F. B. Dincaslan

And it's posted! If you're interested and eligible, please consider applying through the UMD portal: umd.wd1.myworkdayjobs.com/en-US/UMCP/j....

If you're a PI working in algorithmic genomics (& you can recommend my lab to your top graduating students ;P), please let them know!

We still can’t predict much of anything in biology Biology is hard. Yes, even for AI.

Biology is much more complicated than most non-biologists can imagine. And AI is not going to change this anytime soon.
blog.genesmindsmachines.com/p/we-still-c...

#AMC2025 is almost here (Oct 28–29, Jena) and we’ve opened a few more seats! If you work on host-microbiome interactions, aging, or age-related diseases, bring a poster and join this amazing crowd!

amc25.leibniz-fli.de/registration/

✨ Highlights 👇 🧵 (1/4)

🇬🇧 Introducing ISCB UK! Join us April 21–22, 2026, in Cambridge for the first #ISCBUK conference connecting the #bioinformatics and #computationalbiology community in the UK.

✨ Abstract submissions now open!
🗓️ Deadline: Feb 5, 2026
🔗 https://www.iscb.org/uk2026/call-for-submissions/abstracts

We quantified mRNA abundance, translation, protein abundance, protein degradation and cell growth across thousands of single cells from a mammalian tissue.

The results revealed 𝐜𝐨𝐦𝐩𝐥𝐞𝐱 regulation & 𝐬𝐢𝐦𝐩𝐥𝐞 organizing principles:

www.biorxiv.org/content/10.1...

🧵

I haven’t been running anything significant or something novel for 2 years since PhD. I feel like I’m ages behind the evolution of even the simplest pipeline.

As an academic without any industry experience, I was not good at asking about my rights or salary negotiations. However, I have been learning from EU-ECRs regarding that. Even PhDs know their rights very well. Impressive and hopeful ✨

Free course: Intro to Computational Biology by Mike Love, author of DESeq2.
biodatascience.github.io/compbio/

There and back again... A few months ago I wrote an essay on moving from academia to biotech. Today I published a follow-up: moving from biotech to academia. doi.org/10.59350/004...

You can not live without Rmarkdown if you use R for genomics data analysis. Cheatsheet from Posit:

rstudio.github.io/cheatsheets...

Thanks Science&Jennifer Sills for making all these struggles visible.

🔬 A new study in NAR Genomics and Bioinformatics compares short-read and long-read sequencing, aligning results at the cDNA level using UMIs 🧬

📖 Dive into the full article: doi.org/10.1093/narg...

#Sequencing #Bioinformatics #GeneExpression #Genomics #UniqueMolecularIdentifier #NARGAB

String manipulation is a critical daily task for bioinformaticians.
Here is a cheatsheet using stringr: rstudio.github.io/cheatsheets...
I probably use stringr::str_replace() once every other day...
to clean up metadata (of course!) #rstats

I made a list of books to read in 2025 before NY. I’ve read 10 books so far (couldn’t complete a few more as i left them at home).

Today, I checked out the list. I read only one book from that list (& have been reading 2 more).

Although I still have time, I enjoyed the serendipity of the process.

Even if you’ve certain goals about your paper (e.g., preprint, data-sharing, more details), the corresponding author(s)-a.k.a the PI-decides what to do with it.
Some people expect a lot from PhDs in this regard. There is a power imbalance in academia. Convince PIs by incentives or pressuring, idc.

🧵 1/ In bioinformatics, cutoffs rule everything.
What’s “significant”? What’s not?
Let’s talk thresholds—and how they shape your science.

Duolingo’s constant expansion of courses that I have already completed reminds me that nothing in language learning lasts without (daily) practice.

I am thrilled to announce that I received my first fake looking real position application email with all expenses of the trip, to a country from Southeast Asia, covered (the sender missed that I am not a professor but it was ok, you could nominate someone else).

I have been reading Richard Kearney’s book titled “Strangers, Gods and Monsters”. It is quite interesting how the societies/communities interpret identity and otherness. It also sheds light on demonisation and alienation.

If you believe some innocent lives are more important or valuable than some others, then please stop believing. Thanks in advance!
We are all human beings.
Everyone is innocent unless there is a strong evidence to the contrary and every innocent life deserves to live in peace.

Out-of-Anatolia: Cultural and genetic interactions during the Neolithic expansion in the Aegean West Anatolia has been a crucial yet elusive element in the Neolithic expansion from the Fertile Crescent to Europe. In this work, we describe the changing genetic and cultural landscapes of early Hol...

Happy to share our new study from my PhD on the spread of farming across Anatolia and into the Aegean and then into Europe. @compevohumang.bsky.social

www.science.org/doi/10.1126/...

👇🏽

I'm trying to help people (with 0 coding experience or desire to gain coding experience) transition out of GraphPad PRISM as our uni has removed our license. Does anyone have any thoughts on the best way to get data out of Prism without a licence? #rstats #python #prism

Congrats 🎉

I recommend Erich Fromm’s books. You will thank me later.

Congrats, Dr. Ekim 🎈🎊🥳

In the case of fully research focused environment, there could be more opportunities to make more impactful research for a given timeframe.
Yet it is important to be aware of a lot of other duties in the lab (from administrative to maintenance, cleaning to training etc).

Long story short, the working hours in academia is not reflecting the truth.
If you do not have a research assistant (whom you need funding to hire with a semi-independent position), I don’t think even 45/week makes much sense for an experimental post-doc (unless you are super lucky).

I was working 55=> hrs/week during my PhD. I learnt a lot however it was not sustainable in the long run. I decided to reduce it to better managed 45<= as stated 40 hrs in the contract. Yet, I doubt that is enough to achieve the fellowship expectations within short timeframe of PostDoc.

Reputation shortcoming in academic publishing Editors of scientific journals make central decisions in the publication process. Information peripheral to the content of a manuscript such as the editor’s professional circle and authors’ publishing...

journals.plos.org/plosone/arti...

Some researchers submitting to high impactful prestigious journals might be familiar that peer review system is not always fully functional.
I sometimes can’t stop thinking whether it is reviewed by some freshman in the lab instead of the assigned person.
Plus, peer review sometimes peer-biased.