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Daniel Lipka @dblipka.bsky.social · 21d

Great to meet friends and colleagues at this year’s EWOG-MDS meeting in Berlin. We had great discussions and developed new project ideas and collaborations with the aim of improving risk stratification and patient care for JMML patients.
#jmml #ewogmds #precisionmedicine www.ewogberlin2025.org

On the Verge to Malignancy: Cytopenia and Beyond - Ewog Symposium

On the Verge to Malignancy: Cytopenia and Beyond International Symposium on bone marrow failure, predisposition, MDS and MPD in the Young Dear colleagues and friends, we are pleased to wel...

www.ewogberlin2025.org

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Reposted by Daniel Lipka

Karim-Jean Armache @kjarmache.bsky.social · 24d

On behalf of @ckadoch.bsky.social and myself, we are pleased to present our upcoming @KeystoneSymposia, #KSEpigenetics26 Epigenetics and Gene Regulation in Health and Disease, March 2-5, in Geneva, Switzerland. keysym.us/KSEpigenetic...

Epigenetics and Gene Regulation in Health and Disease: Linking Basic Mechanisms with Therapeutic Opportunities | Keystone Symposia

Join us at the Keystone Symposia on Epigenetics and Gene Regulation in Health and Disease: Linking Basic Mechanisms with Therapeutic Opportunities, March 2026, in Geneva, with field leaders!

keysym.us

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Daniel Lipka @dblipka.bsky.social · 25d

Of interest to the #epigenomics, #dnamethylation, #neurooncology, #oncology and #precisionmedicine communities! 🧬

Michael Scherer @scherermich.bsky.social · Sep 8

DNA-methylation-based deconvolution can be a powerful tool for identifying novel disease subgroups. In our paper in Acta Neuropathologica, we show how this can be leveraged in IDH-mutant gliomas - specifically in oligodendrogliomas.
doi.org/10.1007/s004...

DNA methylation analysis reveals an epigenetic signature distinctive of high-grade oligodendroglioma - Acta Neuropathologica

IDH-mutant gliomas represent a subtype of diffuse gliomas that primarily affect patients in early to mid-adolescence. These tumors are classified into three distinct CNS WHO grades of malignancy. Accu...

doi.org

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Reposted by Daniel Lipka

Michael Scherer @scherermich.bsky.social · Sep 8

DNA-methylation-based deconvolution can be a powerful tool for identifying novel disease subgroups. In our paper in Acta Neuropathologica, we show how this can be leveraged in IDH-mutant gliomas - specifically in oligodendrogliomas.
doi.org/10.1007/s004...

DNA methylation analysis reveals an epigenetic signature distinctive of high-grade oligodendroglioma - Acta Neuropathologica

IDH-mutant gliomas represent a subtype of diffuse gliomas that primarily affect patients in early to mid-adolescence. These tumors are classified into three distinct CNS WHO grades of malignancy. Accu...

doi.org

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Reposted by Daniel Lipka

Epigenome Technologies @epigenometech.bsky.social · 28d

Epigenetics Update - Fluctuating DNA methylation tracks cancer evolution at clinical scale go.nature.com/3Ve4OUy

#Epigenetics #Cancer #DNAme #DNAm
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Empower your research with high-res epigenetic insights at epigenometech.com

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Reposted by Daniel Lipka

kasitc.bsky.social @kasitc.bsky.social · Aug 18

Activity of most genes is controlled by multiple enhancers, but is there activation coordinated? We leveraged Nanopore to identify a specific set of elements that are simultaneously accessible on the same DNA molecules and are coordinated in their activation. www.biorxiv.org/content/10.1...

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Daniel Lipka @dblipka.bsky.social · Aug 30

Still two weeks left to apply to the #postdoc position in my lab via the @dkfz.bsky.social fellowship program.
#epigenomics #hematology #leukemia #computationalbiology #precisiononcology

Daniel Lipka @dblipka.bsky.social · Aug 25

+++ Postdoc Opportunity +++
My lab is looking for researchers interested in combining cutting edge #genomics, #epigenetics and #AI for precision oncology in pediatric #leukemia.
www.dkfz.de/fileadmin/us...

Applications via the #DKFZ postdoc program:
www.dkfz.de/en/karriere/...

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Reposted by Daniel Lipka

Mathieu Lupien @matlupien.bsky.social · Aug 29

Every so often, a paper lands at exactly the right moment. This one’s a gem. Can’t wait to try out this new strategy for delivering CRISPRoff chromatin-editing tools into our favorite cellular model system. Congrats to James K Nuñez and his team: www.nature.com/articles/s41...

Programmable epigenome editing by transient delivery of CRISPR epigenome editor ribonucleoproteins - Nature Communications

Epigenome editing programs gene silencing without inducing DNA breaks but challenges in delivery into human cells limit its broader use. Here, the authors present the RENDER platform, which uses virus...

www.nature.com

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Reposted by Daniel Lipka

Schubeler Lab @schubelerlab.bsky.social · Aug 7

Excited to see this published with additional data following our preprint a while back. Cool combination (in our biased view) of controlled TF expression and machine learning to decode chromatin sensitivity. www.sciencedirect.com/science/arti....

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Daniel Lipka @dblipka.bsky.social · Aug 25

+++ Postdoc Opportunity +++
My lab is looking for researchers interested in combining cutting edge #genomics, #epigenetics and #AI for precision oncology in pediatric #leukemia.
www.dkfz.de/fileadmin/us...

Applications via the #DKFZ postdoc program:
www.dkfz.de/en/karriere/...

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Reposted by Daniel Lipka

Epigenome Technologies @epigenometech.bsky.social · Aug 21

Epigenetics Update - Thymic epithelial cells amplify epigenetic noise to promote immune tolerance
go.nature.com/45srCWG

Andrew S. Koh (University of Chicago) reporting in Nature

#Epigenetics #Noise #Chromatin #Immunity
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High-resolution insights without cell sorting; epigenometech.com

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Reposted by Daniel Lipka

Thomas Walle @science-wallet.bsky.social · Aug 16

🧵Radiotherapy immune signaling is modular, redundant — and has a limit.

Together with
@joschakraske

@peterhuber_hd

@halama_immuno

@UKHD_radonc
our new study in fully human systems shows that:

t.co/GzH3N6gElf

1/9

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Reposted by Daniel Lipka

John Greally @greally.bsky.social · Aug 10

Plant #epigenetics colleagues, is this the consensus opinion?

"...these methylation marks and epiallelic variations found in natural populations are mainly attributed to genetic variations in epigenetic machinery and transposable element (TE) insertions"

pmc.ncbi.nlm.nih.gov/articles/PMC...

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Reposted by Daniel Lipka

Chymkowitch lab @chymkowitchlab.bsky.social · Aug 6

I am delighted to share a publication in @natcomms.nature.com. IRX3, linked to obesity via the FTO locus, influences fat vs bone cell fate. It is the result of a wonderful collaboration between S. Dankel, G. Mellgren @unibergen.bsky.social and my lab @biovitenskap.bsky.social 🍾
👉 rdcu.be/ezA5o

IRX3 controls a SUMOylation-dependent differentiation switch in adipocyte precursor cells

Nature Communications - Here, the authors show that IRX3 is a transcriptional master regulator of multiple histone- and chromatin-remodeling enzymes and the SUMOylation pathway in adipocyte...

rdcu.be

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Reposted by Daniel Lipka

MRC Laboratory of Medical Sciences @mrc-lms.bsky.social · Aug 5

There’s still time to apply for one of our five advertised postdoctoral positions in developmental epigenetics!

Click here to find out more and apply: lms.mrc.ac.uk/work/vacanci...

Applications close 12th August

#HiringNow #Jobs #Epigenetics

MRC Postdoctoral Research Scientists x 5 - MRC Laboratory of Medical Sciences

Applications are now open for up to five postdoctoral positions in the area of developmental epigenetics.

lms.mrc.ac.uk

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Reposted by Daniel Lipka

Elias Orouji @orouji.bsky.social · Jul 16

Happy to share our recent publication on benchmarking peak calling methods for CUT&RUN.
academic.oup.com/bioinformati...
Published in @oxunipress.bsky.social Bioinformatics | led by aminnoorani.bsky.social

#Epigenomics #Genomics #Bioinformatics #MachineLearning #CUTandRUN #CompBio #4DNucleome

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Reposted by Daniel Lipka

Stegle Lab @steglelab.bsky.social · Jul 4

📢 Announcing the MOPITAS Autumn School on Spatial Transcriptomics Data Analysis – taking place November 12–14, in Munich. Don't miss this excellent opportunity to deepen your expertise in data science and multi-OMICS analysis - especially as a PhD student in the data science community.

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Reposted by Daniel Lipka

Elizabeth McKenna @elizsmckenna.bsky.social · May 27

Now online in Cancer Discovery: Detection of Cancers Three Years Prior to Diagnosis Using Plasma Cell-Free DNA - by Yuxuan Wang, Nickolas Papadopoulos, Elizabeth Platz, Bert Vogelstein, and colleagues doi.org/10.1158/2159...

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Reposted by Daniel Lipka

Dmitri Petrov @petrovadmitri.bsky.social · Jun 3

Flybase lost all of the NIH support overnight - it is a disaster for the community. Please consider donating. I just did! www.philanthropy.cam.ac.uk/give-to-camb...

Drosophila Genetic Database

The Drosophila Genetic Database, FlyBase, is on the brink of collapse due to the sudden termination of the FlyBase NIH grant, which includes salaries for 5 literature curators based at the University ...

www.philanthropy.cam.ac.uk

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Reposted by Daniel Lipka

Josh Brickman @josh-brickman.bsky.social · Apr 25

How does metabolism act through generic chromatin modifiers promote specific cellular states? Simultaneous modification of transcription factors and chromatin, enhancing epigenetic signal to noise ratios.
www.embopress.org/doi/full/10....

Altering metabolism programs cell identity via NAD+-dependent deacetylation | The EMBO Journal

imageimageHow alterations in cell metabolism translate into specific developmental gene programs remains a major question. This study shows that forcing OXPHOS metabolism reprograms mouse embryonic stem cells (ESCs) to a more inner cell mass (ICM)-...

www.embopress.org

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Reposted by Daniel Lipka

Medhat Mahmoud @medhat.bsky.social · May 5

1/ 🧬 A Hitchhiker’s Guide to Long-Read Genomic Analysis is out now!

This mini-review walks through the latest advances in long-read DNA sequencing — from assemblies to variant calling to epigenetics.

Link 🔗 genome.cshlp.org/content/35/4...
🧵👇

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Daniel Lipka @dblipka.bsky.social · May 3

Few days left to apply for a #postdoctoral position in my team investigating the pathomechanism of IDH1 mutations at the interface of #metabolism and #epigenomics!

Daniel Lipka @dblipka.bsky.social · Apr 8

Hey #HemeSky and #EpiSci folks! We are hiring!
For our Translational Cancer Epigenomics team @dkfz.bsky.social and @nct-heidelberg.bsky.social we are looking for a talented postdoc interested in research on heme malignancies and #epigenetics.
Interested?
👉See jobs.dkfz.de/en/jobs/1676... or DM me!

Postdoctoral Researcher

jobs.dkfz.de

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Daniel Lipka @dblipka.bsky.social · May 2

Congratulations Uli! This is very well deserved!

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Reposted by Daniel Lipka

Marketa Tomkova @marketatomkova.bsky.social · Apr 28

We are recruiting! Senior postdoc in computational cancer genomics/epigenomics @ludwigcancer.bsky.social @ox.ac.uk. Lead research into epigenetic drivers of secondary AML with rich omics data + strong clinical/wet-lab collaborations.
cutt.cx/YUoB
We look forward hearing from you!

#epigenetics #jobs

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Reposted by Daniel Lipka

Duncan Sproul @sproullab.bsky.social · Apr 23

Want to work with us on DNA methylation and rare genetic disease? Fully funded PhD project with deadline 16th May:
www.findaphd.com/phds/project...
Excited to collaborate with @hannahlong.bsky.social and Daria Bunina (@uoe-igc.bsky.social/@mdc-berlin.bsky.social).
Please share 🙏
#epigenetics

Fully Funded PhD Studentship in Human Genetics, Genomics and Disease: Dissecting DNMT3B functions in Immunodeficiency-centromeric instability facial anomalies syndrome at University of Edinburgh on Fi...

PhD Project - Fully Funded PhD Studentship in Human Genetics, Genomics and Disease: Dissecting DNMT3B functions in Immunodeficiency-centromeric instability facial anomalies syndrome at University of E...

www.findaphd.com

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