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Barun Pradhan

@staggeredends.bsky.social
156 followers 102 following 5 posts

🧬 Interested in how Transposable Elements modulate (epi)gene/transcriptome🧪 Postdoc at Faulkner Lab at Mater Research Institute, Brisbane | Alumnus at Landau Lab (Weill Cornell Medicine, New York) and Kauppi Lab (Uni of Helsinki, Finland)

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Reposted by Barun Pradhan
Geoff Faulkner @faulknerlab.bsky.social · 08/09/2026
I wrote peer review comments for a recent bioRxiv preprint from the SMaHT consortium @smahtnetwrk.bsky.social here: hyp.is/YZCCeKp1EfGb... Consortium is a $140M USD NIH Common Fund initiative to deeply sequence human tissues. I hope the comments, mainly on the mobile DNA part, are useful. #TEsky
hyp.is
Hypothesis annotation for www.biorxiv.org
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Reposted by Barun Pradhan
Gael Cristofari @retrogenomics.bsky.social · 30/07/2026
That’s a beautiful story that shows again how powerful long reads are for studying transposable elements. Exciting times! For accessing the Perspective piece without a paywall: www.science.org/eprint/NIKHD...
science.org
Why the X chromosome is rich in L1 mobile elements
Preferential insertion into the late-replicating inactive X explains L1 accumulation in this chromosome
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Reposted by Barun Pradhan
Geoff Faulkner @faulknerlab.bsky.social · 30/07/2026
Our study published today @science.org shows that X-chromosome inactivation (XCI) attracts L1 mutations to the human X chromosome: doi.org/10.1126/scie... With outstanding Perspective from @aurelien-doucet.bsky.social & @retrogenomics.bsky.social: doi.org/10.1126/scie...
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Barun Pradhan @staggeredends.bsky.social · 20/11/2025
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.
aacrjournals.org
Dynamic and Ongoing De Novo L1 Retrotransposition Contributes to Genome Plasticity and Intrapatient Heterogeneity in Ovarian Cancer
Abstract. L1 retrotransposons are the only protein-coding active transposable elements in the human genome. While typically silenced in normal cells, they are highly expressed in many human epithelial...
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Reposted by Barun Pradhan
Guillaume Bourque @guilbourque.bsky.social · 09/10/2025
🚨 New paper alert on telomeres! 🚨 Something different from the group! Thanks to Yuxin, a talented student in the lab, we used long-reads in 75 human trios to study telomeres and their inheritance.
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Reposted by Barun Pradhan
Anuj Ghimire @thebirdguy.bsky.social · 08/09/2025
If you haven't seen the news yet, the government of Nepal and the prime minister of Nepal murdered over 19 kids, some in school uniforms, and a kid that was 8 years old...just because they were protesting against their corruption and incompetence! #KPOli #Nepal www.reuters.com/business/med...
reuters.com
Nineteen killed in Nepal in 'Gen Z' protest over social media ban, corruption
At least 19 people in two cities died on Monday in Nepal's worst unrest in decades, authorities said, as police in the capital fired tear gas and rubber bullets at protesters trying to storm parliament in anger at a social media shutdown and corruption.
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Reposted by Barun Pradhan
Alex @alexpellancheng.bsky.social · 14/08/2025
Highly accurate sequencing OR high throughput? We refuse to choose. Introducing ppmSeq, a method built to deliver both. Our latest from the @landau.bsky.social lab with Ultima Genomics 👀👀👀 See ⬇️ for a primer on the next frontier of genomics www.biorxiv.org/content/10.1...
biorxiv.org
Paired plus-minus sequencing is an ultra-high throughput and accurate method for dual strand sequencing of DNA molecules
Distinguishing real biological variation in the form of single-nucleotide variants (SNVs) from errors is a major challenge for genome sequencing technologies. This is particularly true in settings whe...
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Reposted by Barun Pradhan
Alex @alexpellancheng.bsky.social · 11/04/2025
What happens when sequencing costs go ⏬ ? Imagination and new opportunities go ⏫ @landau.bsky.social Let's look at what you can do when you perform deep WGS on cfDNA for cancer detection. Our recent work with the @UltimaGenomics platform 🧵👇 Lets goooo!! rdcu.be/ehkUb
rdcu.be
Error-corrected flow-based sequencing at whole-genome scale and its application to circulating cell-free DNA profiling
Nature Methods - This work integrates duplex sequencing with cost-effective Ultima sequencing to enhance the accuracy of whole-genome circulating cell-free DNA profiling.
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Reposted by Barun Pradhan
Todd Macfarlan @toddmacfarlan.bsky.social · 08/01/2025
I'm looking for a postdoc to join my fantastic team at the NIH in Bethesda, MD. Great resources. Competitive salary. www.training.nih.gov/jobs/pdf-mb-...
training.nih.gov
Postdoc: Molecular Biology/Genetics/Developmental Biology/Evolution/Computational Biology
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Reposted by Barun Pradhan
ivanraimondi.bsky.social @ivanraimondi.bsky.social · 02/01/2025
🧬 We’re excited to introduce D&D-seq, a single-cell technology that maps DNA:Protein interactions through molecular footprinting. Check it out here: biorxiv.org/content/10.1... #Genomics #Epigenetics
biorxiv.org
Single-cell mapping of regulatory DNA:Protein interactions
Gene expression is coordinated by a multitude of transcription factors (TFs), whose binding to the genome is directed through multiple interconnected epigenetic signals, including chromatin accessibil...
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Reposted by Barun Pradhan
Ed Chuong @edchuong.bsky.social · 12/12/2024
I’m excited to share our latest study led by @giuliapasquesi.bsky.social out today in @cellpress.bsky.social , uncovering a new way transposons have been repurposed for human interferon signaling! Read on for a thread on cryptic splice variants, decoy receptors, and viruses (1/N) 👇🧵 #TESky 🧪
cell.com
Regulation of human interferon signaling by transposon exonization
Transposable element exonization can yield functional protein isoforms as seen for primate-specific IFNAR2.
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Reposted by Barun Pradhan
Raquel Garza @raquelgarza.bsky.social · 27/11/2024
🧬 🧠 Excited to see it printed! We bring key insights on the epigenetic regulation of SVAs, including SVA-XDP: a polymorphic SVA driving a rare neurodegenerative disorder @jakobssonlab.bsky.social @vivienhorvath.bsky.social #TEworldwide #Transposons #XDP #NSMB + the volume has the cutest cover 🦔
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Barun Pradhan @staggeredends.bsky.social · 23/02/2024
Excited to share this new publication where we did a comprehensive analysis of standard (short-read) 10x single-cell RNAseq data to show that the locus-specific expression of LINE-1s can be detected based on the transcriptional readthrough. rdcu.be/dzrSl
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