Lev Tsypin, PhD

My condolences for your loss

“You can get a other job, but you cannot get another soul”.

Thank you, Megan! 😊

Finally, this work raises the possibility of using evolutionarily conserved co-expression patterns to transfer knowledge between organisms that are not very accessible to experimentation.

Please let me know what you think of the paper and our interactive tool!

We also use extensive computational negative controls to validate our analysis. This isn't something that I've seen in the literature, despite articles advocating for it over the past 20 years.

In my view, computational negative controls are just as important as experimental ones.

Our paper demonstrates that it is possible to revitalize old data, and we bring together microarray and RNA-seq datasets in our analysis. The old results that are publicly available shouldn't be forgotten just because our methods have changed. If there experiments are sound, we should use them.

Inferring gene-pathway associations from consolidated transcriptome datasets: an interactive gene network explorer for Tetrahymena thermophila Abstract. Although an established model organism, Tetrahymena thermophila remains comparatively inaccessible to high throughput screens, and alternative bi

I started this work 10 years ago as an undergrad in a "Computing for Biologists" class, and now it's finally out in the world! I'm very proud for it to be my first contributing author paper.

This work focuses on predicting and testing gene functions based on their co-expression, but there's more:

Accepted with minor revisions! 🎉

All of my old grievances and resentment toward faculty and administrators who asserted that science isn't political is bubbling to the surface.

Timely for grad school admissions season...

Had a great time talking to @atinygreencell.bsky.social abt my PhD work - small RNA transcriptome of rice gametes & zygotes. Please give his channel a follow. This podcast series of Sebastian is a great idea, and I found all previous episodes informative/inspirational. I hope mine is as well.

A bag of JACK LINKS beef jerky "doritos" with "taco flavor". "Limited time offer" and $1 off!

What is the world coming to?

YouTube video by Sebastian Cocioba Tears In Rain Ep5: Danielle Beckman

Tears In Rain Episode 5 is live!!!

I hung out with @daniellebeckman.bsky.social where she told us about her experiences as a student in Brazil that shaped her current interests in viruses inside the human brain. I hope you enjoy! Please like and subscribe for more!

youtu.be/27AtqcYNHa8

Keeping my fingers crossed and sending hugs

Grad school interview season is starting, and Sebastian's collecting biology PhD stories that I wish I had heard when I was figuring out where I should go. 🧪

It was a pleasure to share my experience--if I can help anyone think through things, please send me a message!

Just watched Moonstruck starring Cher and Nic Cage: 12/10 no notes, perfect film

Thank you for inviting me on, Sebastian! This podcast is a wonderful project 🙂

Happy new year, everyone

It's now formatted more-or-less correctly!

When a journal rejects your manuscript but recommends that you transfer it to a subsidiary, how do you decide whether to do it or send the paper somewhere else?

Infamous paper that popularized unproven COVID-19 treatment finally retracted Study on hydroxychloroquine by Didier Raoult and colleagues gets pulled on ethical and scientific grounds

Infamous paper that popularized unproven COVID-19 treatment finally retracted

Study on hydroxychloroquine by Didier Raoult and colleagues gets pulled on ethical and scientific grounds
@cathleenogrady.bsky.social reports.

www.science.org/content/arti...

Question for the bird people out there: how do hummingbirds avoid going into torpor while incubating their eggs?

Thank you for reading, and I'm very happy to discuss any aspect of this work! :)

That kindness and generosity led to this paper. I don't think I would still be in science/academia without his support.

I can't express how much I appreciate my undergraduate advisor, Aaron Turkewitz, who helped shape everything from my scientific sense to my love of pottery. During the height of the pandemic when I was on a medical leave of absence from my PhD, Aaron paid me part time to revisit my undergrad work.

A huge thank you to Stefano Allesina, who taught that computing class and made the final assignment, "make something useful for your lab."

stefanoallesina.github.io

And an equal thanks to Hannah Weller, who encouraged me to take the class in the first place. :)

hiweller.rbind.io

It's a wonderful privilege to write a paper that allows me to express my philosophy about the field. And while I've been tinkering at this work for the past decade, it would not have come together in such a satisfying way without the contributions of each co-author.

I'm really proud of this work. It's wild to be submitting something as the contributing author (and holy moly I did not expect how many predatory journals would be emailing me).

In other words, we can apply this sort of approach to organisms that are chosen for their phylogenetic diversity, rather than for their experimental accessibility, and this could provide opportunities for translating experimental results between evolutionarily distant model systems!

This view of gene co-expression programs opens a wider perspective on what we can do with "model" systems. It becomes easier to translate insights from more tractable organisms to more obstinate ones. It also allows us to make stronger claims about lineage-specific innovations.