Panpan Zhang
@panpan_ird
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Postdoc in @CedricFeschotte lab. Code Connoisseur, TE enthusiast, eccDNA and 3D genomes.
Ithaca, NY
Joined May 2018
RT @edchuong: I’m excited to share our latest study led by.@GiuliaPasquesi out today in @CellPressNews , uncovering a new way transposons h….
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Amazing lab retreat 😉. I LOVE the TE community and everyone I've met through #CSHLTE24. Thanks to everyone for all the knowledge/brainstorming/collaborative advice ❤️ 🥰.
Feschotte Lab richly represented at #cshlTE24 Special shout out to @TE_penthouse for bussing the gang 🚐💕 #proudPI
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Pity that I didn’t join #ICTE2024 this time, but my PIs from graduate @MANGOLAB1 and postdoc @CedricFeschotte met there! 🎉.
Nice talk of Marie Mirouze about eccDNA of TEs with @MANGOLAB1 @sophie_lanciano @panpan_ird @AbiramiSoundir1 .#ICTE2024
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Welcome 2rd year grad student Cedric 😂😂😂😂—-so funny to see different scenarios of my PI acting out: from humiliation to confidence.
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RT @ScienceMagazine: Human telomerase threatens genome integrity by adding telomeres to broken chromosomes and is held in check by ATR kina….
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RT @ItaiYanai: How did we lose our tail? A simple question. but it wasn't really asked before! We discovered a plausible scenario for the….
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🧬 Amazing follow-up on the Arc gene story! Knowing Arc is derived from a retrotransposon, retaining the gag function to create VLPs for intercellular communication. But what regulates the capsid release? And the role of Arc extracellular vesicle? Check it out #ArcGene #VLP #GAG.
New preprint 🚨 from the lab! Another paper years in the making from @AliciaRavens and Kaelan Sullivan (not on twitter). TDLR: we describe a new form of intercellular synaptic plasticity! It involves Arc and another cool protein IRSp53. 🧵/1
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RT @guilbourque: We all take repeat annotation in the human genome for granted but are we sure it's correct?. In a 🚨new paper 🚨 from the la….
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Join us for the #TransposonFest 🔥🎃.
#TransposonFest at @cornell is this Friday! 🧬➰🧬. Join us if you’re around to celebrate the darkest corners of the genome! 🎃. Symposium with 🔥 lineup will showcase some of the exciting work on TEs on our campus + guest of honor @SueWessler for McClintock Lecture @4pm💥
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RT @simocristea: coming from Jonathan, this must be a wonderful resource for understanding all the details on how population genetics actua….
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Incredible story 🌟 Truncated isoform of IFN receptor by Exonized Alu that highly expressed in many cell types: IFN receptor decoy. Can’t be more excited to learn about it!.
Excited to share our latest preprint, led by @GiuliaPasquesi , on transposons and interferon signaling! 👇 for a 🧵 on cryptic splice variants, decoy receptors, and viruses (1/N).
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In general, by sequencing both the eccDNAs and genomes of Arabidopsis epigenetic plants we detected a high eccDNA load associated with genome instability. We speculate that the abundance of eccDNA in ddm1 mutant combinations triggers alternative DNA repair pathways to SVs. 6/n
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Unexpectedly, beyond chimeric or truncated TE insertions linked to eccDNA we found large SVs in hypomethylated plants. We detected large tandem duplications (〜55kb) and small deletions in single plants of ddm1 and ddm1/polIV, complexifying the landscape of genomic variation. 5/n
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Beside findings that eccDNAs consist exclusively of TE-derived DNA, our study in ddm1/polIV/rdr6 plants unveils chimeric eccDNAs, originating from different genomic loci. Those chimeric eccDNAs, featuring truncated EVD-gene fusions, correspond to chimeric genomic insertions. 4/n.
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What's more, truncated retrotransposon that have a loss of internal domain continue to produce new insertions. 3/n
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To capture the full picture of the circles, we performed mobilome-seq using ONT long reads, and we identified truncated EVD-eccDNAs account for 52% of all EVD-eccDNAs. 2/n
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We discovered that not just the retrotransposon (EVADE), but also DNA transposon (VANDAL21) are capable of forming eccDNA structures in ddm1-derived mutants. 1/n.
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Finally my graduate work gets out after long process! In this study, we employed our lab's Mobilome-seq/eccDNA-seq methodology to delve into eccDNAs originating from transposable elements within epigenetic plant models. #eccDNA #TEs.
On #eccDNAs, SVs, epigenetic mutants and hot spot of instability at R genes, using #Nanopore. Feedback welcome! 😊
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RT @PradeepMadapura: Check out this brand new work on the role of #H4K16ac in activating transposable elements, and making them function as….
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