This is a must-read paper for those interested in chromatin 3D organization. Compartments are way smaller than generally thought
It's been a while since I posted. Pleased to announce 2 papers! Both about chromatin compartments.
Using deep sequencing in collaboration with ENCODE, we identify A and B compartments at 500 bp resolution! #3Dgenome @NatureComms
Out today: nature.com/articles/s41467-0…
See Thread.
Very important paper. Everyone planning to use Hi-C to compare changes of interactions between two conditions should read this
biorxiv.org/content/10.1101/…
We have an exciting program with amazing speakers and lots of room for talks selected from the abstracts!!!!!
Only 3 weeks left to sign up for the #GenomeArchitecture #GRS if you would like to be considered for an oral presentation! We welcome all #PhD students and #Postdocs interested in #Chromatin biology! Deadline is March 5th! #GRC
On the origin of the integrity of a subset of Topologically Associating Domains upon Cohesin loss in Interphase Chromosomes biorxiv.org/content/10.1101/…
More proof that there are two types of TADs forming by different mechanisms. Using "TAD" to refer to both of them is confusing.
1/ Of course we didn't use DTT. It makes no sense to try to analyze the state of chromatin by first destroying it with DTT. You are contaminating the sperm with DNA from the epididymis by mincing the tissue, which we don't do.
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2/ In the conditions we use, the nuclei are permeabilized based on movement of dyes into the nucleus. The DNA is extracted after ATAC-seq by proteinase K and phenol extraction, which you don't seem to do according to the manuscript.
Maybe you are not purifying the sperm properly? We don't find any cell free DNA in sperm preps from the cause epididymis and no differences between treating or not with DNase. Also, no difference with ejaculated sperm after gradient purification
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I've been teaching my 3 year-old granddaughter about TADs. She doesn't understand why they are triangles and not squares
Where is the sailboat?
Wonderful time at the Annual BMG Holiday Luncheon 2022! Incredibly proud of our lab and Happy Holidays! @NU_BMG_SQE @NUFeinbergMed
Incredibly naive understanding of how the system works. Universities will not pay for the increases. PIs will have to hire fewer postdocs and/or will move to non UC institutions
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She looks just like me
I don't normally post personal things but I need some help. Do you all think this means my lab is spending too much on @10xGenomics or just the right amount? @JayLikesGenomes
Worth reading. What can we do about the current state of gun laws in the US? Boycotting states with lax laws would be a start. No travel, seminars, or conferences in ultra-red states. Don't buy their products. Any other ideas?
science.org/doi/epdf/10.1126…
Very interesting paper with huge implications for the epigenetics field
Context-dependent transcriptional regulation by Drosophila Polycomb Response Elements biorxiv.org/content/10.1101/…
Looking forward to speaking at the 1st Research Symposium of the Clovis Community College organized by the amazing @RosaAlcazar15, who is trying to bring genomics education to all
cloviscollege.edu/events/res…
Postdoctoral position in my lab to study the role of non-coding variants in causing neurodevelopmental disorders in response to environmental changes
Victor Corces retweeted
Could #ecDNA be cancer’s Achilles’ heel? Exciting work today in @nature from @HHMINEWS Investigators @HowardYChang , Robert Tjian, @HHMIJanelia @zhejliu & colleagues: go.nature.com/3nOj6LO
Here’s how ecDNAs may contribute to #cancer – & spark new ideas for treatment 🧵 (1/10)
ALT Screenshot of article abstract. Title: ecDNA hubs drive cooperative intermolecular oncogene expression
Victor Corces retweeted
My lab is hiring a research associate to support multiple large-scale single-cell projects in AD and PD. If you know someone interested, please share. New grads looking for more experience prior to applying to MD or PhD are strongly encouraged to apply!
gladstone.wd5.myworkdayjobs.…
Nice work on transgenerational inheritance of an epiphenotype. So much evidence for this type of phenomenon, people shouldn't be skeptical anymore
rdcu.be/cz0Vr