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Josh Brickman

@josh-brickman.bsky.social
978 followers 942 following 29 posts

Developmental and Stem Cell Biologist, interested in all things gene regulation. Transcription, lineage specification, potency and plasticity.

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Josh Brickman @josh-brickman.bsky.social · 12/08/2025
Looking forward to Naama Barkai's visit tomorrow - all in copenhagen interested in biological specificity should come to hear her talk tomorrow!!!!
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Josh Brickman @josh-brickman.bsky.social · 11/08/2025
Very happy to see this nice collaboration with @niakanlab.bsky.social bear fruit. Beautiful work by @clairesimon.bsky.social culturing human embryos in the presence of FGF/ERK stimulation/inhibition. www.nature.com/articles/s41...
nature.com
Suppression of ERK signalling promotes pluripotent epiblast in the human blastocyst - Nature Communications
The authors show human embryo lineage specification in the blastocyst is driven by differential FGF/ERK signaling, which segregates yolk sac-fated hypoblast and embryonic epiblast. They establish naïv...
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Josh Brickman @josh-brickman.bsky.social · 24/06/2025
Back from the ISDB, Clearly my presence in the lab was missed!
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Josh Brickman @josh-brickman.bsky.social · 02/06/2025
Why combat aging with enhancers at 11? Why not just make 10 louder? It wouldn't be 11. For transcription, all the other processes (translation, splicing etc) are on ten, on ten, etc…where do they go? For Enhancers, everything on ten, the transcription factors deacetylate and go one higher, 11.
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Josh Brickman @josh-brickman.bsky.social · 25/05/2025
Another chapter from Martin Proks PhD. The first chapter in our nf-core saga and a new pipeline for MARS-seq! academic.oup.com/bioinformati...
academic.oup.com
nf-core/marsseq: systematic preprocessing pipeline for MARS-seq experiments
AbstractMotivation. Single sequencing technology (scRNA-seq) enables the study of gene regulation at a single cell level. Although many sc-RNA-seq protocol
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Josh Brickman @josh-brickman.bsky.social · 25/05/2025
Very nice paper - all principles at the heart of molecular biology although the logic with which evolution implements them was a mystery.
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Josh Brickman @josh-brickman.bsky.social · 22/05/2025
Alba Redo Riveiro - an amazing PhD student. One chapter in her PhD is described here. It was a great paper and a very long evolving story - www.cell.com/stem-cell-re...
cell.com
Transcription factor co-expression mediates lineage priming for embryonic and extra-embryonic differentiation
Brickman and colleagues show that an unsegregated ICM-like population arises spontaneously in naive ESC culture in KOSR media. These cells resemble the E3.5 ICM and can contribute to both epiblast and...
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Josh Brickman @josh-brickman.bsky.social · 20/05/2025
Very excited to see Melissa elected to the Royal Society. Nice triumph for old school developmental biology entering the modern world of translation. Way to go Melissa!!!! renew.ku.dk/latest-news/...
renew.ku.dk
reNEW CEO named Fellow of the Royal Society
reNEW CEO named Fellow of the Royal Society
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Josh Brickman @josh-brickman.bsky.social · 09/05/2025
And here I was thinking I need to modernize my references with Taylor - perhaps the Last Dance is further away then we think!
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Josh Brickman @josh-brickman.bsky.social · 07/05/2025
Two days left to apply to do fantastic science in a great place - come join us as a new group leader at reNEW - employment.ku.dk/faculty/?sho...
employment.ku.dk
Junior Group Leader (Associate Professor) in Stem Cell Medicine
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Josh Brickman @josh-brickman.bsky.social · 25/04/2025
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....
embopress.org
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)-...
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The EMBO Journal @embojournal.org · 25/04/2025
Altering metabolism programs cell identity via NAD+-dependent deacetylation @josh-brickman.bsky.social et al show enforced OXPHOS dependence in embryonic stem cells drives deacetylation of essential transcription factors & inner-cell-mass-like gene expression www.embopress.org/doi/full/10....
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Josh Brickman @josh-brickman.bsky.social · 03/03/2025
Really looking forward to a day in Sheffield - one of the first places In the world to work with human pluripotent cells!
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Carmelo Ferrai @carmeloferrai.bsky.social · 02/02/2025
PRC2 promotes canalisation during endodermal differentiation journals.plos.org/plosgenetics... @Robertillingwo7 @wbickmor.bsky.social @josh-brickman.bsky.social
journals.plos.org
PRC2 promotes canalisation during endodermal differentiation
Author summary Embryogenesis requires a tightly coordinated programme of cellular expansion and specialisation to gives rise to all of the cell- and tissue-types of the developing organism. In mammals...
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Josh Brickman @josh-brickman.bsky.social · 02/02/2025
Transcription ahead of chromatin regulation? Activation in endoderm occurs prior to K27me3 removal, plus much more. A tribute to our amazing collaborators @wbickmor.bsky.social and the amazing Rob Illingworth, without whom this data would have gathered dust! journals.plos.org/plosgenetics...
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Bart Deplancke @bartdeplancke.bsky.social · 06/01/2025
Superb work by Wouter @Zouters & @OlgaPushkarev developing ChromatinHD, two scale-adaptive #machinelearning models & interpretation tools that use #scRNAseq + #scATACseq data to better understand how chromatin accessibility relates to gene expression doi.org/10.1038/s414... Happy 2025 everyone 🎆 !
doi.org
ChromatinHD connects single-cell DNA accessibility and conformation to gene expression through scale-adaptive machine learning - Nature Communications
Functional chromatin changes occur at different scales. Here, the authors introduce ChromatinHD, a method that characterises differential and predictive chromatin accessibility changes in a scale-adap...
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Josh Brickman @josh-brickman.bsky.social · 14/01/2025
In the next few weeks we will start advertising for PhD students and/or post docs. We are looking for two people to join our group, one focused in pancreatic organoids and the other to join our computational team. DM if you are interested in coming to @ucph.bsky.social
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Reposted by Josh Brickman
Genetics Society UK @gensocuk.bsky.social · 06/01/2025
We have an amazing programme with fantastic speakers! @chribue.bsky.social @wbickmor.bsky.social @robklose.bsky.social @mariekeoudelaar.bsky.social @eileen-furlong.bsky.social @josh-brickman.bsky.social @parinazmehdipour.bsky.social @edchuong.bsky.social @jorge-ferrer.bsky.social @helink.bsky.social
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Josh Brickman @josh-brickman.bsky.social · 23/12/2024
Browsing through the literature as things calm down, thinking about posting now that the twittersphere has turned blue, I discover the next step change in chromatin analysis....an incredible data deluge! www.nature.com/articles/s41...
nature.com
ChIP-DIP maps binding of hundreds of proteins to DNA simultaneously and identifies diverse gene regulatory elements - Nature Genetics
ChIP-DIP (ChIP done in parallel) is a highly multiplex assay for protein–DNA binding, scalable to hundreds of proteins including modified histones, chromatin regulators and transcription factors, offe...
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Josh Brickman @josh-brickman.bsky.social · 20/12/2024
Embryologists from Amager Hvidovre Hospital visiting Brickman and @jzylicz.bsky.social labs learning about stem cell based embryo models!
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