Elphege Nora Lab at UCSF
@ElphegeNoraLab
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Our laboratory seeks to understand how chromosome structure relates to genome functions Tweets by Elphege
San Francisco, CA
Joined December 2018
First preprint from the lab šØ. How can enhancers regulate target promoters across vast genomic distances, and what is the role of cohesin loop extrusion in the process?. (1).
biorxiv.org
Enhancers are critical genetic elements controlling transcription from promoters, but the mechanisms by which they convey regulatory information across large genomic distances remain elusive. Here,...
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RT @Dev_journal: Target gene responses differ when transcription factor levels are acutely decreased by nuclear export versus degradationā¦.
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RT @MartyYang: Ecstatic to share the first story from my post-doc, co-led with Megan Ostrowski, out now in final form (.
cell.com
By developing a long-read sequencing method to simultaneously map replication status and protein-DNA contacts in cells, Ostrowski, Yang, etĀ al. show that newly replicated chromatin is enriched for...
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RT @jane_skok: Thrilled to share our new preprint, 'A genome wide code to define cell-type specific CTCF binding and chromatin organizationā¦.
biorxiv.org
CTCF-mediated chromatin folding plays a key role in gene regulation, however the mechanisms underlying cell type-specific control are not fully elucidated. Comprehensive analyses reveal that CTCF...
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RT @QuintanaMurci: āHuman Peoplesā is out @PenguinBooks.A genetic journey through how migrations, admixture (among humans and with Neandertā¦.
amazon.co.uk
Human Peoples: On the Genetic Traces of Human Evolution, Migration and Adaptation
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RT @NAltemose: Iām excited to share the first preprint out of the Altemose Lab! This stems from a heroic effort by Dr. Matt Franklin @matt_ā¦.
biorxiv.org
Eukaryotic genomes are frequently littered with large arrays of tandem repeats, called satellite DNA, which underlie the constitutive heterochromatin often found around centromeric regions. While...
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RT @jrichardalbert: In short, we investigated the impact of DNA methylation (5-methyl-CpG) on 1. CTCF promoter-enhancer looping and 2. Polyā¦.
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RT @m_alexanian: šExcited to finally share that our new work (previously @biorxivpreprint) is now online at @Nature! A fantastic team efforā¦.
nature.com
Nature - Conditional deletion of the transcriptional co-activator Brd4 in infiltrating Cx3cr1+ mouse macrophages ameliorates heart failure and substantially reduces fibroblast activation.
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RT @Jesse_R_Dixon: Itās a bit belated, but I am happy to share the latest work from our group, led by a very talented post doc in the lab,ā¦.
biorxiv.org
The organization of the genome in three-dimensional space is highly dynamic, yet how these dynamics are regulated and the role they play in genome function is poorly understood. Here, we utilized...
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RT @Xingjie_Ren: We @YinShenLab are excited to share our work on the functional characterization of enhancers of neuropsychiatric risk geneā¦.
biorxiv.org
Precise transcriptional regulation is critical for cellular function and development, yet the mechanism of this process remains poorly understood for many genes. To gain a deeper understanding of the...
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CTCF, just like any transcription factor, binds its target sites on and off. Turns out considering this dynamic is essential to explain chromosome folding patterns from Hi-C and microscopy, and how they rearrange upon tampering with cohesin. What an exciting manuscript! š.
Happy to share work with Hadi, Yao & @Maxime_Tortora characterizing the impact of dynamic CTCF barriers for cohesin loop extrusion.
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RT @EddaGSchulz: š¢ New preprint from the lab! .CRISPR-screening wizard š§ š§¬ @TSchwammle figured out how different signals š¦ are integrated aā¦.
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1 week left to apply to the open-rank faculty search for the UCSF dept. of Biochemistry & Biophysics. All area of fundamental biology are welcome. Reach out if you have any questions.
Our department of Biochemistry and Biophysics at the University of California San Francisco is recruiting tenure-track faculty. We welcome all areas of biology across models - from single molecules to organisms and ecosystems. Deadline Oct 15 2024.Pls RT.
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RT @pablonavarroLAB: After a massive team effort leaded by the incomparable @NicolaFestuccia I am really happy to share our freshly publishā¦.
science.org
Early embryogenesis is driven by transcription factors (TFs) that first activate the zygotic genome and then specify the lineages constituting the blastocyst. Although the TFs specifying the blasto...
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@KarissaLHansen @dewit @geoff @RobertBlelloch @_RiniShah @Erikacander @LucaBraccioli @bffswithbiology (21) Oops, wrong X handle š
.- meant to tag the one and only Geoff Fudenberg @gfudenberg for key contributions to the transcriptomic analyses and stimulating ideas.
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@KarissaLHansen @dewit @geoff @RobertBlelloch (20) Additional authors on X: @_RiniShah @Erikacander @LucaBraccioli @bffswithbiology @RobertBlelloch.
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19) This was a heroic effort by graduate student.@KarissaLHansen, who created more engineered cell lines than we can count with the help of genome editor extraordinaire Annie Adachi, and many wonderful collaborators in our lab and in @deWit, @Geoff & @RobertBlelloch groups.
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(18) How does the SRR2 work to boost the effect of distal enhancers? Condensate biophysics? Unknown looping factors? š¤·. How can we hunt for similar elements across the genome & across cell types? š§Ŗš§¬ā. We would love to know ā check out the paper for some discussion.
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(17) So itās not that complicated in the end:. If you rely on an enhancer, you will need cohesin extrusion beyond ~18kb. UNLESS you have a promoter-proximal regulatory element that can synergize with your distal enhancer ā which happens independently of cohesin.
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(16) Why? Quite simply, you have now removed the two redundant axes that support long-range enhancer action at Sox2.
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