Guifeng Wei
@guifengwei.bsky.social
RNA modifications, X-inactivation, epigenetics, bioinformatics
https://sites.google.com/view/guifengwei/
https://sites.google.com/view/guifengwei/
Reposted by Guifeng Wei
A new and fascinating story from @bencarty.bsky.social and the group, with crucial help from the teams of @naltemose.bsky.social, Simona Giunta, and @dfachinetti.bsky.social. Many thanks to all for a fantastic collaboration.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
November 25, 2025 at 12:16 PM
A new and fascinating story from @bencarty.bsky.social and the group, with crucial help from the teams of @naltemose.bsky.social, Simona Giunta, and @dfachinetti.bsky.social. Many thanks to all for a fantastic collaboration.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Guifeng Wei
I’m a fair-weather poster on here to say the least. However, I'm pleased to present our latest paper. A great effort from all authors and an interesting insight into transcriptional regulation (we think!).
www.cell.com/molecular-ce...
www.cell.com/molecular-ce...
Sequential verification of transcription by Integrator and Restrictor
Estell and Łazowski et al. show that Integrator and Restrictor form distinct pathways
for early attenuation of RNA polymerase II: Integrator acts at the promoter-proximal
pause site, whereas Restricto...
www.cell.com
October 17, 2025 at 5:19 PM
I’m a fair-weather poster on here to say the least. However, I'm pleased to present our latest paper. A great effort from all authors and an interesting insight into transcriptional regulation (we think!).
www.cell.com/molecular-ce...
www.cell.com/molecular-ce...
Reposted by Guifeng Wei
⚠️ Paper alert: Using a novel CRISPR screening approach, we mapped the entire regulatory network controlling Xist—key for X-chromosome inactivation.
👉 We discover how sex and development signals are decoded at a single gene locus.
www.nature.com/articles/s41...
👇 Bluetorial
👉 We discover how sex and development signals are decoded at a single gene locus.
www.nature.com/articles/s41...
👇 Bluetorial
Reporter CRISPR screens decipher cis-regulatory and trans-regulatory principles at the Xist locus - Nature Structural & Molecular Biology
Here Schwämmle et al. develop CRISPR reporter screens to map transcription-factor-regulatory element interactions at the Xist locus, revealing a two-step mechanism integrating developmental and X-dosage signals to initiate X-chromosome inactivation.
www.nature.com
October 6, 2025 at 1:02 PM
⚠️ Paper alert: Using a novel CRISPR screening approach, we mapped the entire regulatory network controlling Xist—key for X-chromosome inactivation.
👉 We discover how sex and development signals are decoded at a single gene locus.
www.nature.com/articles/s41...
👇 Bluetorial
👉 We discover how sex and development signals are decoded at a single gene locus.
www.nature.com/articles/s41...
👇 Bluetorial
Thrilled to share our new Brockdorff lab paper at NSMB: we show that the primary role of m6A RNA modification on Xist is to promote RNA degradation. Xist turnover is mediated by the NEXT complex, not PAXT, and is independent of the m6A reader YTHDC1. www.nature.com/articles/s41...
m6A and the NEXT complex direct Xist RNA turnover and X-inactivation dynamics - Nature Structural & Molecular Biology
Wei et al. show that the primary function of m6A on the nuclear long noncoding RNA Xist, a master regulator of X inactivation, is to promote RNA degradation. Xist turnover is mediated by the nuclear e...
www.nature.com
September 9, 2025 at 10:49 AM
Thrilled to share our new Brockdorff lab paper at NSMB: we show that the primary role of m6A RNA modification on Xist is to promote RNA degradation. Xist turnover is mediated by the NEXT complex, not PAXT, and is independent of the m6A reader YTHDC1. www.nature.com/articles/s41...
Reposted by Guifeng Wei
Today, I would like to honor the memory of Roger Y. Tsien, who died on August 24, 2016. His legacy lives with all who use his technologies, including calcium sensors, fluorescent proteins, the acetoxymethyl (AM) ester, & many more! #FluorescenceFriday
www.nature.com/articles/nme...
www.nature.com/articles/nme...
August 22, 2025 at 1:17 PM
Today, I would like to honor the memory of Roger Y. Tsien, who died on August 24, 2016. His legacy lives with all who use his technologies, including calcium sensors, fluorescent proteins, the acetoxymethyl (AM) ester, & many more! #FluorescenceFriday
www.nature.com/articles/nme...
www.nature.com/articles/nme...
Reposted by Guifeng Wei
New method drop:
HCR-Proxy, a modular proximity labelling approach to profile local proteome composition around RNA at nanoscale, subcompartmental resolution. Thereby we resolved nested nucleolar layers and uncovered the grammar of spatial protein partitioning.
www.biorxiv.org/content/10.1...
HCR-Proxy, a modular proximity labelling approach to profile local proteome composition around RNA at nanoscale, subcompartmental resolution. Thereby we resolved nested nucleolar layers and uncovered the grammar of spatial protein partitioning.
www.biorxiv.org/content/10.1...
June 2, 2025 at 10:30 AM
New method drop:
HCR-Proxy, a modular proximity labelling approach to profile local proteome composition around RNA at nanoscale, subcompartmental resolution. Thereby we resolved nested nucleolar layers and uncovered the grammar of spatial protein partitioning.
www.biorxiv.org/content/10.1...
HCR-Proxy, a modular proximity labelling approach to profile local proteome composition around RNA at nanoscale, subcompartmental resolution. Thereby we resolved nested nucleolar layers and uncovered the grammar of spatial protein partitioning.
www.biorxiv.org/content/10.1...
Reposted by Guifeng Wei
Check out the latest study from our lab, led by Coffee Xiang (@coffeebond007.bsky.social) www.nature.com/articles/s41... (1/2)
PAL-AI reveals genetic determinants that control poly(A)-tail length during oocyte maturation, with relevance to human fertility - Nature Communications
Gene regulation in oocytes relies heavily on poly(A) tail-length changes. Here, the authors develop PAL-AI, a neural network model that predicts tail-length changes, identifies regulatory motifs, and ...
www.nature.com
August 2, 2025 at 3:00 PM
Check out the latest study from our lab, led by Coffee Xiang (@coffeebond007.bsky.social) www.nature.com/articles/s41... (1/2)
Reposted by Guifeng Wei
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...
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...
doi.org
July 16, 2025 at 4:55 PM
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...
Fresh preprint by @flavia-con.bsky.social from our lab uncovers how SMCHD1 finds & binds chromatin using live-cell single-molecule imaging🔬
She reveals how SMCHD1 dynamically engages chromatin, including the inactive X chromosome, to maintain gene silencing.
www.biorxiv.org/content/10.1...
She reveals how SMCHD1 dynamically engages chromatin, including the inactive X chromosome, to maintain gene silencing.
www.biorxiv.org/content/10.1...
Selective interaction of the protein SMCHD1 with specific chromatin regions is governed by the loading factor LRIF1 and SMCHD1 ATPase activity
The chromosomal protein SMCHD1 is a GHKL ATPase that plays important roles in epigenetic silencing, including on the inactive X chromosome (Xi) and at the D4Z4 macrosatellite linked to regulation of D...
www.biorxiv.org
June 26, 2025 at 7:35 PM
Fresh preprint by @flavia-con.bsky.social from our lab uncovers how SMCHD1 finds & binds chromatin using live-cell single-molecule imaging🔬
She reveals how SMCHD1 dynamically engages chromatin, including the inactive X chromosome, to maintain gene silencing.
www.biorxiv.org/content/10.1...
She reveals how SMCHD1 dynamically engages chromatin, including the inactive X chromosome, to maintain gene silencing.
www.biorxiv.org/content/10.1...
Reposted by Guifeng Wei
Excited to share our new paper on Nature - how Ku accommodates Alu expansion in primates by binding to dsRNA, providing a clue for both the high levels of Ku and its essentiality in human cells. Thank @chaolinzhang @hchung03 @LenaSteckelberg More to come www.nature.com/articles/s41...
Ku limits RNA-induced innate immunity to allow Alu-expansion in primates - Nature
Nature - Ku limits RNA-induced innate immunity to allow Alu-expansion in primates
www.nature.com
May 16, 2025 at 11:11 PM
Excited to share our new paper on Nature - how Ku accommodates Alu expansion in primates by binding to dsRNA, providing a clue for both the high levels of Ku and its essentiality in human cells. Thank @chaolinzhang @hchung03 @LenaSteckelberg More to come www.nature.com/articles/s41...
Reposted by Guifeng Wei
An emotional day today @oxfordbiochemistry.bsky.social where leaders in the cell cycle field gathered to celebrate the life of Bela Novak and the huge impact he had on their work! www.bioch.ox.ac.uk/article/prof...
Professor Bela Novak (1956–2025): A Life of Scientific Discovery in Numbers
It is with profound sorrow that we announce the passing of Professor Béla Novák
www.bioch.ox.ac.uk
May 9, 2025 at 3:36 PM
An emotional day today @oxfordbiochemistry.bsky.social where leaders in the cell cycle field gathered to celebrate the life of Bela Novak and the huge impact he had on their work! www.bioch.ox.ac.uk/article/prof...
Reposted by Guifeng Wei
Long-range massively parallel reporter assay reveals rules of distal enhancer-promoter interactions
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
April 23, 2025 at 1:10 AM
Long-range massively parallel reporter assay reveals rules of distal enhancer-promoter interactions
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
I can’t believe this. He is so kind and friendly.
Still hard to believe but Béla Novák died suddenly on Saturday.
We've lost a fantastic colleague, mentor & great friend to many. There was really no-one else like him. Working with him was so much fun & I owe him a lot. All my thoughts are with his family.
www.merton.ox.ac.uk/news/remembe...
We've lost a fantastic colleague, mentor & great friend to many. There was really no-one else like him. Working with him was so much fun & I owe him a lot. All my thoughts are with his family.
www.merton.ox.ac.uk/news/remembe...
Remembering Professor Béla Novák 1956 - 2025
With great sadness, we announce the loss of Professor Béla Novák.
www.merton.ox.ac.uk
February 25, 2025 at 2:54 PM
I can’t believe this. He is so kind and friendly.
Reposted by Guifeng Wei
Prime editing is precise and flexible, but it can require a lot of optimization. This post will give you some tips to get started making your prime edit as effective as possible!
blog.addgene.org/des...
blog.addgene.org/des...
Design Tips for Prime Editing
This post provides tips for designing a prime editing experiment, from pegRNA design, PE tool selection, and choice of DNA sequence to edit.
blog.addgene.org
January 23, 2025 at 3:15 PM
Prime editing is precise and flexible, but it can require a lot of optimization. This post will give you some tips to get started making your prime edit as effective as possible!
blog.addgene.org/des...
blog.addgene.org/des...
Reposted by Guifeng Wei
I am thrilled to share our latest work, released today 🤩
www-nature-com.insb.bib.cnrs.fr/articles/s41...
It results from years of hard work by the team and long-time collaborators, with special thanks to PhD student Clara Roidor and collaborator Laurène Syx.
www-nature-com.insb.bib.cnrs.fr/articles/s41...
It results from years of hard work by the team and long-time collaborators, with special thanks to PhD student Clara Roidor and collaborator Laurène Syx.
January 21, 2025 at 10:34 AM
I am thrilled to share our latest work, released today 🤩
www-nature-com.insb.bib.cnrs.fr/articles/s41...
It results from years of hard work by the team and long-time collaborators, with special thanks to PhD student Clara Roidor and collaborator Laurène Syx.
www-nature-com.insb.bib.cnrs.fr/articles/s41...
It results from years of hard work by the team and long-time collaborators, with special thanks to PhD student Clara Roidor and collaborator Laurène Syx.
Preprint alert. Excited to share our latest work. We demonstrate that the primary function of m6A on Xist is to promote RNA degradation. www.biorxiv.org/content/10.1...
January 10, 2025 at 5:58 PM
Preprint alert. Excited to share our latest work. We demonstrate that the primary function of m6A on Xist is to promote RNA degradation. www.biorxiv.org/content/10.1...
Reposted by Guifeng Wei
Here it is! Congratuations to @jesskelley.bsky.social @edimitrova.bsky.social @neilblackledge.bsky.social @aleksszczurek.bsky.social and the rest of the team (Maciej, Amy, and Hieu). This was a fab collaboration with Arminja Kettenbach. Also see a lovely complementary paper from Fei Chen's group.
Very excited that our paper describing a critical role for the PNUTS-PP1 phosphatase complex in transcription pause release is up online! This was a massive team effort with @edimitrova.bsky.social and the rest of the @robklose.bsky.social lab www.cell.com/molecular-ce... A short thread: (1/8)
The PNUTS phosphatase complex controls transcription pause release
Kelley et al. discover that the PNUTS phosphatase complex plays an essential role
in gene transcription by controlling RNA polymerase II pause release. PNUTS achieves
this through its TND, which recog...
www.cell.com
November 26, 2024 at 5:03 PM
Here it is! Congratuations to @jesskelley.bsky.social @edimitrova.bsky.social @neilblackledge.bsky.social @aleksszczurek.bsky.social and the rest of the team (Maciej, Amy, and Hieu). This was a fab collaboration with Arminja Kettenbach. Also see a lovely complementary paper from Fei Chen's group.
Reposted by Guifeng Wei
Great thread on our paper from Jan👇
Our latest paper, a fantastic collaboration with the Mendell Lab, is out. Great work by Xiaoqiang Zhu and Victor Cruz. We uncover how tRNA structural features in the ribosomal P-site modulate co-translational mRNA decay by the CCR4-NOT complex. #RNAsky #RNAbiology #translation #ribosome #cryoEM 1/5
www.science.org
November 22, 2024 at 6:39 PM
Great thread on our paper from Jan👇
Reposted by Guifeng Wei
(1st post @BlueSky) Preprint alert🚨a long thread. Cautions in the use of @nanopore sequencing to map DNA modifications: officially reported “accuracy” ≠ reliable mapping in real applications. We performed a critical assessment of nanopore sequencing (across different versions of models) for the 1/n
November 20, 2024 at 11:41 AM
(1st post @BlueSky) Preprint alert🚨a long thread. Cautions in the use of @nanopore sequencing to map DNA modifications: officially reported “accuracy” ≠ reliable mapping in real applications. We performed a critical assessment of nanopore sequencing (across different versions of models) for the 1/n
Reposted by Guifeng Wei
I've been meaning to write a lengthy thread about our experiences with DNA methylation editing in mouse ESCs if that would be useful (or interesting?) for a niche audience here. tl;dr: it was frustrating but we learned a lot, and it ended with our shiny new pub (1/17) www.nature.com/articles/s41...
November 12, 2024 at 9:38 PM
I've been meaning to write a lengthy thread about our experiences with DNA methylation editing in mouse ESCs if that would be useful (or interesting?) for a niche audience here. tl;dr: it was frustrating but we learned a lot, and it ended with our shiny new pub (1/17) www.nature.com/articles/s41...