pubs.acs.org/doi/full/10.10… Last bit of my PhD work, a four-armed cross-linker (Bisby) prepared by SPPS and a real-time ms3 targeting method written in ITCL based on Chad's original ReACT implementation running on our Velos-FTICR with mito samples from Arianne Caudal.

I'm pleased to share an alpha version of GRanges, a Rust library for working with genomic ranges and their associated data. I wondered if it was possible to write a library that: 1. Has tidyverse-like syntax for genomic data manipulation. 2. Is extremely performant. It is.🚀

What high-performance language to learn in bioinformatics? I have been asked many times on the question, so I decided to write down my thought in a blog post. This is going to be controversial. lh3.github.io/2024/03/05/wha…

I'm absolutely thrilled to share that our work on human centromere variation and evolution has been published in nature! We completely sequenced all centromeres from a second human genome & compared them to those from the first complete human genome, uncovering new sequences,

I understand imitation is the sincerest form of flattery, but as junior faculty it is frustrating when Oxford Nanopore copies the figures of your work verbatim without any credit. youtube.com/watch?v=1NkBr3… Figure 1: biorxiv.org/content/10.110… Figure 4: biorxiv.org/content/10.110…

UW Genome Sciences Hackathon Leads to New Long-Read Sequencing Technology brotmanbaty.org/news/uw-genome…

A haplotype-resolved view of human gene regulation biorxiv.org/cgi/content/sh… #biorxiv_genomic

Fibertools is published in Genome Research! Ultra-fast m6A calling for PacBio #Fiberseq. Seamless processing of any long-read epigenetic or genetic data. Wonderful collaboration (tinyurl.com/3t3zz29f) led by Mitchell R. Vollger Anupama Jha and Dr. Bohaczuk. genome.cshlp.org/content/early/…

Thrilled to share the culmination of 4 years of #Fiberseq research enabling the accurate quantification of chromatin accessibility across the 6 Gbp diploid human genome with single-molecule and single-nucleotide precision. See thread for the main findings biorxiv.org/content/10.110…

From Mitchell R. Vollger (Stergachis lab): analysis of haplotype-resolved PacBio HiFi FiberSeq genome reveals >1,000 regulatory elements with haplotype-selective chromatin accessibility (HSCA), with HLA being the most diverse locus. Accurate quantification of chromatin accessibility

Thrilled to present our collaboration w/ Stergachis Lab members “The regulatory potential of transposable elements in maize”. Single-molecule Fiber-seq - accurate and sensitive accessibility in maize. New open chromatin regions in LTRs and much more! biorxiv.org/cgi/content/sh…

Climate change be damned! Out in Nature Communications, we interrogated over 54k plant terminator sequences to synthetically design robust terminators for crop engineering. tinyurl.com/d63n894r

Anyone in bioconda able to help me merge a new recipe for a bedtools written in #Rust (gia)? It’s been really a nice speedup for me in certain situations and I want to use it in my pipelines :) (I am not the author, just added the recipe) github.com/bioconda/bioco…

I'm happy to share the results of my rotation with Heng Li: biorxiv.org/content/10.110… We co-assembled reads from paired tumor-normal samples, then examined the structure of the co-assembly graph to identify large-scale somatic structural variation (focusing on translocations)

Eichler grad student Xavi Guitart’s 1st first-author paper "Independent expansion, selection and hypervariability of the TBC1D3 gene family in humans" has been accepted to Genome Research. Check it out: genome.cshlp.org/content/early/…. Xavi Guitart

My new lab at Yale Biomedical Informatics & Data Science is looking for a couple of postdocs, students and RAs in bioinformatics, genomics, machine learning and related fields (postdocs.yale.edu/postdoctoral-a…). Heartfelt thanks to my mentor Heng Li and collaborators for their incredible support!

Congrats Dr. Michelle Noyes Michelle Noyes! You conquered the academic battlefield w/ your brilliant defense: a masterclass in dedication, knowledge, & eloquence w/ your unique quirkiness. This milestone is a testament to your hard work & perseverance. To your future success!

I am going on the faculty job market this year, so if your home department is starting a search, I'd love to hear about it. Thanks!

"Are plasmids chromatinized?" 🤔 Excited to share this manuscript from my PhD work tackling this question! Check out our pre-print for the answer 👀. Huge thanks to my advisors Lea Starita and Stergachis Lab and all co-authors who made this work possible!