F. B. Dincaslan
@dincaslan.bsky.social
👩🏻🔬👩🏻💻Post-Doctoral Researcher | 📚 Bibliophile
🔥RNA Therapeutics 🔥in 🇪🇺
Skeets in TR/ENG Views are my own
🔥RNA Therapeutics 🔥in 🇪🇺
Skeets in TR/ENG Views are my own
Pinned
Hi, folks! I am Betul. I completed my PhD in Biomedical Eng. in 🇸🇬.
I enjoy doing both wet&dry research (as expected from my background), discovering new ways of visualising the data, reading books while travelling, hiking and rapid chess.
I enjoy doing both wet&dry research (as expected from my background), discovering new ways of visualising the data, reading books while travelling, hiking and rapid chess.
Reposted by 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!
If you're a PI working in algorithmic genomics (& you can recommend my lab to your top graduating students ;P), please let them know!
October 8, 2025 at 4:53 PM
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!
If you're a PI working in algorithmic genomics (& you can recommend my lab to your top graduating students ;P), please let them know!
Reposted by F. B. Dincaslan
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...
blog.genesmindsmachines.com/p/we-still-c...
We still can’t predict much of anything in biology
Biology is hard. Yes, even for AI.
blog.genesmindsmachines.com
October 7, 2025 at 4:11 PM
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...
blog.genesmindsmachines.com/p/we-still-c...
Reposted by F. B. Dincaslan
#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)
amc25.leibniz-fli.de/registration/
✨ Highlights 👇 🧵 (1/4)
October 6, 2025 at 2:49 PM
#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)
amc25.leibniz-fli.de/registration/
✨ Highlights 👇 🧵 (1/4)
Reposted by F. B. Dincaslan
🇬🇧 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
✨ Abstract submissions now open!
🗓️ Deadline: Feb 5, 2026
🔗 https://www.iscb.org/uk2026/call-for-submissions/abstracts
October 3, 2025 at 10:16 AM
🇬🇧 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
✨ Abstract submissions now open!
🗓️ Deadline: Feb 5, 2026
🔗 https://www.iscb.org/uk2026/call-for-submissions/abstracts
Reposted by F. B. Dincaslan
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...
🧵
The results revealed 𝐜𝐨𝐦𝐩𝐥𝐞𝐱 regulation & 𝐬𝐢𝐦𝐩𝐥𝐞 organizing principles:
www.biorxiv.org/content/10.1...
🧵
September 21, 2025 at 11:07 AM
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...
🧵
The results revealed 𝐜𝐨𝐦𝐩𝐥𝐞𝐱 regulation & 𝐬𝐢𝐦𝐩𝐥𝐞 organizing principles:
www.biorxiv.org/content/10.1...
🧵
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 ✨
August 30, 2025 at 9:10 AM
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 ✨
Reposted by F. B. Dincaslan
Free course: Intro to Computational Biology by Mike Love, author of DESeq2.
biodatascience.github.io/compbio/
biodatascience.github.io/compbio/
August 26, 2025 at 1:45 PM
Free course: Intro to Computational Biology by Mike Love, author of DESeq2.
biodatascience.github.io/compbio/
biodatascience.github.io/compbio/
Reposted by F. B. Dincaslan
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...
August 9, 2025 at 11:56 AM
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...
Reposted by F. B. Dincaslan
You can not live without Rmarkdown if you use R for genomics data analysis. Cheatsheet from Posit:
rstudio.github.io/cheatsheets...
rstudio.github.io/cheatsheets...
July 28, 2025 at 2:15 PM
You can not live without Rmarkdown if you use R for genomics data analysis. Cheatsheet from Posit:
rstudio.github.io/cheatsheets...
rstudio.github.io/cheatsheets...
Thanks Science&Jennifer Sills for making all these struggles visible.
#NextGenSci gave young scientists this prompt: When pursuing science education or work abroad, what is the biggest challenge you face? What one change would help scientists from your country or region overcome this challenge?
Here's how they responded: scim.ag/4llEPGf
Here's how they responded: scim.ag/4llEPGf
Supporting scientists who study and work abroad
scim.ag
July 25, 2025 at 5:35 PM
Thanks Science&Jennifer Sills for making all these struggles visible.
Reposted by F. B. Dincaslan
🔬 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
📖 Dive into the full article: doi.org/10.1093/narg...
#Sequencing #Bioinformatics #GeneExpression #Genomics #UniqueMolecularIdentifier #NARGAB
July 16, 2025 at 1:44 PM
🔬 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
📖 Dive into the full article: doi.org/10.1093/narg...
#Sequencing #Bioinformatics #GeneExpression #Genomics #UniqueMolecularIdentifier #NARGAB
Reposted by F. B. Dincaslan
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
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
July 14, 2025 at 1:45 PM
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
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.
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.
July 13, 2025 at 9:14 PM
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.
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.
Some people expect a lot from PhDs in this regard. There is a power imbalance in academia. Convince PIs by incentives or pressuring, idc.
July 12, 2025 at 11:23 AM
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.
Some people expect a lot from PhDs in this regard. There is a power imbalance in academia. Convince PIs by incentives or pressuring, idc.
Reposted by F. B. Dincaslan
🧵 1/ In bioinformatics, cutoffs rule everything.
What’s “significant”? What’s not?
Let’s talk thresholds—and how they shape your science.
What’s “significant”? What’s not?
Let’s talk thresholds—and how they shape your science.
July 5, 2025 at 1:45 PM
🧵 1/ In bioinformatics, cutoffs rule everything.
What’s “significant”? What’s not?
Let’s talk thresholds—and how they shape your science.
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.
June 29, 2025 at 9:57 PM
Duolingo’s constant expansion of courses that I have already completed reminds me that nothing in language learning lasts without (daily) practice.
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.
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.
June 29, 2025 at 9:23 PM
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.
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.
Reposted by F. B. Dincaslan
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/...
👇🏽
www.science.org/doi/10.1126/...
👇🏽
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...
www.science.org
June 26, 2025 at 6:07 PM
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/...
👇🏽
www.science.org/doi/10.1126/...
👇🏽
Reposted by F. B. Dincaslan
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.
May 2, 2025 at 8:30 PM
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.
I observed my first ever fractionation experiment today. Then, I realized there is no database for polysome profiling of various cells, cell lines and tissues from several organisms under different conditions/stimulations or selected interactions. In case you wanna build one 🖖
April 22, 2025 at 9:59 PM
I observed my first ever fractionation experiment today. Then, I realized there is no database for polysome profiling of various cells, cell lines and tissues from several organisms under different conditions/stimulations or selected interactions. In case you wanna build one 🖖
Reposted by F. B. Dincaslan
FYI: New online! Transcriptomics in the era of long-read sequencing
Transcriptomics in the era of long-read sequencing
Nature Reviews Genetics, Published online: 28 March 2025; doi:10.1038/s41576-025-00828-zAdvances in long-read sequencing are driving the implementation of these technologies for transcriptome profiling. The authors provide a comprehensive guide to long-read RNA sequencing, including experimental and computational tools, current applications, challenges and opportunities.
www.nature.com
April 18, 2025 at 11:24 AM
FYI: New online! Transcriptomics in the era of long-read sequencing
Reposted by F. B. Dincaslan
scnanoseq nf-co.re/scrnaseq: an nf-core [Nextflow] pipeline for Oxford Nanopore single-cell RNA-sequencing www.biorxiv.org/content/10.1... 🧬🖥️🧪 github.com/nf-core/scna...
April 11, 2025 at 8:00 PM
scnanoseq nf-co.re/scrnaseq: an nf-core [Nextflow] pipeline for Oxford Nanopore single-cell RNA-sequencing www.biorxiv.org/content/10.1... 🧬🖥️🧪 github.com/nf-core/scna...
Once you become a scientist, you cannot •undo• your process and passion for knowledge seeking and fact checking unless you are clouded with ideologies and overwhelming emotional states.
April 10, 2025 at 10:17 PM
Once you become a scientist, you cannot •undo• your process and passion for knowledge seeking and fact checking unless you are clouded with ideologies and overwhelming emotional states.
Scientists are moving back and forth on the frontiers of knowledge every day. I think it takes a lot of courage to face new challenges in every project.
April 10, 2025 at 9:59 PM
Scientists are moving back and forth on the frontiers of knowledge every day. I think it takes a lot of courage to face new challenges in every project.