The v2 masked GRCh38 fasta masks out 1.2 Mbp of falsely duplicated sequence! Available here ftp-trace.ncbi.nlm.nih.gov/ReferenceSampl…

Deep into thesis writing and the delete key on my keyboard works approximately 25% of the time. Quickly approaching the feeling of writing my thesis on a typewriter 😅

Thanks Oxford Nanopore for the shout out on #InternationalWomensDay !

I will be defending my PhD one week from today (March 18th) at 2pm ET! If you are interested in watching my defense, DM me for the zoom link 🧬

Successfully defended my PhD today! Thank you so much to my advisor Steven Salzberg 💙💛 and my other committee members Mihaela Pertea and Winston Timp

Getting to be a part of this project was the honor of a lifetime. So many people to thank but to highlight a few Karen Miga & Adam Phillippy who led the entire project. Marina Haukness & Mark Diekhans who led the annotation efforts and of course my advisor Steven Salzberg 💙💛

Happy to see IGV now provides T2T-CHM13 as a hosted reference genome, alongside with our cytoband and gene annotation! h/t Arang Rhie

12 years ago today I lost my dad to pancreatic cancer. Last month I dedicated my thesis work to him with this last slide. Miss you everyday dad!

"Implications of the first complete human genome assembly" in Genome Research genome.cshlp.org/content/32/4/5… Lots of good stuff in here, but this quote from @meganamsu really makes me smile 😊 High-five Karen Miga 🙌

Beautiful day running the National Women’s Half Marathon in DC with my better half Andrianna Ayiotis! #runlikeagirl

Don’t tell Women you respect them, then vote for a party who takes away their rights. Don’t tell Gay people you’re a friend, then vote for a party that calls them groomers. Don’t tell Black people you’re not racist, then vote for a party that’s anti-BLM It’s not “just politics”

A party that takes away abortion rights but refuses to provide support for pregnant women who need help with medical care including birth expenses, housing, food, child care & schooling, employment, etc, is most definitely not pro-life.

This week I graduated from Johns Hopkins with my Ph.D. in biomedical engineering and was hooded by my wonderful advisor Steven Salzberg 💙💛. After spending a significant part of grad school doing everything remotely, it felt extra special to have the ceremony in person this year!

As a queer woman it seems my rights might start falling like dominoes. What a sad day for this country.

It’s been an honor to contribute to the annotation of the T2T Y chr! The preprint of the first truly complete human Y chromosome is now available! Big thank you to my amazing mentor Alaina Shumate, PhD and PI Steven Salzberg 💙💛 and of course everyone in the T2T consortium!!

It's easy for us to dream up the JHU VPR holiday card as there's boundless inspiration Johns Hopkins University✨🧬 Cheers! #t2tconsortium Michael Schatz Rajiv McCoy Winston Timp Steven Salzberg 💙💛 Sergey Aganezov @sz_genomics Stephanie Yan Melanie Kirsche Ariel Gershman Alaina Shumate, PhD #CompleteHumanGenome

Our paper describing our new, greatly improved human genome annotation is just out in preprint form, by Ales Varabyou Mihaela Pertea Markus Sommer Beril Erdogdu Ilia Minkin Kuan-Hao Chao Jakob Heinz Alaina Shumate, PhD Martin Steinegger 🇺🇦 Sukhwan Park et al. biorxiv.org/content/10.110…

Remarkable work led by Arang Rhie and Adam Phillippy, finishing the human Y chromosome. It might be small but its complex structure made it super-difficult to complete. Pleased that my former student Adam Phillippy included my lab members Alaina Shumate, PhD and Jakob Heinz in the work