Schapiro Lab
@schapirolab.bsky.social
Schapiro lab at Heidelberg University and Heidelberg University Hospital. We work on #HighlyMultiplexedImaging and #SpatialOmics
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Schapiro Lab
@schapirolab.bsky.social
· Dec 18
Interested in our research? We've created a starter pack so you can now follow our current lab members and alumni. Be sure to check it out! 🥳
Reposted by Schapiro Lab
Introducing Count COMET 🧛🧛♀️
Happy Halloween! 🎃
Happy Halloween! 🎃
October 31, 2025 at 9:35 AM
Introducing Count COMET 🧛🧛♀️
Happy Halloween! 🎃
Happy Halloween! 🎃
Last week our lab came together for our annual lab retreat, kindly hosted by @hlsalliance.bsky.social! We exchanged ideas about our research, spatial omics, and took part in some fun (albeit slightly competitive) activities.
October 29, 2025 at 3:45 PM
Last week our lab came together for our annual lab retreat, kindly hosted by @hlsalliance.bsky.social! We exchanged ideas about our research, spatial omics, and took part in some fun (albeit slightly competitive) activities.
We're excited to be at GloBIAS 2025 in Kobe Japan! Come say hi to @arojhada.bsky.social (presenting cell phenotyping) and @miguelib.bsky.social (presenting micronuclAI)
October 29, 2025 at 2:57 PM
We're excited to be at GloBIAS 2025 in Kobe Japan! Come say hi to @arojhada.bsky.social (presenting cell phenotyping) and @miguelib.bsky.social (presenting micronuclAI)
We're excited to share that we have released histoCAT_1.78.3 🐈
For the next major update, we would like to learn more about your individual use cases and current needs.
Please fill out this survey to let us know your opinions:
tinyurl.com/histoCAT
#spatialomics #spatialproteomics
For the next major update, we would like to learn more about your individual use cases and current needs.
Please fill out this survey to let us know your opinions:
tinyurl.com/histoCAT
#spatialomics #spatialproteomics
histoCAT user survey 2025
Dear histoCAT users,
We have now release histoCAT_1.78.3, which now works on updated Windows and MacOS systems and leverages MATLAB2022b.
For the next major update, we would like to learn more about...
tinyurl.com
October 28, 2025 at 3:32 PM
We're excited to share that we have released histoCAT_1.78.3 🐈
For the next major update, we would like to learn more about your individual use cases and current needs.
Please fill out this survey to let us know your opinions:
tinyurl.com/histoCAT
#spatialomics #spatialproteomics
For the next major update, we would like to learn more about your individual use cases and current needs.
Please fill out this survey to let us know your opinions:
tinyurl.com/histoCAT
#spatialomics #spatialproteomics
And that’s a wrap #EMBLSpatialBiology #ESSB2025
October 17, 2025 at 12:19 PM
And that’s a wrap #EMBLSpatialBiology #ESSB2025
Congratulations to @margotch.bsky.social on winning the poster prize at #ESSB2025 🎉🥳
October 17, 2025 at 12:15 PM
Congratulations to @margotch.bsky.social on winning the poster prize at #ESSB2025 🎉🥳
Stop by our posters this evening at #EMBLSpatialBiology #ESSB2025:
- @kbestak.bsky.social , Poster 48
- @margotch.bsky.social, Poster 96
- @miguelib.bsky.social, Poster 108
- @chiaraschiller.bsky.social, Poster 188
- @natgabrielli.bsky.social from @mspacealliance.bsky.social, Poster 90
- @kbestak.bsky.social , Poster 48
- @margotch.bsky.social, Poster 96
- @miguelib.bsky.social, Poster 108
- @chiaraschiller.bsky.social, Poster 188
- @natgabrielli.bsky.social from @mspacealliance.bsky.social, Poster 90
October 16, 2025 at 12:38 PM
Stop by our posters this evening at #EMBLSpatialBiology #ESSB2025:
- @kbestak.bsky.social , Poster 48
- @margotch.bsky.social, Poster 96
- @miguelib.bsky.social, Poster 108
- @chiaraschiller.bsky.social, Poster 188
- @natgabrielli.bsky.social from @mspacealliance.bsky.social, Poster 90
- @kbestak.bsky.social , Poster 48
- @margotch.bsky.social, Poster 96
- @miguelib.bsky.social, Poster 108
- @chiaraschiller.bsky.social, Poster 188
- @natgabrielli.bsky.social from @mspacealliance.bsky.social, Poster 90
If you missed @chiaraschiller.bsky.social’s talk at #EMBLSpatialBiology you can catch her at Poster 188 this evening
October 16, 2025 at 10:00 AM
If you missed @chiaraschiller.bsky.social’s talk at #EMBLSpatialBiology you can catch her at Poster 188 this evening
Are you at #EMBLSpatialBiology #ESSB2025? Catch our posters this evening:
- Nils Englert, Poster 83
- @arojhada.bsky.social, Poster 97
- @loggas.bsky.social, Poster 185
- @jawadalaaedeen.bsky.social, Poster 187
- Nils Englert, Poster 83
- @arojhada.bsky.social, Poster 97
- @loggas.bsky.social, Poster 185
- @jawadalaaedeen.bsky.social, Poster 187
October 15, 2025 at 2:01 PM
Are you at #EMBLSpatialBiology #ESSB2025? Catch our posters this evening:
- Nils Englert, Poster 83
- @arojhada.bsky.social, Poster 97
- @loggas.bsky.social, Poster 185
- @jawadalaaedeen.bsky.social, Poster 187
- Nils Englert, Poster 83
- @arojhada.bsky.social, Poster 97
- @loggas.bsky.social, Poster 185
- @jawadalaaedeen.bsky.social, Poster 187
Reposted by Schapiro Lab
Excited to be at #EMBLSpatialBiology #ESSB2025 this week and present our new 3D imaging and analysis pipeline ‘LeGO-3D’
October 15, 2025 at 1:36 PM
Excited to be at #EMBLSpatialBiology #ESSB2025 this week and present our new 3D imaging and analysis pipeline ‘LeGO-3D’
Day 2 at Spatial biology: the melting pot #EMBLSpatialBiology
October 15, 2025 at 7:32 AM
Day 2 at Spatial biology: the melting pot #EMBLSpatialBiology
We’re excited to be at @embl.org this week for Spatial Biology: the melting pot. We’re looking forward to hearing about some awesome science 🔬 #EMBLSpatialBiology
October 14, 2025 at 9:52 AM
We’re excited to be at @embl.org this week for Spatial Biology: the melting pot. We’re looking forward to hearing about some awesome science 🔬 #EMBLSpatialBiology
We’re excited to share our latest preprint with the Bone Microenvironment Group led by Therese Standal at NTNU. Congratulations @loggas.bsky.social and everyone involved!
I am excited to share my first work in @schapirolab.bsky.social on Multiple Myeloma (MM) in collaboration with the Standal Lab from NTNU Norway. We use Imaging Mass Cytometry (IMC) on bone marrow biopsies from MM and precursor patients (details below): www.biorxiv.org/content/10.1...
Highly multiplexed imaging recovers immune and metabolic niches in multiple myeloma associated with disease progression and bone involvement
Multiple myeloma (MM) is a cancer arising from genetically aberrant plasma cells (PCs) that remain dependent on the bone marrow (BM) microenvironment for disease establishment and progression. Here, w...
www.biorxiv.org
September 13, 2025 at 8:37 AM
We’re excited to share our latest preprint with the Bone Microenvironment Group led by Therese Standal at NTNU. Congratulations @loggas.bsky.social and everyone involved!
Reposted by Schapiro Lab
Register by 2 Sep and join us in Heidelberg for #EMBLSpatialBiology 👉 https://s.embl.org/spb25-01-bs
Co-organised with #ESSB, this conference will bring together top scientists and young investigators for 4 days of cutting-edge science and networking ✨
📅 14–17 Oct | 📍EMBL Heidelberg and Virtual
Co-organised with #ESSB, this conference will bring together top scientists and young investigators for 4 days of cutting-edge science and networking ✨
📅 14–17 Oct | 📍EMBL Heidelberg and Virtual
August 25, 2025 at 11:00 AM
Register by 2 Sep and join us in Heidelberg for #EMBLSpatialBiology 👉 https://s.embl.org/spb25-01-bs
Co-organised with #ESSB, this conference will bring together top scientists and young investigators for 4 days of cutting-edge science and networking ✨
📅 14–17 Oct | 📍EMBL Heidelberg and Virtual
Co-organised with #ESSB, this conference will bring together top scientists and young investigators for 4 days of cutting-edge science and networking ✨
📅 14–17 Oct | 📍EMBL Heidelberg and Virtual
We were thrilled to host visiting scholar @berombau.bsky.social earlier this year. He shares his experience in our lab and at @uniheidelberg.bsky.social here: www.uni-heidelberg.de/de/alumni/ne.... Check it out!
Internationaler Austausch als hervorragendes Beispiel für gemeinschaftliches Lernen - Universität Heidelberg
Benjamin Rombaut, Bioinformatik – Doktorand in der Forschungsgruppe „Data Mining and Modelling for Biomedicine“ am VIB-UGent Zentrum für Entzündungsforschung an
www.uni-heidelberg.de
August 19, 2025 at 10:33 AM
We were thrilled to host visiting scholar @berombau.bsky.social earlier this year. He shares his experience in our lab and at @uniheidelberg.bsky.social here: www.uni-heidelberg.de/de/alumni/ne.... Check it out!
Spotted: @loggas.bsky.social and @arojhada.bsky.social teaching phenotyping to our Advanced Systems Biology students
July 4, 2025 at 7:23 PM
Spotted: @loggas.bsky.social and @arojhada.bsky.social teaching phenotyping to our Advanced Systems Biology students
We're excited to be at the Kick Off Heidelberg Spatial-Omics Lunch Seminar Series with our very own @chiaraschiller.bsky.social presenting some of her PhD work!
July 1, 2025 at 9:52 AM
We're excited to be at the Kick Off Heidelberg Spatial-Omics Lunch Seminar Series with our very own @chiaraschiller.bsky.social presenting some of her PhD work!
Big congratulations to @sabrinalewis.bsky.social on being awarded 2nd place for her talk at the Heidelberg Postdoc Symposium 🥳🎉
July 1, 2025 at 7:31 AM
Big congratulations to @sabrinalewis.bsky.social on being awarded 2nd place for her talk at the Heidelberg Postdoc Symposium 🥳🎉
Great to see @miguelib.bsky.social attending the Medizin Informatik Initiative (MII) summer school 2025 at Kassel 👨💻💅
June 30, 2025 at 10:46 AM
Great to see @miguelib.bsky.social attending the Medizin Informatik Initiative (MII) summer school 2025 at Kassel 👨💻💅
Reposted by Schapiro Lab
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Ever wondered how to best quantify cell-cell neighbor preferences in tissues?
We compared 9+ neighbor preference (NEP) methods for analysing spatial omics data and propose a novel approach that combines the most relevant analysis features which we call COZI 🔬✨
Read more: doi.org/10.1101/2025...
Ever wondered how to best quantify cell-cell neighbor preferences in tissues?
We compared 9+ neighbor preference (NEP) methods for analysing spatial omics data and propose a novel approach that combines the most relevant analysis features which we call COZI 🔬✨
Read more: doi.org/10.1101/2025...
April 15, 2025 at 3:50 PM
1/
Ever wondered how to best quantify cell-cell neighbor preferences in tissues?
We compared 9+ neighbor preference (NEP) methods for analysing spatial omics data and propose a novel approach that combines the most relevant analysis features which we call COZI 🔬✨
Read more: doi.org/10.1101/2025...
Ever wondered how to best quantify cell-cell neighbor preferences in tissues?
We compared 9+ neighbor preference (NEP) methods for analysing spatial omics data and propose a novel approach that combines the most relevant analysis features which we call COZI 🔬✨
Read more: doi.org/10.1101/2025...
We're hiring! 🎉
We are recruiting a project / grant manager at the Institute for Computational Biomedicine in Heidelberg. Apply now and come join our team!
We are recruiting a project / grant manager at the Institute for Computational Biomedicine in Heidelberg. Apply now and come join our team!
Project- / Grants Manager (m/f/d)
karriere.klinikum.uni-heidelberg.de
March 13, 2025 at 2:25 PM
We're hiring! 🎉
We are recruiting a project / grant manager at the Institute for Computational Biomedicine in Heidelberg. Apply now and come join our team!
We are recruiting a project / grant manager at the Institute for Computational Biomedicine in Heidelberg. Apply now and come join our team!
🧵 We are excited to share our new paper, showcasing micronuclAI, which leverages #AI and #ComputerVision to detect #chromosomal_instability #CIN #micronuclei
Congratulations to @miguelib.bsky.social and Lindsay Caprio for leading this project.
Congratulations to @miguelib.bsky.social and Lindsay Caprio for leading this project.
March 7, 2025 at 3:48 PM
🧵 We are excited to share our new paper, showcasing micronuclAI, which leverages #AI and #ComputerVision to detect #chromosomal_instability #CIN #micronuclei
Congratulations to @miguelib.bsky.social and Lindsay Caprio for leading this project.
Congratulations to @miguelib.bsky.social and Lindsay Caprio for leading this project.
Reposted by Schapiro Lab