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Reposted by Laura Breimann

Peter O'Toole @yorkbioimaging.bsky.social · 19d

Oh yes-the one and only Robert Haase @haesleinhuepf.bsky.social
From #GrandTheftAuto to the impact AI is having on #bioimaging.
+the challenges of creating AI courses for bioimage analysis, & his unique perspective as a programmer-turned-biologist.
Stream- bit.ly/microscopist...
@globias.bsky.social

The Microscopists | Robert Haase (Leipzig University)

We're thrilled to bring you the latest episode of The Microscopists, this time featuring Robert Haase, Lecturer and Training Coordinator at Leipzig University. In this episode, Robert chats about t...

bit.ly

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FragileNucleosome @fnucleosome.bsky.social · Sep 1

We're super excited to announce the entire lineup for the Fall season of Fragile Nucleosome Seminars, starting on Sept 10th at 1200 EDT / 1600 UTC with @gracebower.bsky.social and @creminslab.bsky.social!

register here for the entire series: us06web.zoom.us/webinar/regi...

Fragile Nucleosome Fall Seminars:
September 10 Grace Bower, Kvon Lab @ UC Irvine, USA
Jennifer Phillips-Cremins, UPenn, USA

September 24 Ali Wilkening, Sanulli Lab @ Stanford, USA
Juanma Schvartzman, Columbia University, USA

October 8 Sanim Rahman, Greenberg Lab @ UPenn, USA
Alex Federation, Talus Bio, USA

October 22 Alice Laigle, Croll Lab @ University of Neuchâtel, Switzerland
Seungsoo Kim, UC Irvine, USA

November 5 Hannah Long, University of Edinburgh, UK
Jeff Vierstra, Altius Institute, USA

November 19 Ishtiaque Hossain, Pastor Lab @ McGill, Canada
Sarah Teichmann, University of Cambridge, UK

December 3 María Mariner Faulí, Rada Iglesias Lab @ IBBTEC, Spain
Jonathan Henninger, Carnegie Mellon, USA

December 17 Rebecca Berrens, Oxford University, UK
Jean-Benoit Lalanne, University of Montreal, Canada

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Laura Breimann @laurabreimann.bsky.social · Aug 29

Same! Just placed a hold at my library!

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Reposted by Laura Breimann

Alexis Verger 🧬🧫🧪 @alexis-verger.cpesr.fr · Aug 28

If you like transcription regulation and its mechanisms, this WIP list is for you.

I'm sure I've forgotten lots of people, so don't hesitate to let me know so I can add you to the list.

go.bsky.app/8vTgeXB

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Laura Breimann @laurabreimann.bsky.social · Aug 22

Thank you for this! I was trying to implement these metrics in my pipeline for QC and I was always annoyed how badly these work!

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Siân Culley @superresolusian.bsky.social · Aug 7

Hello! Very excited to share our latest preprint, which is great news for us but terrible news for any diehard fans of PSNR and SSIM as image quality metrics in microscopy... (1/5)
www.biorxiv.org/content/10.1...

Image quality metrics fail to accurately represent biological information in fluorescence microscopy

Image processing methods offer the potential to improve the quality of fluorescence microscopy data, allowing for image acquisition at lower, less phototoxic illumination doses. The training and evalu...

www.biorxiv.org

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Laura Breimann @laurabreimann.bsky.social · Aug 16

Link to the paper: www.science.org/doi/10.1126/...

Initiation of meiosis from human iPSCs under defined conditions through identification of regulatory factors

Overexpression of regulatory factors and treatment with small molecules drives human stem cells to directly initiate meiosis.

www.science.org

Laura Breimann @laurabreimann.bsky.social · Aug 16

Excited that our paper was published in Science Advances 🧪
Great work by first author Merrick Pierson Smela who will carry this work forward in his new start-up!

The Wyss Institute at Harvard University @wyssinstitute.bsky.social · Aug 15

Wyss researchers have induced human stem cells to initiate meiosis – a key step in creating eggs and sperm – in the lab for the first time. This work was published in @science.org Advances.

Recapitulating egg and sperm development in the dish

By Benjamin Boettner (BOSTON) — More than one-sixth of adults around the world experience infertility in their lifetime. There is a high unmet need not only for increased access to affordable, high-q...

wyss.harvard.edu

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Eric Joyce @ericjoyce.bsky.social · Aug 14

🚨New preprint from the lab🚨
🧬 What keeps certain chromatin domains anchored at the nuclear periphery? Our new genome-wide HiDRO screen uncovers a key role for RNA-binding protein hnRNPK.
www.biorxiv.org/content/10.1...

Mechanistic and Epigenetic Partitioning of Lamina-Associated Chromatin Revealed by a Genome-Wide Imaging Screen

The nuclear periphery is a key site for heterochromatin organization in eukaryotic cells, where lamina-associated domains (LADs) promote transcriptional repression and genome stability. Despite their ...

www.biorxiv.org

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Reposted by Laura Breimann

Ting Wu Lab @tingwu-lab.bsky.social · Aug 13

What better way to launch our new account with the publication of @jmstein.bsky.social latest paper from the lab! 🧪 Check out the 🧵 below to learn more about tkPAINT and how we use it to image proteins, DNA, and RNA in the nucleus using DNA-PAINT.

Johannes Stein @jmstein.bsky.social · Aug 13

(1/n) DNA-PAINT imaging inside the nucleus at single antibody resolution using TIRF? Ultrathin sectioning makes it happen!

Grateful to share my postdoctoral work introducing “tomographic & kinetically-enhanced DNA-PAINT” or in brief: tkPAINT. Out in @pnas.org!
doi.org/10.1073/pnas...
👇🧵

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Laura Breimann @laurabreimann.bsky.social · Aug 13

Excited that tkPAINT is finally published! 🔬 Check out the latest version at @pnas.org and see this thread from @jmstein.bsky.social for the overview! Thank you for this fun collaboration! 🤗

Johannes Stein @jmstein.bsky.social · Aug 13

(1/n) DNA-PAINT imaging inside the nucleus at single antibody resolution using TIRF? Ultrathin sectioning makes it happen!

Grateful to share my postdoctoral work introducing “tomographic & kinetically-enhanced DNA-PAINT” or in brief: tkPAINT. Out in @pnas.org!
doi.org/10.1073/pnas...
👇🧵

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Reposted by Laura Breimann

Constantin Pape @cppape.bsky.social · Jul 23

Looking for an opportunity to work on cutting super-resolution microscopy and AI? There's still time to apply to the two positions!

Constantin Pape @cppape.bsky.social · Jul 7

Our goal is to develop methods to understand the dynamics of biomolecules, using the latest developments in super-resolution microscopy and AI-based image analysis. Apply here:
www.uni-goettingen.de/de/699491.html
www.uni-goettingen.de/de/699489.html
Feel free to reach out with further questions.

PhD Position in Artificial Intelligence (AI) for Dynamic Nanoscale Imaging (f/m/x) - Georg-August-Universität Göttingen

Webseiten der Georg-August-Universität Göttingen

www.uni-goettingen.de

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Johannes Stein @jmstein.bsky.social · Jul 21

(1/n) A simple, ultrastable, and cost-effective oxygen-scavenging system for long-term DNA-PAINT imaging

Please check out our new study on the benefits of sodium sulfite as oxygen scavenging system for DNA-PAINT.
👇🧵

#SuperResolution #DNAPAINT #SMLM #Microscopy

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Anders Sejr Hansen @andersshansen.bsky.social · Jul 20

This seems like a really important paper comparing chromosome tracing methods, demonstrating that classical denaturing DNA-FISH and chromosome tracing leads to substantial distortion of 3D genome structure, likely due to the high-temperatures involved (70-90C):
www.nature.com/articles/s41...

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Martin Weigert @maweigert.bsky.social · Jul 10

Do you like developing new AI vision methods for microscopy image analysis? You love theory & implementation? 1 week left to apply for a fully funded PhD position in our lab in Dresden 🇩🇪! Topics: object detection/tracking, multimodal models & more. DM/email for details! #PhD #AcademicJobs #GPUsgoBrr

Vacancy ID 12244

www.verw.tu-dresden.de

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Reposted by Laura Breimann

Nature Methods @natmethods.nature.com · Jul 9

Nature Methods is hiring!
We are seeking a new editor with expertise in microscopy, imaging technology, and/or cell biology. The position is available in NYC/Jersey City or Shanghai/Beijing on a hybrid working model.
Apply by August 3!

springernature.wd3.myworkdayjobs.com/SpringerNatu...

a yellow sign that says we 're hiring

ALT: a yellow sign that says we 're hiring

media.tenor.com

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Marc A. Marti-Renom @mamartirenom.bsky.social · Jun 27

How to represent genomes in 3D?

In this paper (and video), we propose Geometric Diagrams of Genomes (GDG)—a visual grammar that aims at emulating the effect ribbon diagrams (Richardson et al 1981) had in protein structural biology. Time will tell.😅

👉🏼 genomebiology.biomedcentral.com/articles/10....

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Laura Breimann @laurabreimann.bsky.social · Jun 16

Ha yes! I found a shell-less roll on a shelf and re-homed it to the old box (+ a fitting sticker).

Box of parafilm sticking out of it. The box features a small hermit crab sticker.

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Guy Nir @guynir.bsky.social · Jun 16

Our new preprint is out on bioRxiv! We show that restoring rigidity sensing via Tpm2.1 is not enough to trigger anoikis in cancer cells, thanks to compensatory AKT signaling and cell–cell adhesion.
With Anat, Nehal, and in memory of Mike Sheetz. www.biorxiv.org/content/10.1...

www.biorxiv.org

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Laura Breimann @laurabreimann.bsky.social · Jun 14

I hope it’s a good omen for my experiment 🤞🏻

Laura Breimann @laurabreimann.bsky.social · Jun 13

I can’t take credit for this alone, but still a special moment ✨

Picture of objects on a lab bench, showing the end of a parafilm roll and it’s container.

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Florian Jug @florianjug.bsky.social · Jun 9

Come and work with us!
Super exciting and relevant projects!
Become an #AI pro and do something positive for the 🌍!
👩‍🎓 🧑‍🎓
If you know someone who might be interested… please repost and/or forward this! 🙏

Human Technopole @humantechnopole.bsky.social · Jun 9

🚀 Fully-funded #PhD opportunity in Computational Biology with our @florianjug.bsky.social Group through Politecnico of Milan DADS programme! Co-supervision by Francesca Ieva.

🧬 Use #AI to decode complex biological data across scales.

Apply by 9 July 👉 humantechnopole.it/en/news/1-fu...

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Golnaz Vahedi @vahedilab.bsky.social · Jun 2

🚨 New #preprint alert!
We're excited to share our latest work:
"Single-Allele Chromatin Tracing Reveals Genomic Clustering of Paralogous Transcription Factors as a Mechanism for Developmental Robustness in T Cells"🔗 tinyurl.com/4ve26tbd

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EMBL Events @events.embl.org · May 21

Are you looking to advance your bioimage analysis skills? Then don't miss the deadline for #EMBOBioImage 🔬✨

📩 Apply by 4 June
➡️ https://s.embl.org/bia25-01-bl
🗓️ 14 – 19 September
📍 EMBL Heidelberg and Virtual

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Molecular Systems Biology @molsystbiol.org · May 15

Extensive differences observed in 3D genome structure between homologous heterozygous chromosomes revealed by Genome Architecture Mapping #GAM in the @apombo1.bsky.social lab ➡️ www.embopress.org/doi/full/10....

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