Joined September 2010
- Tweets 4,395
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- Followers 1,364
- Likes 3,187
47 Photos and videos
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19 Oct 2021
Interested in a #postdoc position to develop new sequencing methods? Come work with us! Work includes but is not limited to epigenetics, RNA mods, and single-cell/spatial transcriptomics. docs.google.com/document/d/1…
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At CSHL Biology of Genomes, May 5 to 9 🔬
See our poster on a high-throughput CUT&RUN workflow for rare immune cells, presented by Alli Hickman.
Not attending? Download it here: explore.epicypher.com/poster…
#CUTandRUN #Epigenetics
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Apr 28
Noyes et al. apply long-read sequencing to autism families identifying increased numbers of germline & postzygotic mutations. Repetitive sequences like segmental duplications are hypermutable, especially in early embryo. @EichlerEE @uwgenome @hhmi_science nature.com/articles/s41467-0…
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We have released slorado v0.5.0-beta and now it supports Nanopore DNA methylation calling (5mCG_5hmCG). Also 20% performance improvement to SUP models. Slorado supports both NVIDIA and AMD GPUs.
github.com/BonsonW/slorado/r…
@bonson_wong @GaganGdas
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May 1
POV: Your Sanger read is giving you confidence.
Meanwhile the rest of the plasmid: "we need to talk" 😅
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In 1998, I talked to Craig Venter about the feasibility of sequencing the human genome as a whole-genome shotgun project. Here's a story about that conversation stevensalzberg.substack.com/…
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The pre-print for Slorado and openfish is out. biorxiv.org/content/10.64898…
You can do @nanopore basecalling with not just NVIDIA GPU, but also using a range of AMD GPU.
Would be useful since popular GPUs are now 💸💸💸💸(& hard to buy),
Work by @bonson_wong
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23 Dec 2025
We assembled the acrocentric short arms of 23 samples from a 4-generation pedigree, revealing unique mutational and recombination patterns from these highly repetitive regions that are usually excluded in the genetic analysis. Preprint: biorxiv.org/content/10.64898…
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19 Nov 2025
We are excited to announce our most recent preprint “Single-cell long-read sequencing of the experience-induced transcriptome” (biorxiv.org/content/10.1101/…) led by @sheridan in collaboration with Richard Huganir. A few highlights:
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19 Nov 2025
For example Baiap2; which encodes an abundant scaffolding protein (Irsp53) in the postsynaptic density. We observed no differential expression, only differential splicing, resulting in loss of the C-terminal PDZ binding motif, needed for postsynaptic density localization.
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19 Nov 2025
Finally, in CA1 engram (Fos ) neurons, we found upregulated isoforms (Egr1-201, Junb-201, Arpc2-201) and downregulated isoforms (Plp1-201). Notably, Arpc2-201—a learning-linked cytoskeletal isoform—suggests structural remodeling during engram activation.
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15 Oct 2025
🦖 Something HUGE just hatched.
Plasmidsaurus now offers RNA sequencing for gene expression analysis with:
• As fast as 3 day turnaround
• $50/sample for academia, $80 for industry
• Up to ~10M unique transcript 3’ end reads per sample
• Interactive results that let you explore changes in genes and pathways
Explore Plasmidsaurus RNA-Seq today.
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8 Jun 2025
Direct detection of 8-oxo-dG using nanopore sequencing. #DNAmodifications #Nanopore #Sequencing @nanopore @NatureComms
nature.com/articles/s41467-0…
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5 May 2025
3050 Ti added.
github.com/Kirk3gaard/2025-C…
18 Apr 2025
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22 May 2025
Knowledge is power. In the studio, Matt Loose shared insights on rapid CNS profiling — and how one participant told him: “Even if the answer isn’t what you want, it’s better than not knowing at all.”
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21 May 2025
NEW review article from Henikoff and Ahmad about emerging epigenomic mapping technologies to study chromatin regulation. Very comprehensive - great for beginners and experts alike!
sciencedirect.com/science/ar…
ALT Summary of emerging technologies to study chromatin-protein interactions on native chromatin / in vivo.
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23 Apr 2025
Ski fast…and sequence faster. Plasmidsaurus now lives in Germany! 🇩🇪
Overnight sequencing for ALL of Europe
Pickup ~4PM → Results 8AM
🦖 Dropboxes in 14 European countries...and the dino is looking for MORE! Request your free dropbox here: shorturl.at/cplXq
Sequence plasmids, amplicons, bacteria, libraries, yeast, AAV, microbiomes, eukaryotes…sequence everything. No primers needed.
Big love to Dr Jan Müller, PI at the Medical University Innsbruck, Austria, for starring in this video!
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12 Apr 2025
Excited & very lucky to be part of the Gates Sr. AD Fellowship ✨
Using CARD’s long-read epigenetic data 🧬 to build better predictive models of ADRD & making all models & methods openly available (open science FTW!🔓).
Looking forward to collaborating with this awesome group!
12 Apr 2025
Meet Kimberley Billingsley, PhD! 🎉 As a Gates Sr. AD Fellow, she will use high-resolution methylation data to develop predictive models for ADRD, identify epigenetic signatures for better risk stratification and early detection, and establish accurate biomarkers. #ADRD
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