Andrew Adey

We showcase Amethyst on several datasets and used it to discover novel mCH patterns in glial cell types that were previously assumed to lack CH methylation. In astrocytes and oligodendrocytes it is not only present, but highly specific to certain genes!

The major advantage is the robust visualization and data interaction capabilities of Amethyst, making cell type identification and the ability to uncover novel biological insight as smooth as possible.

It has been a while since I have tweeted, but I am super excited to announce the release of our single-cell DNA methylation analysis tool, Amethyst. Developed by an extremely talented postdoc, Lauren Rylaarsdam! biorxiv.org/content/10.110…

@scalebio Excited to be a part of the transformative technologies that Scale has pioneered!

We are honored to welcome Dr. Andrew Adey to ScaleBio’s Scientific Advisory Board! His expertise in #singlecell technologies and #epigenetics helps us to bring you innovative approaches through massively parallelized barcoding of single cells. Welcome Andrew! @acadey80

This kidney atlas is an example of team science, with key contributors from six different institutions, significant supports from two NIH consortia (KPMP, HuBMAP). Congratulations to everyone behind this effort (peer review alone took two years)! nature.com/articles/s4158…

New preprint! sciMET-cap, where we use hybrid capture to reduce the sequencing burden of scMethylation and show ~6,000 cell preps are possible using a benchtop sequencer! Led by S. Acharya and @oconnellphds with @DrTedPBraun & @L_Rylaarsdam. biorxiv.org/content/10.110…

Great collaboration with @cusanovich !

#eugenemarathon! 2:54:26 for an 8 min PR, NYC Qual and first sub3! Last 5 were full on pain zone but managed to hang on and hit my goal. strava.app.link/BP8KvWasqzb

Our work on the mechanism of dual FLT3 and LSD1 inhibition has been released in print by @MCR_AACR! Follow this link to check it out: aacrjournals.org/mcr/article/do…. #Leukemia #AACR23 #AcademicTwitter

@aaron_mckenna Good use of it. Most of the time the challenge is formulating the problem not implementing the code itself.

Pretty awesome survey of what ChatGPT can do: arxiv.org/abs/2303.13528. We've changed our graduate bioinformatics class to allow/encourage LLMs, it's nice to be able to focus on the bigger picture in homework questions (+ edge cases).

In our latest preprint, the brilliant @XiaoyiLi10: 1) discovers massive influence of chromatin on prime editing & 2) shows epigenetic "pre-treatment" of a locus w/ CRISPRa can markedly enhance prime editing efficiency. See thread below & biorxiv.org/content/10.110… for more details!

Excited to share our lab's latest preprint, led by @CXchengxiangQIU, @bethkarenmartin & Ian Welsh of @jacksonlab. We set out to build a single cell roadmap for all of mouse prenatal development, from single cell zygote to free-living pup. Preprint: tinyurl.com/2nhe4mm9 1/n

@AndyRusss Nice work Andy!

Single-cell or spatial? Our new technology - Slide-tags - allows both in the same experiment, enabling true single-cell multi-modal spatial genomics ➡️ doi.org/10.1101/2023.0…

This is super cool! - optimal metabolism in cancer is so important; targeting it like this is super innovative and a really exciting new direction!

@YanHu41082612 @JD_Buenrostro Really nice work!

Single-cell ATAC-seq finds active regulatory elements across cell types, but its resolution can be limited. What if we could identify when and where proteins bind to chromatin? Introducing PRINT, a new single-cell footprinting tool from @JD_Buenrostro lab biorxiv.org/content/10.110…

@jeffvierstra Man I could spend some time there with my gravel bike...