Mike Schatz
@mikeschatz.bsky.social
Bloomberg Distinguished Professor at Johns Hopkins University. http://schatz-lab.org
!!!Reminders!!! Applications due Wed Aug 5 for the @jxtxFoundation scholarships for the @CSHL Biological Data Science conference. Abstracts due Aug 14 for consideration as a talk. #cshldata26 Apply for scholarship: bit.ly/jxtx-biodata26 Conference Info: bit.ly/cshl-biodata26
JXTX + CSHL 2026 Biological Data Science Scholarship
JXTX + CSHL 2026 Biological Data Science Scholarship
bit.ly
Application portal is open for travel and registration scholarships from the @jxtxfoundation.bsky.social to the CSHL Biological Data Science conference. Applications are due by Aug 5 #cshldata26 #methodsmatter Apply here: jxtxfoundation.org/news/2026-06... Learn more: bit.ly/cshl-biodata26
JXTX + CSHL 2026 Biological Data Science Scholarship
JXTX + CSHL 2026 Biological Data Science Scholarship
jxtxfoundation.org
Registration is open for AGBT Precision Health on Sept 14-16 at the beautiful Coronado Bay Resort in San Diego. Abstracts are due by July 21. #agbtph26 @agbt.bsky.social Learn more here: www.agbtprecisionhealth.org Submit abstracts here: www.agbtprecisionhealth.org/abstracts
Registration is open for the CSHL Biological Data Science conference on Nov 4-7, 2026. Check out this awesome list of keynote speakers and session chairs. Learn more here: bit.ly/cshl-biodata26
🚨 MANUSCRIPT ALERT 🚨 The VGP Phase I manuscript pre-print is now live on bioRxiv! 🧬 doi.org/10.64898/202... Over 8 years, the VGP generated reference genomes for more than 800 vertebrate species, spanning ~95% of vertebrate orders and delivering some of the highest-quality genomes ever produced.
In the @hopkinsengineer.bsky.social magazine: “The soil is the most biologically active environment on the planet, and yet we’ve sampled only a tiny fraction of life within it,” says senior author @jhu-bdps.bsky.social @mikeschatz.bsky.social.
Mobilizing to Map the U.S. Soil Microbiome - Johns Hopkins Engineering Magazine
A team including Hopkins geneticists and students has already discovered more than 1,000 new strains of bacteria and microbes.
engineering.jhu.edu
Our previously preprinted study "Influence of cis-regulatory elements on expression divergence in human segmental duplications" is now published in @genomeresearch.bsky.social! Please check it out: genome.cshlp.org/content/earl...
genome.cshlp.org
Megan Dennis@mydennis.bsky.social · 10mo agoHappy to share work spearheaded by former grad student Colin Shew testing shared duplicated cis regulatory elements (CREs) using an MPRA. While we find some high effect CREs, collectively paralog differences represent modest effects accounting for observed gene expression divergence.
Friday was my last day at NHGRI. After 10 wonderful years, my lab is headed to Johns Hopkins University genomeinformatics.github.io/movingday/
We're moving!
Friday was my last day at NHGRI. After 10 wonderful years, my lab is headed one hour north on I-95 to set up shop at Johns Hopkins University. This is a very bittersweet move for me, as NHGRI has prov...
genomeinformatics.github.io
Evan Eichler on using near-complete human genomes to more fully understand mutational processes #MITS2026
Join GTA2026 and hear from guest speaker Aaron Quinlan, a leader in computational genomics and open-source bioinformatics tools like BEDTools and Mosdepth. Join us May 18–22 for a free, virtual week of learning, and stay tuned for more guest speaker reveals. Learn more: gxy.io/GTA2026-info
#PlantScienceClassics #13: Floral Dip. ~25 years ago, in 1998, Steven Clough & Andrew Bent published their ingeniously simple Arabidopsis transformation protocol in #ThePlantJournal: Dipping a plant upside down into Agrobacterium solution - et voilà! doi.org/10.1046/j.13...
1/ Excited to share my first first-author preprint from my PhD! We introduce Perseus, a lineage-aware confidence estimation framework for taxonomic classification in long-read metagenomics. Preprint: www.biorxiv.org/content/10.6... Code: github.com/matnguyen/Pe...
biorxiv.org
JHU Friends! Living legend Vint Cerf is presenting on Tuesday Feb 10 @ 10:30. Vint is widely recognized as one of "the fathers of the Internet" and will be presenting on where the internet came from, what’s happening to it now, and where it will go in the future: www.cs.jhu.edu/event/gerald...
Gerald M. Masson Distinguished Lecture Series: Internet Past, Present, and Future - Department of Computer Science
Refreshments are available starting at 10:30 a.m. The seminar will begin at 10:45 a.m. Abstract We will take a 70-year look (1969–2039) at the internet: where it came from, what’s…
cs.jhu.edu
AlphaGenome is out in @nature.com today along with model weights! 🧬 📄 Paper: www.nature.com/articles/s41... 💻 Weights: github.com/google-deepm... Getting here wasn’t a straight path. We discussed the story behind the model, paper & API in the following roundtable: youtu.be/V8lhUqKqzUc
Interesting in the CSHL Biology of Genomes conference, but need support attending? The @jxtxfoundation.bsky.social will provide support to 3 students in genomics and data sciences to attend. The deadline is Jan 31, 2026 and just takes a short bio and abstract: jxtxfoundation.org/news/2025-12...
JXTX + CSHL 2026 Biology of Genomes Scholarship
JXTX + CSHL 2026 Biology of Genomes Scholarship
jxtxfoundation.org
Pregnancy loss is common in humans, and chromosomal abnormalities are the leading cause. Using genetic data from ~140,000 IVF embryos, we show that maternal variation in meiosis genes influences recombination and aneuploidy risk. First authors: @saracarioscia.bsky.social & @aabiddanda.github.io
Common variation in meiosis genes shapes human recombination and aneuploidy - Nature
Analysis of data from pre-implantation genetic testing sheds light on the genetic basis of meiotic-origin aneuploidy, the leading cause of human pregnancy loss, identifying common genetic variants ass...
nature.com
Consider applying for the Robert E. Chason Endowed Chair in Translational Research at the UC Davis MIND Institute! Join a vibrant community of colleagues studying neurodevelopment conditions like autism. UC Davis is an excellent place to work and live. Find more details here: lnkd.in/gZRyViNa
Robert E. Chason Endowed Chair in Translational Research, MIND Institute
University of California, Davis is hiring. Apply now!
lnkd.in
We are thrilled to announce the first official release (v0.1.8) of #𝗯𝗲𝗱𝗱𝗲𝗿, the successor to one of our flagship tool, #𝗯𝗲𝗱𝘁𝗼𝗼𝗹𝘀! Based on ideas we conceived of long ago (!), this was achieved thanks to the dedication of Brent Pedersen. 1/n
Intro to Bedder – The Quinlan Lab
quinlanlab.org
“I’m currently involved in a study where we’re using these technologies to study pancreatic cancers,” says @jhu-bdps.bsky.social @mikeschatz.bsky.social. We’re finding things that are only possible because of this new genome and these new technologies.”
Putting our pieces together
For more than half a century, Johns Hopkins has been a leader in converting federal support into tangible benefits for the American people—such as correcting maps of the human genome.
cs.jhu.edu
I am recruiting graduate students for the experimental side of my lab @mcgill.ca for admission in Fall 2026! Get in touch if you're interested in how brain circuits implement distributed computation, including dopamine-based distributed RL and probabilistic representations.
Ben Langmead @benlangmead.bsky.social delivers the official opening for this year's Genome Informatics Conference #GI2025 at Cold Spring Harbor Laboratory. List of talks and posters: meetings.cshl.edu/abstracts.as...
On the last day of #ASHG25, attending a telomere session entitled "end results" seems fitting. It's been a great meeting talking with vibrant young geneticists, and on this note, I'm hiring a postdoc! thejacksonlaboratory.wd503.myworkdayjobs.com/External_JAX...
Postdoctoral Associate
The Beck Lab is seeking an enthusiastic, independent, and highly motivated postdoctoral fellow to join our innovative research group at the Jackson Laboratory for Genomic Medicine and University of Co...
thejacksonlaboratory.wd503.myworkdayjobs.com
🚨Don't miss the GREGoR Consortium's Ancillary Session at #ASHG25 on Thursday at 11:45 am. Featuring: Dr. Ben Heavner, Dr. Alex Wagner (@alexphd.bsky.social) & Dr. Mike Schatz (@mikeschatz.bsky.social) #RareDisease #Research
Getting excited for #ASHG25. The must see talk is tomorrow at 1:30 by Qiuhui (Iris) Li presenting the first large-scale integration of long-read genome sequencing with electronic health record data across >1000 All of Us participants meetings.ashg.org/event/ASHG25...
PheedLoop
PheedLoop: Hybrid, In-Person & Virtual Event Software
meetings.ashg.org
Have you recently completed (or finishing soon) a PhD in CS or a related discipline? Do you want to do research advancing the theory & practice of algorithmic genomics & build tools that people love to use? I'll be looking to hire a postdoc! Official ad coming soon: docs.google.com/document/d/1...
Postdoc Description.docx
Title: Postdoctoral Associate Summary statement: The postdoctoral research associate is responsible for developing novel computational methodology for high-throughput sequence genomics tasks, as well ...
docs.google.com
After vibe coding a little swift this summer, I feel totally validated by this post! holdtherobot.com/blog/xcode-i...
Xcode is the Worst Piece of Professional Software I Have Ever Used | Hold The Robot
The compiler is unable to type-check this expression in reasonable time; try breaking up the expression into distinct sub-expressions
holdtherobot.com
after a long effort, gathering a lot of input from many people, we finaly put it all together: Ten Common Misconceptions About Galaxy (and Why They Are Wrong!) https://www.preprints.org/manuscript/202509.0823 Thank you very much to all people involved !
