Maria Puschhof
@mariapuschhof.bsky.social
Computational Scientist at HI-STEM / DKFZ.
Heterogeneity in cancer | Computational Biomedicine
Heterogeneity in cancer | Computational Biomedicine
Reposted by Maria Puschhof
The final version of our multi-omics study on kidney fibrosis is out now (tinyurl.com/kidneyfibMSB). Together w/ Pepperkok + Savitski labs @embl.org, we present a time-resolved #multiomics + computational network modeling approach in combination w/ phenotypic assays to study #kidneyfibrosis
June 27, 2025 at 1:29 PM
The final version of our multi-omics study on kidney fibrosis is out now (tinyurl.com/kidneyfibMSB). Together w/ Pepperkok + Savitski labs @embl.org, we present a time-resolved #multiomics + computational network modeling approach in combination w/ phenotypic assays to study #kidneyfibrosis
Reposted by Maria Puschhof
I wrote a short piece on how becoming an IgA Nephropathy patient has changed my perspective on biomedical research, developing an appreciation for the challenges in data interpretability & availability and the importance of patient engagement www.nature.com/articles/s41...
Leveraging data as a patient–scientist: frustrations and opportunities - Nature Reviews Nephrology
The transition from data scientist to patient–scientist has given me new perspectives into clinical research and strengthened my commitment to open science. Although limitations on data availability h...
www.nature.com
June 23, 2025 at 6:19 AM
I wrote a short piece on how becoming an IgA Nephropathy patient has changed my perspective on biomedical research, developing an appreciation for the challenges in data interpretability & availability and the importance of patient engagement www.nature.com/articles/s41...
Reposted by Maria Puschhof
How does tumour heterogeneity arise? How can we predict cancer cell plasticity? In 2 new studies, we trace #glioblastoma heterogeneity to a spatial cancer cell trajectory w. multimodal cell atlassing bit.ly/4mkrWgs & predict plasticity w. snRNA/ATAC+deep learning bit.ly/3FbI6Ic 🧵
May 16, 2025 at 11:44 AM
How does tumour heterogeneity arise? How can we predict cancer cell plasticity? In 2 new studies, we trace #glioblastoma heterogeneity to a spatial cancer cell trajectory w. multimodal cell atlassing bit.ly/4mkrWgs & predict plasticity w. snRNA/ATAC+deep learning bit.ly/3FbI6Ic 🧵
Reposted by Maria Puschhof
🧠 Excited to share my main PhD project! We mapped the regulatory rules governing Glioblastoma plasticity using single-cell multi-omics and deep learning. This work is part of a two-paper series with @bayraktarlab.bsky.social @oliverstegle.bsky.social and @moritzmall.bsky.social, Preprint at end🧵👇
May 16, 2025 at 10:05 AM
🧠 Excited to share my main PhD project! We mapped the regulatory rules governing Glioblastoma plasticity using single-cell multi-omics and deep learning. This work is part of a two-paper series with @bayraktarlab.bsky.social @oliverstegle.bsky.social and @moritzmall.bsky.social, Preprint at end🧵👇
Reposted by Maria Puschhof
🎗️On #RareDiseaseDay, we raise awareness for #MYT1L Syndrome, a rare #autism-associated disorder disrupting brain development. Our research at DKFZ, ZI, and Heidelberg University Hospital shows an epilepsy drug may help—future trials ahead!
📑 www.nature.com/articles/s41...
🎥 youtu.be/nYqNEPIOc-8?...
📑 www.nature.com/articles/s41...
🎥 youtu.be/nYqNEPIOc-8?...
Gemeinsam stark: Perspektiven für Kinder mit dem seltenen MYT1L-Gendefekt
YouTube video by Deutsches Krebsforschungszentrum (DKFZ)
youtu.be
February 28, 2025 at 9:27 AM
🎗️On #RareDiseaseDay, we raise awareness for #MYT1L Syndrome, a rare #autism-associated disorder disrupting brain development. Our research at DKFZ, ZI, and Heidelberg University Hospital shows an epilepsy drug may help—future trials ahead!
📑 www.nature.com/articles/s41...
🎥 youtu.be/nYqNEPIOc-8?...
📑 www.nature.com/articles/s41...
🎥 youtu.be/nYqNEPIOc-8?...
Reposted by Maria Puschhof
#CellPlasticity—the ability of cells to change their identity—is vital for tissue growth and repair. But when it goes unchecked, it can fuel #cancer. Our latest study examines how to block #LiverCancer by actively suppressing plasticity. www.nature.com/articles/s41... #CancerBiology
February 13, 2025 at 12:16 PM
#CellPlasticity—the ability of cells to change their identity—is vital for tissue growth and repair. But when it goes unchecked, it can fuel #cancer. Our latest study examines how to block #LiverCancer by actively suppressing plasticity. www.nature.com/articles/s41... #CancerBiology
Reposted by Maria Puschhof
The final chapter of my PhD thesis is now out! 🎉 We compared the latest gene regulatory network (#GRN) inference methods for #single-cell multimodal datasets and evaluated their performance across various tasks. Hard to believe this journey started in March 2021 and has finally reached this point 😅🥳
We present Gene Regulatory nETwork Analsyis (GRETA), a framework to infer, compare and evaluate gene regulatory networks #GRNs. With it, we have benchmarked multimodal and unimodal GRN inference methods. Check the results here 👇
Paper: doi.org/10.1101/2024.12.20.629764
Code: github.com/saezlab/greta
Paper: doi.org/10.1101/2024.12.20.629764
Code: github.com/saezlab/greta
December 23, 2024 at 8:49 AM
The final chapter of my PhD thesis is now out! 🎉 We compared the latest gene regulatory network (#GRN) inference methods for #single-cell multimodal datasets and evaluated their performance across various tasks. Hard to believe this journey started in March 2021 and has finally reached this point 😅🥳
Reposted by Maria Puschhof
We present Gene Regulatory nETwork Analsyis (GRETA), a framework to infer, compare and evaluate gene regulatory networks #GRNs. With it, we have benchmarked multimodal and unimodal GRN inference methods. Check the results here 👇
Paper: doi.org/10.1101/2024.12.20.629764
Code: github.com/saezlab/greta
Paper: doi.org/10.1101/2024.12.20.629764
Code: github.com/saezlab/greta
December 23, 2024 at 8:43 AM
We present Gene Regulatory nETwork Analsyis (GRETA), a framework to infer, compare and evaluate gene regulatory networks #GRNs. With it, we have benchmarked multimodal and unimodal GRN inference methods. Check the results here 👇
Paper: doi.org/10.1101/2024.12.20.629764
Code: github.com/saezlab/greta
Paper: doi.org/10.1101/2024.12.20.629764
Code: github.com/saezlab/greta
Reposted by Maria Puschhof
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! 🥳
December 18, 2024 at 5:21 PM
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! 🥳
Hyped to be at the #ESSB #spatial #biology conference together with some of my colleagues from the @saezlab.bsky.social . Great science, beautiful venue, looking forward to the next 1.5 days...
We will be at the inaugural #ESSB conference this week in Berlin: @mariapuschhof.bsky.social a talk on multi-modal brain tumor profiling, @psl-schaefer.bsky.social @tanevski.bsky.social a poster on analyzing condition/temporal spatial data, @changlu9.bsky.social @tanevski.bsky.social [1/2]
December 12, 2024 at 11:23 AM
Hyped to be at the #ESSB #spatial #biology conference together with some of my colleagues from the @saezlab.bsky.social . Great science, beautiful venue, looking forward to the next 1.5 days...
Reposted by Maria Puschhof
We are looking for a Postdoc with a strong computational background to join our team. Want to work on the development and application of computational methods in the field of translational spatial biology? Apply now!
karriere.klinikum.uni-heidelberg.de/index.php?ac...
karriere.klinikum.uni-heidelberg.de/index.php?ac...
Postdoc – Computational Tissue Analysis (m/f/d)
karriere.klinikum.uni-heidelberg.de
December 4, 2024 at 12:39 PM
We are looking for a Postdoc with a strong computational background to join our team. Want to work on the development and application of computational methods in the field of translational spatial biology? Apply now!
karriere.klinikum.uni-heidelberg.de/index.php?ac...
karriere.klinikum.uni-heidelberg.de/index.php?ac...
Reposted by Maria Puschhof
Very pleased to announce that our package for Multiscale Spatial Analysis - MuSpAn - has landed!
The preprint is on biorxiv now, but you can find a lot more details at www.muspan.co.uk, including documentation, worked tutorials (an ever-expanding list), install guides, and how to get the code!
The preprint is on biorxiv now, but you can find a lot more details at www.muspan.co.uk, including documentation, worked tutorials (an ever-expanding list), install guides, and how to get the code!
December 9, 2024 at 2:12 PM
Very pleased to announce that our package for Multiscale Spatial Analysis - MuSpAn - has landed!
The preprint is on biorxiv now, but you can find a lot more details at www.muspan.co.uk, including documentation, worked tutorials (an ever-expanding list), install guides, and how to get the code!
The preprint is on biorxiv now, but you can find a lot more details at www.muspan.co.uk, including documentation, worked tutorials (an ever-expanding list), install guides, and how to get the code!
Reposted by Maria Puschhof
We’re thrilled to introduce MuSpAn!
For researchers in biological imaging, MuSpAn provides tools for Multiscale Spatial Analysis with advanced mathematical methods.
🌟 For more information: www.muspan.co.uk
📝 Preprint: doi.org/10.1101/2024...
We hope you find it as useful as we do! (Poster below)
December 9, 2024 at 2:30 PM
We’re thrilled to introduce MuSpAn!
For researchers in biological imaging, MuSpAn provides tools for Multiscale Spatial Analysis with advanced mathematical methods.
🌟 For more information: www.muspan.co.uk
📝 Preprint: doi.org/10.1101/2024...
We hope you find it as useful as we do! (Poster below)
Great to see the study published! Congrats to all co-authors and thanks very much for having us @juliosaezrod.bsky.social @saezlab.bsky.social on the team. A nice example of how the @aihcluster.bsky.social makes new collaborations possible.
🧵Just in time for
: New research from the Venkataramani lab @CellCellPress
maps how brain tumor cells create extensive neural networks in glioblastoma. Check out our paper here: authors.elsevier.com/sd/article/S...
@ekinreyhan.bsky.social
@svenjaktetzlaff.bsky.social
1/15
: New research from the Venkataramani lab @CellCellPress
maps how brain tumor cells create extensive neural networks in glioblastoma. Check out our paper here: authors.elsevier.com/sd/article/S...
@ekinreyhan.bsky.social
@svenjaktetzlaff.bsky.social
1/15
December 8, 2024 at 2:10 PM
Great to see the study published! Congrats to all co-authors and thanks very much for having us @juliosaezrod.bsky.social @saezlab.bsky.social on the team. A nice example of how the @aihcluster.bsky.social makes new collaborations possible.
Reposted by Maria Puschhof
Want to know how many vesicles there are in a mossy fibre synapse, without counting thousands of vesicles by hand in electron micrographs?
Our new tool SynapseNet has you covered and is now available as a preprint www.biorxiv.org/content/10.1... .
Read on for a short overview of our paper.
Our new tool SynapseNet has you covered and is now available as a preprint www.biorxiv.org/content/10.1... .
Read on for a short overview of our paper.
December 6, 2024 at 3:39 PM
Want to know how many vesicles there are in a mossy fibre synapse, without counting thousands of vesicles by hand in electron micrographs?
Our new tool SynapseNet has you covered and is now available as a preprint www.biorxiv.org/content/10.1... .
Read on for a short overview of our paper.
Our new tool SynapseNet has you covered and is now available as a preprint www.biorxiv.org/content/10.1... .
Read on for a short overview of our paper.
Reposted by Maria Puschhof
We present NetworkCommons, a unified platform 🪐 for network biology, providing access to omics data, knowledge, and contextualization methods, all with a consistent API 👇🧵
Paper: doi.org/10.1101/2024...
Docs: networkcommons.readthedocs.io
Paper: doi.org/10.1101/2024...
Docs: networkcommons.readthedocs.io
November 26, 2024 at 9:44 AM
We present NetworkCommons, a unified platform 🪐 for network biology, providing access to omics data, knowledge, and contextualization methods, all with a consistent API 👇🧵
Paper: doi.org/10.1101/2024...
Docs: networkcommons.readthedocs.io
Paper: doi.org/10.1101/2024...
Docs: networkcommons.readthedocs.io
Reposted by Maria Puschhof
Looking for a job as a #Research #Technician in #Cancer #Microbiome?
We offer a collaborative team, diversity of methods, opportunity for further training and a stimulating & fun work place at DKFZ @dkfz.bsky.social!
Apply now to our group (or share with your network):
jobs.dkfz.de/en/jobs/1671...
We offer a collaborative team, diversity of methods, opportunity for further training and a stimulating & fun work place at DKFZ @dkfz.bsky.social!
Apply now to our group (or share with your network):
jobs.dkfz.de/en/jobs/1671...
Research Technician
jobs.dkfz.de
November 25, 2024 at 4:02 AM
Looking for a job as a #Research #Technician in #Cancer #Microbiome?
We offer a collaborative team, diversity of methods, opportunity for further training and a stimulating & fun work place at DKFZ @dkfz.bsky.social!
Apply now to our group (or share with your network):
jobs.dkfz.de/en/jobs/1671...
We offer a collaborative team, diversity of methods, opportunity for further training and a stimulating & fun work place at DKFZ @dkfz.bsky.social!
Apply now to our group (or share with your network):
jobs.dkfz.de/en/jobs/1671...
Reposted by Maria Puschhof
Our Alliance provides seed-funds for testing innovative ideas develop high-end technologies.
Call for all Alliance members to apply jointly with Core Facility / Technology Platform members.
Apply by January 24, 2025.
More details on our webpage:
www.health-life-sciences.de/opportunitie...
November 25, 2024 at 2:39 PM
Our Alliance provides seed-funds for testing innovative ideas develop high-end technologies.
Call for all Alliance members to apply jointly with Core Facility / Technology Platform members.
Apply by January 24, 2025.
More details on our webpage:
www.health-life-sciences.de/opportunitie...
Reposted by Maria Puschhof
Extremely proud to see my PhD project exploring intra-tumor heterogeneity in complex karyotype AML finally out in @NatureGenet! 🎉 👩🏻🔬
They say that 10,000 hours make you an expert, so I guess after more than five years of work I’m half-way there 😅 ⬇️1/5
www.nature.com/articles/s41...
They say that 10,000 hours make you an expert, so I guess after more than five years of work I’m half-way there 😅 ⬇️1/5
www.nature.com/articles/s41...
Single-cell multiomics analysis reveals dynamic clonal evolution and targetable phenotypes in acute myeloid leukemia with complex karyotype - Nature Genetics
An integrated single-cell multiomic analysis of complex karyotype acute myeloid leukemia characterizes intratumoral heterogeneity and highlights links to therapeutic sensitivities.
www.nature.com
November 25, 2024 at 4:31 PM
Extremely proud to see my PhD project exploring intra-tumor heterogeneity in complex karyotype AML finally out in @NatureGenet! 🎉 👩🏻🔬
They say that 10,000 hours make you an expert, so I guess after more than five years of work I’m half-way there 😅 ⬇️1/5
www.nature.com/articles/s41...
They say that 10,000 hours make you an expert, so I guess after more than five years of work I’m half-way there 😅 ⬇️1/5
www.nature.com/articles/s41...
Reposted by Maria Puschhof
#Organoid research starter pack.
I didn't find many researchers from the field yet, please comment/text me to be added!
go.bsky.app/RmXgs6d
I didn't find many researchers from the field yet, please comment/text me to be added!
go.bsky.app/RmXgs6d
November 24, 2024 at 8:32 AM
#Organoid research starter pack.
I didn't find many researchers from the field yet, please comment/text me to be added!
go.bsky.app/RmXgs6d
I didn't find many researchers from the field yet, please comment/text me to be added!
go.bsky.app/RmXgs6d
Reposted by Maria Puschhof
We have created a starterpack to make it easier to follow current members and alumni from our lab, check it out 👇 (DM us if we forgot about you)
Also juliosaezrod.bsky.social has recently joined Bluesky
go.bsky.app/5ZtPHPz
Also juliosaezrod.bsky.social has recently joined Bluesky
go.bsky.app/5ZtPHPz
November 20, 2024 at 1:10 PM
We have created a starterpack to make it easier to follow current members and alumni from our lab, check it out 👇 (DM us if we forgot about you)
Also juliosaezrod.bsky.social has recently joined Bluesky
go.bsky.app/5ZtPHPz
Also juliosaezrod.bsky.social has recently joined Bluesky
go.bsky.app/5ZtPHPz