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Mike Schatz

@mikeschatz.bsky.social
4.9K followers 874 following 202 posts

Bloomberg Distinguished Professor at Johns Hopkins University. schatz-lab.org

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Reposted by Mike Schatz
Mike Keesey @tmkeesey.bsky.social · 30/08/2026
We are getting VERY close 13,000 silhouettes! www.phylopic.org/images
phylopic.org
All Silhouette Images on PhyloPic
Browse all the free silhouette images in PhyloPic.
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Mike Schatz @mikeschatz.bsky.social · 26/08/2026
!!! It's not too late! Submit your abstracts for consideration for a talk by end of day Friday Aug 28. The registration portal is also open for the BioDATA ASCENT Code-a-Thon - just add an additional night to your conference stay!!!
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Mike Schatz @mikeschatz.bsky.social · 20/08/2026
Calling PhD students & postdocs! Join the BioDATA ASCENT Code-a-Thon, Nov. 3–4 at CSHL right before #cshldata26. Explore NIH datasets, build with AI and cloud tools, and connect with mentors. No project or prior AI/cloud experience needed. Learn more: biodata-ascent.github.io
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Mike Schatz @mikeschatz.bsky.social · 12/08/2026
By popular demand, we have extended the abstract deadline until August 28 to be considered for a talk for the Biological Data Science meeting at CSHL. There is still time to submit!!! @cshlnews.bsky.social #biodata26
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Adam Phillippy @aphillippy.bsky.social · 06/08/2026
For the past 30 years, “whole-genome sequencing” has been a misnomer. Today the T2T Consortium publishes a dozen papers heralding a future of truly complete genomes for humans and nearly any vertebrate 👨‍🔬🐒🐦🐀🦒🐎🫏🐹🐟 (sorry, no salamanders): www.cell.com/consortium/t... 🧵[1/15]
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Mike Schatz @mikeschatz.bsky.social · 03/08/2026
!!!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
bit.ly
JXTX + CSHL 2026 Biological Data Science Scholarship
JXTX + CSHL 2026 Biological Data Science Scholarship
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Mike Schatz @mikeschatz.bsky.social · 22/07/2026
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
jxtxfoundation.org
JXTX + CSHL 2026 Biological Data Science Scholarship
JXTX + CSHL 2026 Biological Data Science Scholarship
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Mike Schatz @mikeschatz.bsky.social · 11/07/2026
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
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Mike Schatz @mikeschatz.bsky.social · 08/07/2026
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
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Vertebrate Genomes Project @vertebrategenomes.bsky.social · 06/07/2026
🚨 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.
A graphic announcing the release of the Vertebrate Genomes Project Phase 1 manuscript on bioRxiv with drawings of various vertebrate creatures.The title and author list of the VGP manuscript, "The Vertebrate Genomes Project Phase I: A global reference genome resource"A QR code linking to the pre-print of the VGP manuscript
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JHU Computer Science @jhucompsci.bsky.social · 29/06/2026
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.
engineering.jhu.edu
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.
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Megan Dennis @mydennis.bsky.social · 26/06/2026
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
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Adam Phillippy @aphillippy.bsky.social · 20/04/2026
Friday was my last day at NHGRI. After 10 wonderful years, my lab is headed to Johns Hopkins University genomeinformatics.github.io/movingday/
genomeinformatics.github.io
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...
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Alex Cagan @atjcagan.bsky.social · 13/04/2026
Evan Eichler on using near-complete human genomes to more fully understand mutational processes #MITS2026
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Galaxy Project @galaxyproject.bsky.social · 14/04/2026
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
Promotional graphic for GTA2026 featuring guest speaker Aaron Quinlan. The design has a dark-to-bright blue background with yellow accents, large white text reading “Meet the Experts at GTA2026” and “Aaron Quinlan,” and a circular photo of Quinlan standing indoors by a staircase. Smaller text identifies him as Professor and Chair of Human Genetics at the University of Utah and highlights his work in computational genomics and open-source bioinformatics, including BEDTools and Mosdepth. A registration link appears at the bottom: gxy.io/GTA2026-info.
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Marc Somssich @somssich.bsky.social · 14/05/2024
#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...
The title page of the 1998 Technical Advance paper in the Plant Journal showing the title “Floral dip: a simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana”, authors Steven J. Clough, Andrew F. Bent and publication date December 1998 (Volume 16, Issue 6, Pages 735-743)
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Katie Hinde @mammalssuck.bsky.social · 10/03/2026
Are you ready? #2026MMM
media.tenor.com
a man wearing a top hat and a red jacket is standing in front of a crowd .
Alt: the ringleader gets ready to start the circus!
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Matthew Nguyen @mnguyen667.bsky.social · 09/03/2026
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
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Mike Schatz @mikeschatz.bsky.social · 03/02/2026
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...
cs.jhu.edu
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…
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Žiga Avsec @avsecz.bsky.social · 28/01/2026
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
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Mike Schatz @mikeschatz.bsky.social · 27/01/2026
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...
jxtxfoundation.org
JXTX + CSHL 2026 Biology of Genomes Scholarship
JXTX + CSHL 2026 Biology of Genomes Scholarship
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Rajiv McCoy @rajivmccoy.bsky.social · 21/01/2026
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
nature.com
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...
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Megan Dennis @mydennis.bsky.social · 16/12/2025
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
lnkd.in
Robert E. Chason Endowed Chair in Translational Research, MIND Institute
University of California, Davis is hiring. Apply now!
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Aaron Quinlan (he/him) @aaronquinlan.bsky.social · 02/12/2025
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
quinlanlab.org
Intro to Bedder – The Quinlan Lab
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JHU Computer Science @jhucompsci.bsky.social · 20/11/2025
“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.”
cs.jhu.edu
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.
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Paul Masset @paulmasset.bsky.social · 19/11/2025
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.
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Mike Schatz @mikeschatz.bsky.social · 06/11/2025
@benlangmead.bsky.social kicking off the start of Genome Informatics! #gi2025 @cshlnews.bsky.social
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Sina Majidian @sinamajidian.bsky.social · 06/11/2025
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...
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Christine Beck @christinebeck.bsky.social · 18/10/2025
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...
thejacksonlaboratory.wd503.myworkdayjobs.com
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...
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GREGoR Consortium @gregor-research.bsky.social · 16/10/2025
🚨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
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Mike Schatz @mikeschatz.bsky.social · 14/10/2025
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...
meetings.ashg.org
PheedLoop
PheedLoop: Hybrid, In-Person & Virtual Event Software
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Rob Patro @robp.bsky.social · 08/10/2025
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...
docs.google.com
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 ...
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Mike Schatz @mikeschatz.bsky.social · 23/09/2025
After vibe coding a little swift this summer, I feel totally validated by this post! holdtherobot.com/blog/xcode-i...
holdtherobot.com
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
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Mike Schatz @mikeschatz.bsky.social · 15/09/2025
This is amazing
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Galaxy Project @galaxyproject.bsky.social · 10/09/2025
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!) www.preprints.org/manuscript/202509… Thank you very much to all people involved !
overview
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Heng Li @lh3lh3.bsky.social · 09/09/2025
minimap2.com is potentially a phishing site. Please don't use anything from that website. github.com/lh3/minimap2...
github.com
Phishing site : minimap2.com · Issue #1316 · lh3/minimap2
Not sure how to label this one, but I have come across a website minimap2.com which appears to be AI generated but is serving it's own copy of the Github repository. If you search the address or em...
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Galaxy Project @galaxyproject.bsky.social · 08/09/2025
🎉 Big news! Galaxy Training Network workflows are now automatically registered on WorkflowHub. Easier discovery, citation, & direct Galaxy execution → boosting FAIR & accessible training! training.galaxyproject.org/training-mat...
training.galaxyproject.org
GTN is now integrated with WorkflowHub
Thanks to a collaborative effort between the teams at Galaxy Training Network (GTN), WorkflowHub, and Australian BioCommons, GTN workflows are now registered automatically with WorkflowHub. The existi...
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Brian Umberger @brianumberger.bsky.social · 28/08/2025
Please repost! We have an open rank, tenure-line faculty position in biomechanics in the School of Kinesiology at the University of Michigan Ann Arbor. At U-M we have great colleagues, exceptional resources, and biomechanics can be found all across the campus. #BiomechSky
biomch-l.isbweb.org
Tenure-track Faculty Position in Biomechanics (Open Rank), University of Michigan, Ann Arbor, MI, USA - Biomch-L
The School of Kinesiology (http://kines.umich.edu) at the University of Michigan invites applications and nominations for a tenure-track faculty position at the level of Assistant Professor, Associate...
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Mike Schatz @mikeschatz.bsky.social · 27/08/2025
Scholarships available for Genome Informatics - just include a brief summary on your open science work plus your conference abstract. If you have already paid to register, we will work with CSHL to refund you the $$$. Apply today! jxtxfoundation.org/news/2025-6-... @jxtxfoundation.bsky.social
jxtxfoundation.org
JXTX + CSHL 2025 Genome Informatics Scholarship
JXTX + CSHL 2025 Genome Informatics Scholarships
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Ben Langmead @benlangmead.bsky.social · 26/08/2025
📢🚨📢🚨 Genome Informatics deadline extended to September 8! meetings.cshl.edu/meetings.asp.... Please spread the word. If you are like me and had at least one abstract that wasn't quite ready by last week's deadline, you get another swing. See you there!
meetings.cshl.edu
Genome Informatics
Cold Spring Harbor Laboratory Meetings & Courses -- a private, non-profit institution with research programs in cancer, neuroscience, plant biology, genomics, bioinformatics.
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Mike Schatz @mikeschatz.bsky.social · 26/08/2025
Genome Informatics abstract deadline now Sept 8! h/t @benlangmead.bsky.social meetings.cshl.edu/meetings.asp...
meetings.cshl.edu
Genome Informatics
Cold Spring Harbor Laboratory Meetings & Courses -- a private, non-profit institution with research programs in cancer, neuroscience, plant biology, genomics, bioinformatics.
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Mike Schatz @mikeschatz.bsky.social · 26/08/2025
Checking out the new JHU student center! Super impressive inside! @jhu.edu
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JHU Computer Science @jhucompsci.bsky.social · 22/08/2025
Johns Hopkins researchers including @mikeschatz.bsky.social & @vikramshivakumar.bsky.social have developed Uncalled4, a new software toolkit that can detect epigenetic changes—chemical modifications to normal DNA and RNA that control which genes are turned off and on—with unprecedented accuracy.
cs.jhu.edu
Researchers build a smarter tool for reading genetic code
The Hopkins team’s new, open-source software dramatically improves scientists’ ability to detect genetic modifications that control gene activity.
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Galaxy Project @galaxyproject.bsky.social · 18/08/2025
🎉 Galaxy has passed 21,000 citations on Google Scholar! A huge thank you to the global community of researchers who use and advance Galaxy for open, reproducible science.
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Mike Schatz @mikeschatz.bsky.social · 07/08/2025
Just started! openai.com/live/
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Galaxy Project @galaxyproject.bsky.social · 06/08/2025
Missed GBCC2025? Want to rewatch your favorite talks? All session recordings (including Galaxy Live!) are now available on our YouTube channel. Revisit the presentations, explore new tools and workflows, and catch up on sessions you may have missed. Watch here: youtube.com/playlist?lis...
youtube.com
Galaxy and Bioconductor Community Conference 2025 - YouTube
Cold Spring Harbor Laboratory, New York June 23–26, 2025
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Mike Schatz @mikeschatz.bsky.social · 06/08/2025
Just failed a CAPTCHA challenge to join a MS Teams call, but I cant decide if this is a feature or a bug
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Mike Schatz @mikeschatz.bsky.social · 22/07/2025
Congratulations @benlangmead.bsky.social!
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JHU Computer Science @jhucompsci.bsky.social · 22/07/2025
Congratulations to @benlangmead.bsky.social on his promotion to full professor! 🎉 Prof. Langmead is recognized across the computational and life sciences fields for his innovative methods helping to transform how biomedical researchers and other life scientists access and use DNA sequencing data. 🧬
Ben Langmead promoted to full professor. Computer science.
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David Rach @davidrach.bsky.social · 16/07/2025
www.cell.com/patterns/ful... #bioconductor #rstats
cell.com
Bioconductor: Planning a third decade of comprehensive support for genomic data science
This opinion piece discusses the Bioconductor project for open-source bioinformatics and the engineering concepts underlying its effectiveness to date. Since the inception of Bioconductor in 2002 with...
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