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Jess Heebner

@jessheebner.bsky.social
360 followers 1K following 24 posts

Deep Learning CryoET Image Analysis Specialist, cat lover, dog lover, mother to a 5yo tyrant

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Reposted by Jess Heebner
Ricardo D. Righetto @lifeonthewedge.bsky.social · 09/03/2026
Stunning video installation by Isabell Bullerschen featuring our T. kivui #CryoET data 🧡 On view until April 19th at the HEK in #Basel! hek.ch/en/program/e...
Still of a video installation by Isabell Bullerschen showing segmentation of a tomogram depicting T. Kivui bacteria.Still of a video installation by Isabell Bullerschen showing segmentation of a tomogram depicting T. Kivui bacteria.Still of a video installation by Isabell Bullerschen showing segmentation of a tomogram depicting T. Kivui bacteria.Still of a video installation by Isabell Bullerschen showing segmentation of a tomogram depicting T. Kivui bacteria.
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winston @winston.cc · 02/03/2026
Help me pay a family's rent! The organizer running this gofundme is someone I trust, and they are directly connected with a family that's 3 months behind on rent. Stated goal is $2600, but $3900 is needed. I'm in for $100, quote and share please! www.gofundme.com/f/join-me-in...
gofundme.com
Donate to Join Me in Supporting This Sweet Family :), organized by iseli centeno
hello friends :) there is a sweet minneapolis family i know who is behind on … iseli centeno needs your support for Join Me in Supporting This Sweet Family :)
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Biophysical Society @biophysicalsoc.bsky.social · 25/02/2026
Congratulations to the winners of this year's Art of Science Image contest at #bps2026 🥇 1st Place: Yupeng Li, University of Illinois Urbana-Champaign 🥈 2nd Place: Jessica Heebner, Thermo Fisher Scientific 🥉 3rd Place: Sohaib Abdul Rehman, Harvard University
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winston @winston.cc · 20/01/2026
Good morning here is a gofundme to support three kids left behind when their mom was abducted. One of the kids has urgent medical needs. Please fill it up! www.gofundme.com/f/urgent-aid...
gofundme.com
Donate to Urgent Aid Needed for Maria and Children, organized by Lynne Larsen
GO FUND ME – URGENT AID NEEDED FOR MARIA AND CHILDREN For their safety, we… Lynne Larsen needs your support for Urgent Aid Needed for Maria and Children
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Jess Heebner @jessheebner.bsky.social · 09/01/2026
I'm so happy to have gotten the opportunity to work on this project and I'm SO excited that they selected our image for the cover!
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Elisa Granato @prokaryota.bsky.social · 07/01/2026
JOB ALERT! 📢 For the scientists who love science communication: we’re hiring at @kurzgesagt.org !🌍 Come join our team, the vibes are impeccable. ✍️ Scriptwriter (Remote) kurzgesagt.org/careers/scri... 🔍 Fact-Checker & Researcher (Munich/Berlin/Remote) kurzgesagt.org/careers/seni...
kurzgesagt.org
Job listing for (Senior) Fact-Checker & Researcher (all genders) | kurzgesagt
Want to work with kurzgesagt? We have an open role as (Senior) Fact-Checker & Researcher (all genders). Apply now to become part of a great team and start an exciting career!
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the Mountain Goats @themountaingoats.bsky.social · 31/12/2025
When you get the reputation of being the guy with the encouraging words on New Year's Eve, it can start to come through as a little pressure -- what if the situation on the ground is worse than usual? what if people are more scared than they usually are, and with cause? what use are good vibes then?
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Jess Heebner @jessheebner.bsky.social · 13/12/2025
This might be my favorite piece of conference swag ever. My 5yo is obsessed with it. #cellbio2025 @jcb.org
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Beata Science Art @beatascienceart.bsky.social · 07/12/2025
If you're passionate about #SciArt and #SciComm, don't miss our exciting session today at #ASCB #CellBio2025! Thank you @ascbiology.bsky.social!
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Jess Heebner @jessheebner.bsky.social · 06/12/2025
What are your plans for #cellbio2025 ? Aside from eating too much at Reading Terminal Market and wandering the Christmas Market in my spare time... Come find me to chat all things segmentation (and come see my work displayed along the back wall of the Thermo Fisher booth!)
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Jess Heebner @jessheebner.bsky.social · 04/12/2025
Going to #ASCB2025 in Philly? Come find me! I'll be haunting the Thermo Fisher booth and wandering the conference. I'd love love love to talk all things segmentation! Let's get coffee. Show me your data. Reach out!
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Debnath Ghosal @debnathghosal.bsky.social · 02/08/2025
📣 New paper alert! Just out in Cell Reports! pubmed.ncbi.nlm.nih.gov/40644298/ Thrilled to share that we have discovered a brand-new anti-phage defense system! Bacteria have evolved various defense strategies (CRISPR etc) to counter phage attacks. We found a new one - fascinating and dramatic ⚔️🦠❄️🔬
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Leah Lavery @helloleahlavery.bsky.social · 30/05/2025
NEW! Hydra Bio Plasma-FIB features AI protocols for bio specimens. Capture high-res 3D data from cryo-preserved or resin-embedded samples & generate high-quality cryo lamellae. Register for June 24 webinar to learn from users how they've enhanced their #volumeEM and #teamtomo prep. ter.li/d8b427
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Jess Heebner @jessheebner.bsky.social · 24/05/2025
Can't wait to try this out! I have loved seeing my segmentations come to life in Blender
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Marnie Blewitt @marnieblewitt.bsky.social · 14/05/2025
www.wehi.edu.au/careers/make... WEHI is looking for new lab heads! New and experienced lab heads welcome. Check out the ad, consider applying and share. We’re a collaborative bunch, in Australia, with fabulous technology, great colleagues at a values-driven organisation. @wehi-research.bsky.social
wehi.edu.au
Make your future Melbourne | WEHI
Lead the next wave of biomedical discovery
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Philippe Van der Stappen @phaips.vd.st · 06/05/2025
Hey #TeamTomo, Ever been in need of a tutorial about the fundamentals of cryo-electron tomography? From preprocessing raw frames to high-res subtomogram averaging? That's why @florentwaltz.bsky.social and I made this website! tomoguide.github.io Follow the thread 1 /🧵 #CryoET #CryoEM 🔬🧪
tomoguide.github.io
Welcome to TomoGuide
A step-by-step Cryo-ET guide
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Ricardo D. Righetto @lifeonthewedge.bsky.social · 23/04/2025
We have updated our #MemBrain v2 preprint with a lot more details about the MemBrain-pick and MemBrain-stats modules, as well as some application examples! Stay tuned for the upcoming thread by lead author @lorenzlamm.bsky.social! 🧠🧵 #CryoET #TeamTomo www.biorxiv.org/content/10.1...
Figure 4. MemBrain v2 end-to-end workflow detects periodic phycobilisome organization. A: Raw tomogram slice of EMD-31244. B: Out-of-the-box MemBrain-seg segmentation (light blue). C: A single membrane instance can be visualized in Surforama and manually annotated with GT phycobilisome positions (magenta). D: MemBrain-pick localizes particles (trained with data from C) on all membranes in the tomogram. E: MemBrain-stats computes Ripley’s O statistic using the positions from D with a bin size of 5nm. The distance between peaks (35 nm) was measured to estimate chain unit spacings.
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Leah Lavery @helloleahlavery.bsky.social · 02/04/2025
So thrilled to unveil the Krios 5 Cryo-TEM for studying cellular structures and molecular interactions. Thank you to the many, many teammates that made this possible. Watch the video! Watch the more & sign up for virtual event on May 14: ter.li/ueeqfs www.linkedin.com/posts/thermo...
linkedin.com
Introducing the Krios 5 Cryo-Transmission Electron Microscope | Thermo Fisher Scientific
Today, we introduce the Krios 5 Cryo-Transmission Electron Microscope, which provides atomic-level insights to help scientists study how cells, proteins and viruses work. Its enhanced optics and new A...
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Ben Engel @cellarchlab.com · 20/03/2025
We're on the cover of @science.org this week. Awesome work by @florentwaltz.bsky.social. #CryoET is reaching crazy resolutions inside cells, and this is just the beginning. Fantastic interpretation of the proton motive force by @verenaresch.bsky.social. Always a pleasure making #SciArt with you!🧪🧶🧬🌾
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Jess Heebner @jessheebner.bsky.social · 06/03/2025
Things always get worse before they get better..something something pithy... I'm reposting this because the situation has become more urgent and exponentially more stressful. <3
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Ricardo D. Righetto @lifeonthewedge.bsky.social · 28/02/2025
To all #TeamTomo #CryoET and #Chlamydomonas aficionados: we have updated EMPIAR-11830 with a bug fix concerning some cryo-CARE denoised tomos as well as additional files and metadata! 🎉👩🏽‍💻 www.ebi.ac.uk/empiar/EMPIA... A little thread about what's new... 🧵 1/n
Rare cellular events observed in the cryo-ET dataset. Slices through tomograms (left) with corresponding 3D segmentation (middle and right). Right panels show enlarged views of the boxed regions in the middle panels. A) Mitochondrion at the plasma membrane, tethered to microtubules by thin filaments of unknown identity. Segmented classes: nuclear envelope (light blue), nuclear pore complex (dark blue), 80S ribosomes (orange), mitochondrial membranes (dark red), ATP synthase (royal blue), plasma membranes (grey), microtubules (pink), filaments (yellow), endoplasmic reticulum (purple). Zoomed-in panel shows thin filaments running between microtubules and the mitochondrion at the plasma membrane. Note that this tomogram contains two closely appressed cells, and thus, two plasma membranes with cell walls between. B) Mitochondrial fission event with ER membrane interactions. Segmented classes: mitochondrial membranes (dark red), ATP synthase (royal blue), 80S ribosomes (orange), thylakoid membranes (green), PSII (bright yellow), cell wall (grey), ER (purple), fission site containing filamentous structures perpendicular to the mitochondrial long axis (pale yellow). C) Ciliary transition zone between basal body and axoneme, including assembling IFT train and stellate structure77. Segmented classes: microtubule doublets (light blue), central microtubule pair (light green), stellate structure (pale red), IFT train (yellow). D) Pyrenoid tubule extending from the thylakoids into the phase-separated Rubisco matrix of the pyrenoid. Minitubules originate from thylakoid membranes82. Segmented classes: thylakoid membranes (dark green), PSII (yellow), pyrenoid tubule (lime green), Rubisco (lavender blue), minitubules (orange). Scale bars in A-D: 100 nm. Related to Fig. 2C-H.
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Jess Heebner @jessheebner.bsky.social · 05/02/2025
Excited to see this out!!
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Jess Heebner @jessheebner.bsky.social · 04/02/2025
I typically stick to science/cryoem posts here, but this is very important to me as this is my brother and his family. I want to see them safe. <3
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Grigory Tagiltsev @grigorytagiltsev.bsky.social · 06/01/2025
Finally out! Working with this team was a fantastic learning experience. Also I was excited to determine the in situ clathrin structure for this project! That’s my first EM-structure upload to EMDB. Can I tell my mom I am a structural biologist now? 😁 #cryoET
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Pavol Harar @paloha.bsky.social · 07/01/2025
Thanks Alicia! I am also happy to have helped finalize this work. I hope computational biologists will find the repo useful. We need to share more annotations in accessible format, the algorithms are hungry 😄 #teamtomo, consider sharing your data via pull requests—let’s grow this together! 🤝
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Jess Heebner @jessheebner.bsky.social · 06/01/2025
Excited to finally get to share the segmentations I've been doing for this project! Eventually I'll get all 1829 tomograms segmented as fully as I can. But.... long term project. For now I'm just excited to see it out in the wild!
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Florent Waltz @florentwaltz.bsky.social · 30/12/2024
Check this out, maybe your last read of the year, or the first for the next one 📖? We used Chlamydomonas 🦠 to push cellular tomography towards the next step and made all the data public! BTW it's the same dataset I used for the mitochondrial respirasomes www.biorxiv.org/content/10.1... Enjoy 🥳!
biorxiv.org
In-cell architecture of the mitochondrial respiratory chain
Mitochondria produce energy through oxidative phosphorylation, carried out by five membrane-bound complexes collectively known as the respiratory chain. These complexes work in concert to transfer ele...
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Philippe Van der Stappen @phaips.vd.st · 29/12/2024
More than 1'800 tomograms available for the community. Towards visual proteomics using our favorite organism Chlamy! Check out the preprint: www.biorxiv.org/content/10.1... Find it on EMPIAR (11830) and fully annotated on the CZI data portal: cryoetdataportal.czscience.com #TeamTomo
biorxiv.org
Towards community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii
In situ cryo-electron tomography (cryo-ET) has emerged as the method of choice to investigate structures of biomolecules in their native context. However, challenges remain in the efficient production...
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Daniel Wendscheck @dwendscheck.bsky.social · 22/12/2024
Post-Doc Position WANTED⚡️ I'll finish my PhD work within the next few month and started to sort out where to continue doing exciting science. Any recommendations & suggestions are welcome🙏 More information on my scientific background and ideas for the future below 🧵 reskeet very much appreciated!
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STCmicrobeblog @stcmicrobeblog.bsky.social · 08/12/2024
tagging #CryoEM #CryoET #TeamTomo
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Jess Heebner @jessheebner.bsky.social · 01/12/2024
Anyone have any publicly available data (or data you want to share with me) that you'd love to see segmented? I find myself in need of some fun data to segment in my free time... #cryoET or #volumeEM!
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Jess Heebner @jessheebner.bsky.social · 28/11/2023
Coming to #ASCB2023? I'd love to chat! Come to my talk in the Deep Learning and AI in Cell Imaging subgroup on Saturday at 1pm (Room 253B) or stop by my poster (B4) on Tuesday at 1:45 onwards.
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Jess Heebner @jessheebner.bsky.social · 29/08/2023
First post! Imagine segmenting this by hand! This took about 30 minutes to make the training data, only 30 minutes to train and 20 minutes to segment. Data is Empiar 10694 and the network is a Pretrained 2.5D UNet from www.theobjects.com youtube.com/watch?v=4kb9...
youtube.com
Empiar 10694
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