIC at HHMI Janelia
https://focalplane.biologists.com/2025/11/24/you-can-appreciate-a-lot-by-looking-using-the-best-microscope-in-the-world-a-day-in-the-life-of-an-aic-visitor/
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reposted by
Rachel Lee, PhD
AIC at Janelia
29 days ago
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...
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AIC at HHMI Janelia
Introduction to the AIC at HHMI Janelia blog on FocalPlane
https://focalplane.biologists.com/2025/11/20/aic-at-hhmi-janelia/
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reposted by
Rachel Lee, PhD
Jan Funke
about 1 month ago
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/...
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reposted by
Rachel Lee, PhD
Whitney Stevens-Sostre, PhD Boricua
about 2 months ago
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
. Iβm off to do bioimaging experiments! π¬
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reposted by
Rachel Lee, PhD
AIC at Janelia
about 2 months ago
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 π¬
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reposted by
Rachel Lee, PhD
AIC at Janelia
about 2 months ago
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
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reposted by
Rachel Lee, PhD
AIC at Janelia
about 2 months ago
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.
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Working with
#TrackMate
, participants at
#InsightFromImaging
were able to explore tracking parameters and the tradeoffs inherent in analysis. It was another fun discussion! π€
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about 2 months ago
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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
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about 2 months ago
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reposted by
Rachel Lee, PhD
AIC at Janelia
about 2 months ago
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.
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reposted by
Rachel Lee, PhD
AIC at Janelia
about 2 months ago
Today's theme at
#InsightFromImaging
2025 is imaging speed. We're kicking things off with a lecture by Chad Hobson.
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reposted by
Rachel Lee, PhD
AIC at Janelia
about 2 months ago
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?
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I had a wonderful time discussing image analysis with HHMI
#HannaGrayFellows
this morning. I look forward to continuing the chat throughout
#InsightFromImaging
this week.
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about 2 months ago
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reposted by
Rachel Lee, PhD
AIC at Janelia
about 2 months ago
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 π¬
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Rachel Lee, PhD
Γzge ΓzgΓΌΓ§
about 2 months ago
When
#halloween
meets
#FluorescenceFriday
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reposted by
Rachel Lee, PhD
AIC at Janelia
about 2 months ago
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
.
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reposted by
Rachel Lee, PhD
Keri Martinowich
about 2 months ago
Hippocampus masquerading as a π¦ for Halloween π
#FluorescenceFriday
Image credit to the
@lieberinstitute.bsky.social
Microscopy and Spatial Biology Core π§ π¬π§ͺ
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When
#FluorescenceFriday
falls on Halloween, we break out the spooky data π» Here we are looking at the blood vessels of a zebrafish through its eye π
about 2 months ago
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reposted by
Rachel Lee, PhD
Tom Gauld
about 2 months ago
A halloween cartoon for
@newscientist.com
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I'm excited to be co-organizing
#InsightFromImaging
2025! We have many interactive activities planned, including hands-on image analysis labs π€
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about 2 months ago
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Today marks 4 years of enjoying the beautiful
@hhmijanelia.bsky.social
campus π³
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2 months ago
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reposted by
Rachel Lee, PhD
AIC at Janelia
2 months ago
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!
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reposted by
Rachel Lee, PhD
Tom Boissonnet
7 months ago
Who does microscopy and has never heard of Bio-Formats? You probably used it anyway
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reposted by
Rachel Lee, PhD
AIC at Janelia
5 months ago
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!
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reposted by
Rachel Lee, PhD
Josh Gondelman
5 months ago
Google search's AI summary is like the loud confident idiot in the room who doesn't always know the answer to your question but HAS TO be the first one to reply to it.
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reposted by
Rachel Lee, PhD
David Gaboriau
5 months ago
The Confocal Room
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reposted by
Rachel Lee, PhD
Melanie D. White
5 months ago
Today was a super fun first day of imaging
@aicjanelia.bsky.social
with
@vanderspuy.bsky.social
and
@samarar.bsky.social
. All hail the quail!οΏΌοΏΌπ§ͺπ¬#DevBio
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reposted by
Rachel Lee, PhD
AIC at Janelia
5 months ago
We are wrapping up a project imaging cancer cell spheroids on our SiMView system today. We wish Elizabeta Belova of
@temple.edu
happy data analyzing and safe travels home!
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reposted by
Rachel Lee, PhD
AIC at Janelia
6 months ago
Today we're wrapping up a dicty project on our MOSAIC system. We've enjoyed having Yiyan and Saki of the Devreotes lab here and wish them happy data analyzing!
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reposted by
Rachel Lee, PhD
AIC at Janelia
6 months ago
We're wrapping up a fun three weeks of drosophila imaging on our SiMView microscope with the Mavrakis lab from
@institutfresnel.bsky.social
Wishing their team safe travels home and happy data analyzing!
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reposted by
Rachel Lee, PhD
AIC at Janelia
7 months ago
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).
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reposted by
Rachel Lee, PhD
Blankenship Lab
8 months ago
Back MOSAICing
@hhmijanelia.bsky.social
... as always a great imaging experience, and they have an open call for apps:
www.aicjanelia.org/apply
@aicjanelia.bsky.social
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reposted by
Rachel Lee, PhD
AIC at Janelia
8 months ago
Last week we wrapped up an iPALM project with Shannon from the
@mrobichaux.bsky.social
lab at
#WVU
. Wishing her luck with her data analysis!
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April is
#CitizenScienceMonth
! There is still time to join
@scistarter.bsky.social
and be part of
#OneMillionActsofScience
2025. I had fun observing some trees for the Globe Observer program π³
8 months ago
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reposted by
Rachel Lee, PhD
Lucas Dent
8 months ago
Weβve had an incredible experience being hosted at the AIC at Janelia for iPALM imaging. Tremendous support and expertise. If your project could benefit from advanced imaging, check out their instruments (FIB-SEM, iPALM, LLSM and others) and get in touch.π
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Good advice! π
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8 months ago
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reposted by
Rachel Lee, PhD
Anja Schmidt
8 months ago
A new call for proposals is open at our Advanced Imaging Center for imaging on our pre-commercial microscopes. Reach out for a technical consultation and learn how to apply to use the newest technology for free!
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Applications are open for using
@aicjanelia.bsky.social
microscopes! Reach out to our team for a free technical consultation to get feedback on your proposal before submission.
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8 months ago
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reposted by
Rachel Lee, PhD
AIC at Janelia
9 months ago
Today we're wrapping up an iPALM project with John Henson (Dickinson College) and Brad Shuster (
@nmsu.edu
). We've enjoyed having them (and their sea urchins) here at Janelia, and wish them safe travels home!
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reposted by
Rachel Lee, PhD
AIC at Janelia
10 months ago
And the Nejsum Lab (
nejsumlab.au.dk
) from
@au.dk
is wrapping imaging our on our MOSAIC system. We wish both groups safe travels home!
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reposted by
Rachel Lee, PhD
AIC at Janelia
10 months ago
This week we're wrapping up two AIC visits at once!
@kylejacobs.bsky.social
from UCSF was here for a project on our iPALM system.
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reposted by
Rachel Lee, PhD
Teng-Leong Chew
10 months ago
π§ͺJob opening at Janelia
@hhmijanelia.bsky.social
Integrative Imaging platform for a bioimage analyst. Please repost.
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reposted by
Rachel Lee, PhD
AIC at Janelia
10 months ago
Opportunity to join Integrative Imaging and work with the AIC team on
#bioimageanalysis
! π
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This is an
#opportunity
to join Integrative Imaging and work with the
@aicjanelia.bsky.social
team! I enjoy getting to help researchers design and implement
#bioimageanalysis
approaches for a wide variety of
#microscopy
projects in this role π€
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10 months ago
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reposted by
Rachel Lee, PhD
AIC at Janelia
11 months ago
Wishing Alex George and team happy data analyzing now that they've wrapped up their imaging on our MOSAIC system!
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reposted by
Rachel Lee, PhD
Jean-Yves Tinevez
11 months ago
10 - Featured extension: Mastodon-Blender Offers a bridge from Mastodon to Blender to create high quality 3D rendering of lineages and cell tracks over time: (Tracking data of phallusia mammillata embryogenesis by Guignard et a. (2020).
doi.org/10.1126/scie...
)
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reposted by
Rachel Lee, PhD
11 months ago
Thank you for hosting our team and making this project a success! Here is a macrophage playing beach volleyball with IgG-coated beads, courtesy of Tyler Paul, Yoseph Loyd, and
@scientistrachel.bsky.social
!
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reposted by
Rachel Lee, PhD
Teng-Leong Chew
11 months ago
I am immensely excited and proud of the official launch of Imaging Southeast Asia (iSEA) yesterday. This is one of the fastest growing
#microscopy
communities I have witnessed across the globe! Check them out, and join at
imagingsea.org
π§ͺ
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