Geoff Faulkner

Very excited to share my Phd/early post-doc work, out now in Cancer Research! Using multiomic data from multi-site tumors from ovarian cancer patients, we show that the tumors continue to acquire LINE-1 insertions after metastatic spread and find determinants of LINE-1 permissivity in this disease.

Half the Funding. Half the Future. - AAMRI The Medical Research Future Fund (MRFF) was designed to deliver $1 billion each year in new, lifesaving funding for medical research. We know through financial modelling that the full amount can be re...

The Medical Research Future Fund (MRFF) funds medical research in Australia. Only half the funds have been released. If you're an Australian and able to vote please use the form below to email your local MP to release the full amount of the MRFF
aamri.org.au/mrff/

Ha ha yes that is true. Here it is the same but a city/country divide on usage. And don't forget morning or afternoon tea actually means a snack with actual tea being optional!

Generating long deletions across the genome with pooled paired prime editing screens Engineered deletions are a powerful probe for studying genome architecture, function, and regulation. Yet, the lack of effective methods to create them in large numbers and at multi-kilobase scale has...

New 🧬✂️ pre-print! We show that paired prime editing can efficiently generate large deletions — even >1 Mb — with high precision and at scale. We use this to perform the first pooled prime deletion screen across the human genome.

🔗 biorxiv.org/content/10.1...

A short thread (by Juliane Weller)👇

Auto-inhibition of PRC2 by the broadly expressed long isoform of AEBP2 | The EMBO Journal imageimageAEBP2 is an accessory subunit of the PRC2 complex previously implicated both in promoting and antagonizing Polycomb repressive activity. This study reveals that its alternative isoforms, AEB...

1/ It's long been assumed that AEBP2 recruit PRC2 to chromatin. Now, we show that AEBP2 usually does the exact opposite:
The only isoform of AEBP2 that is expressed in most cell types and tissues inhibits the chromatin-binding activity of PRC2. www.embopress.org/doi/full/10....

Congrats Vivien !

For obvious reasons, I've become fascinated with retrotransposons. So we ( @alexwhiteley.bsky.social and I) wrote an article now out in Neuron @cellpress.bsky.social on how we think retrotransposons influence brain function and health! kwnsfk27.r.eu-west-1.awstrack.me/L0/https:%2F...

We are recuiting two new Associate Professors here in Oxford Biochemistry. Come join us! Reach out to me if you have any questions. Please repost! tinyurl.com/mr3m7bd3

We're now recruiting early career group leaders at the Crick to lead ambitious research programmes and explore bold scientific questions.

Hear our Director, Edith Heard, explain why the Crick is a unique place for curiosity-driven research.

Apply now ➡️ www.crick.ac.uk/careers-stud...

Deep Intronic SVA_E Insertion Identified as the Most Common Pathogenic Variant Associated With Canavan Disease | Neurology Genetics Background and ObjectivesCanavan disease (CD) is a neurodegenerative disorder in which biallelic pathogenic variants in ASPA result in spongiform degeneration of the cerebral white matter, leading to ...

Another neurodegenerative disease caused by an SVA insertion. Not intron retention as seen in XPD, but aberrant splicing.

Very interesting! It seems like there's a lot of these pathogenic SVAs out there that have been overlooked for various reasons.

Congrats Marco!

Our study on the role of LTR5HS and SVAs in regulation of human neural crest migration is now published as peer-reviewed paper on @molsystbiol.org!
Congrats to first author brilliant postdoc Laura Deelen, and all the authors involved! @imperialsci.bsky.social
www.embopress.org/doi/full/10....

Reawakening retrotransposons: immune modulation in normal and malignant hematopoiesis Retrotransposons are mobile repetitive elements that constitute around 43% of the human genome. Normally silenced through epigenetic mechanisms, retrotransposons can become reactivated in response to ...

Our new review is out in Trends in Cancer. We had fund writing this :) We discuss the roles of retrotransposons in immune modulation in normal and malignant
hematopoiesis. www.cell.com/trends/cance...

Applications are now open! We are recruiting 20 Assistant Professors in a wide range of subject areas. We're looking for early-career researchers with strong scientific merits and future potential.
🔗 All positions: ki.se/en/about-ki/...

LINE-1 retrotransposons mediate cis-acting transcriptional control in human pluripotent stem cells and regulate early brain development Adami et al. demonstrate that evolutionarily young L1s are expressed in human pluripotent stem cells and are dynamically regulated throughout neural differentiation. The study examines the role of L1s...

New paper from our lab! We found that LINE-1 transposons contribute to early human brain development.

Funded by @asapresearch.parkinsonsroadmap.org

www.cell.com/cell-genomic...

ADAR1 as a Placental Innate Immune Rheostat Sustaining the Homeostatic Balance of Intrinsic Interferon Response at the Maternal‐Fetal Interface This study reveals that ADAR1, an RNA-editing enzyme, fine-tunes immune responses in the placenta by preventing the accumulation of immunogenic double-stranded RNAs (dsRNAs) from interferon-stimulate...

New paper from Bin Cao, showing that placenta-specific KO of ADAR1 is embryonic lethal.

This preprint is now a published peer-reviewed paper! Thanks to all the co-authors involved, to the funders and to @reviewcommons.org and @embopress.org @emboreports.org for a smooth editorial process! Excited to see this in press! www.embopress.org/doi/full/10....

@imperiallifesci.bsky.social

Scatterplot showing fitness effect of ~7000 synonymous mutations in yeast: read count at start vs log2 fold change. Most data points are not significant but 204 points are significant outliers, either advantageous or deleterious.

At the same time, we made thousands of synonymous mutations in endogenous yeast genes and measured their growth. We used careful statistics and controls. Only 3%, 204 of 6874, had a fitness effect! This goes against a controversial recent result that most synonymous mutations had fitness effects.

UHRF2 mediates resistance to DNA methylation reprogramming in primordial germ cells - Nature Communications DNA methylation in mouse primordial germ cells (PGCs) is restricted to transposable elements, but how this unique DNA methylome is established is poorly understood. Here, the authors identify UHRF2 as...

I believe that over the past ~ two decades, since the breakthrough papers on UHRF1, this is the first reported DNA methylation phenotype of its close paralog, UHRF2 (and not for lack of trying). Congrats to Ambre Bender and Michael Weber on this fantastic study! www.nature.com/articles/s41...

Thanks for visiting!

last call!
submit your abstract by tonight to be selected for one of the many oral presentations at the leading European Transposon Meeting. We are very much looking forward to your contribution and attendance!

A phylogenetic approach uncovers cryptic endogenous retrovirus subfamilies in the primate lineage A phylogenetic approach reveals cryptic LTR subfamilies and functional insights at nucleotide resolution in primates.

Is the annotation of viruses in the human genome accurate? We think not. Take a look at our new paper and let us know if you agree! www.science.org/doi/10.1126/...

JSCBB Biotech Building in Boulder, CO

Are you bravely deciding to do a postdoc in the US? And also interested in some combination of genomics, immunology, and transposons? If so, consider applying to my lab at the BioFrontiers Institute in Boulder, Colorado!

jobs.colorado.edu/jobs/JobDeta...

🧪🧬 #TESky #interferosky

We're hiring! Need a microscopy wizard to help build the world’s first synthetic plant chromosome! Bring your lights, lasers, & lens-craft to characterise new artificial chromosomes. Join our ARIA-funded project at UWA in Perth & ‪@plants4space.bsky.social‬. Apply: bit.ly/3GKSRSA

Long-read RNA sequencing of transposable elements from single cells using CELLO-seq - Nature Protocols Single-cell long-read RNA sequencing enables the high-fidelity mapping of single-cell expression data from highly sequence-similar transposable elements to unique genomic loci by correcting errors fro...

Very happy to share our protocols paper for CELLO-seq. This will make single cell long read RNA-seq more accessible and provides analysis guidelines. We hope this helps the #transposon #TEsky community and folks working on #singleCell isoform and allelic #gene expression. doi.org/10.1038/s415...

Pls. share widely

Calling all transposon fans & lovers of genetic innovation

MOBILE GENOME welcomes you in Heidelberg, Nov. 4–7 2025

→ Vibrant & friendly community
→ Cutting-edge talks from mechanisms to physiology
→ Plenty of surprises (TEs never stop innovating)

submit abstract by July 29

Exactly two weeks left to submit your abstract to the EMBO Mobile Genome Workshop.
☝️this year we will select from abstracts 2 “long” talks to highlight last minute breakthrough from early career scientists. Apply! July 29th

Aedes albopictus (asian tiger mosquito)

🦟 Bioinformatics Research Scientist position open in my lab in Nice (FR) to study Aedes mosquito retrotransposons & their interactions with arboviruses collab w/ @salehlabparis.bsky.social & @lambrechtslab.bsky.social
Apply: euraxess.ec.europa.eu/jobs/359830
Please boost! #ArboRetro #Bioinformatics

Zincore, an atypical coregulator, binds zinc finger transcription factors to control gene expression Zinc finger proteins (ZNFs) are the largest family of transcription factors, yet how they activate gene expression remains unclear. In this study, we identified Zincore, a protein complex consisting o...

In today’s publication in Science we introduce Zincore: a novel protein of QRICH1 and SEPHS1 and functions as a transcriptional coregulator dedicated to zinc finger transcription factors. Here’s how we found it: 🧵 www.science.org/doi/10.1126/... 1/11