philiphubbard.bsky.social - Profile | ThreadSky | a Reddit-style client for Bluesky

I wanted a distraction from the news so I made this video, of some #Drosophila neurons with interesting morphologies: the mushroom body output neurons (MBONs). I used reconstructions from the FlyWire data set, and rendered with #Blender3D driven by neuVid.

submitted 3 days ago • 3 comments

2 PhD students recently met at a conference & Trump's slashing of research & science bound them With only 3 other scientists they started a movement that's growing around the country On March 7 in Washington DC, and state capitals, "Stand Up for Science" will take place All details below & bravo!

submitted 4 days ago • 1 comment

"These kinds of shocks are going to lead to a mass exodus … for minorities in particular.” For my latest @science.org story, I spoke with early career researchers who have been affected by the federal upheaval and are concerned about what it means for their future. www.science.org/content/arti...

submitted 5 days ago • 21 comments

#Cellpose 3 paper now out. Not all images are perfect. Restore your images with Cellpose3 to get better segmentations, w/ @marius10p.bsky.social www.nature.com/articles/s41...

submitted 15 days ago • 5 comments

Wow! When If/Then kicked off almost 6 years we had no idea what a ride it would be! We’ve been featured in museums, textbooks, on TV shows and in the largest exhibit of statues of women in the world! What is If/Then? youtube.com/shorts/hcxDo...

submitted 15 days ago • 2 comments

Today is International Day of Women & Girls in Science. Marie Curie, the first woman to win a Nobel Prize. Her contributions have left an indelible mark on the world of science & health & continue to inspire generations of scientists & innovators. 🔬 #WomenInScience #WomenInSTEM

submitted 16 days ago • 58 comments

Color is enriching. Here is a meditation on coloring a ring of #Drosophila EPG neurons by heading angle. These colormaps---"cividis", "plasma", "viridis", "turbo"---aim to be "equiluminant" and/or "perceptually uniform", with the goal of faithfully depicting the smooth increase of the angle.

submitted 16 days ago • 1 comment

On this date in 1870. The entity that would become the National Weather Service was born. No telling how many lives have been protected & saved in the past 155 years because of the dedication of the weather professionals, both past & present, that tirelessly monitor the weather across the US. #NOAA

submitted 17 days ago • 0 comments

📢 Submissions are now open for the CellMap Segmentation Challenge. Build the best method for segmenting cellular organelles in vEM using our 289 annotated volumes, 40 organelle classes, and 22 diverse cell and tissue types. 🔗 hhmi.news/410evJQ

submitted 21 days ago • 1 comment

Here's a #MicroscopyMonday segmentation of some neurons from the optic lobe, or visual processing area of the #Drosophila fruit fly's brain. The #connectome for the full optic lobe was released in 2024 by #HHMIJanelia, Google, and the University of Cambridge, with support from the Wellcome Trust.

submitted 24 days ago • 1 comment

This segmentation of #MicroscopyMonday data reconstructs neurons of the "MANC", or male adult nerve cord, from the #Drosophila fruit fly. The nerve cord is like a spinal cord and connects the brain and muscles. #HHMIJanelia, Google, and the University of Cambridge released this work in 2023.

submitted 31 days ago • 1 comment

On this day 5 years ago #HHMIJanelia and Google released the "hemibrain", a map of neural connections in much of the #Drosophila fly brain. At the time it was the largest such #connectome ever created. Here's a video from the release (polished a bit), showing the interesting shapes of the neurons.

submitted 36 days ago • 1 comment

Have questions about the 2025 #HannaGrayFellows Program? Join us for one of our informational webinar to learn more about the application process & what it means to be part of this incredible program: Wed, 1.23.25 | 3:30–4:30PM ET Thu, 1.30.25 | 3:30–4:30PM ET Register today! hhmi.news/40ymhuq

submitted 41 days ago • 1 comment

Can you spot the difference between the cells on the left and right? Read on for the solution (and a preprint announcement)… 👇 1/6

submitted 42 days ago • 1 comment

Please consider supporting Best Friends Animal Society, their emergency response fund will be used exclusively to support lifesaving work in the Los Angeles area. To donate, please go to www.justgiving.com/campaign/la-... Or sign up to volunteer at bfas.io/VLA.

submitted 45 days ago • 17 comments

A use of #MicroscopyMonday data is making segmentations. Here's one, of #Drosophila protocerebral bridge and nodulus neurons, from the 2020 Hemibrain by #HHMIJanelia and Google. Michał Januszewski and @stardazed0.bsky.social 's team made an initial segmentation with #AI flood-fill algorithms...

submitted 45 days ago • 1 comment

Today we're thrilled to announce our 2024 #HannaGrayFellows! Please join us in welcoming and celebrating these outstanding early career scientists!

submitted 50 days ago • 1 comment

On this day 5 years ago, I released version 1.0 of neuVid. It takes high-level descriptions of #Neuroscience or #CellBiology videos and renders them with #Blender or VVD Viewer. Here's a montage of how I've used it. Thanks to #HHMIJanelia for support, especially Steve Plaza and Stuart Berg of FlyEM.

submitted 50 days ago • 1 comment

A cold, white blanket covers all the rough edges for a little while.

submitted 52 days ago • 0 comments

This #FluorescenceFriday video shows 89 volumes from the #HHMIJanelia FlyLight Split-GAL4 collection: premotor and related neurons from the #Drosophila fruit fly's equivalent of a spinal cord. I gave a high-level description of the video to neuVid, which drove rendering by VVD Viewer.

submitted 55 days ago • 1 comment

🧪✨Emerald City of #Astrocytes: My 2024 year in review as a #BBB researcher, Ph.D. candidate, & chemical engineer. 🧠⚙️ May 2025 #defy expectations and be filled with #unlimited potential for good ✨🧪 #neuroskyence

submitted 69 days ago • 2 comments

AI@HHMI builds on a strong foundation of AI-driven #science at @hhmijanelia.bsky.social. Over the next decade, HHMI will invest $500 million in tech & talent to transform scientific discovery & embed #AI systems throughout every stage of the scientific process. More/find opportunities: ai.hhmi.org

submitted 69 days ago • 0 comments

If you are a Black imaging scientist but not part of the PAIR-UP network, you should be! Check out the website & join to learn more about the imaging workshops and culturally-based professional development offered. #BLACKandSTEM #BlackInSTEM #BlackInMicroscopy www.pairupscience.org

submitted 71 days ago • 0 comments

This video was fun. I matched the #Neuroscience segmentations shown first (from the #HHMIJanelia FlyEM team) to the #CellBiology segmentations shown later (from Alyson Petruncio, @herrsaalfeld.bsky.social and the CellMap team). I described the animation with neuVid and rendered it with #Blender.

submitted 68 days ago • 0 comments

I am super excited to share our article addressing a longstanding question in neurobiology: how Ca²⁺ signaling cascades initiated at dendritic spines operate at a distance. Check it out here: authors.elsevier.com/sd/article/S... @cp-cell.bsky.social.

submitted 68 days ago • 8 comments

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!

submitted 69 days ago • 8 comments

My favorite volume renderer for fluorescence #microscopy is VVD Viewer, by Takashi Kawase and Hideo Otsuna at #HHMIJanelia. Takashi wrote fast GPU code. Hideo wrote a transfer function with 3D sampling and a final 2D power function, which together show just enough low data values for visual context.

submitted 70 days ago • 1 comment

submitted 73 days ago • 2 comments

We created this short animation over four years ago, and I would really love to revisit the project using all the new tools, data, and capabilities we have now. Hopefully, we’ll have the opportunity to return to modeling viruses in the future. vimeo.com/417208044?sh...

submitted 104 days ago • 0 comments

A stem cell niche is a rich biological community where stem cells renew, mature, and communicate with other cells. This short animation I made explores the cycle of renewal in the stem cell niche. #sciart #b3d

submitted 84 days ago • 0 comments

Nominations are open for the Index of Inspiring Black Scientists! We're building a global resource to celebrate and connect inspiring Black scholars in STEM at all career stages. Nominate someone today! Details: forms.gle/7nq5s2xBENUF... #InspiringBlackScientists

submitted 76 days ago • 2 comments

For fun, here's one more video of #CellBiology data from the OpenOrganelle collection. This one shows nuclei and mitochondria from a sample of mouse liver tissue, made with neuVid driving #Blender.

submitted 77 days ago • 1 comment

Fenestrae are unusual holes in hepatic endothelia cells. Here they are in a data set from OpenOrganelle, reconstructed by Aubrey Weigel and the CellMap team at #HHMIJanelia. This video was rendered in #Blender driven by neuVid (which has been helpful for #CellBiology as well as #Neuroscience).

submitted 78 days ago • 1 comment

Another OpenOrganelle data set from Aubrey Weigel and the #HHMIJanelia CellMap team is this HeLa cell, rendered with #Blender driven by neuVid. The HeLa cell line, a critical resource for biomedical research, originated with cells taken without consent from Henrietta Lacks in 1951.

submitted 79 days ago • 1 comment

OpenOrganelle is a repo of #CellBiology data, segmented from electron #microscopy at #HHMIJanelia by Aubrey Weigel and the CellMap team, the Saalfeld lab ( @herrsaalffeld.sky.social) and the Hess lab. Here's a macrophage cell, rendered with #Blender driven by neuVid (helpful for more than neurons).

submitted 80 days ago • 1 comment