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F. B. Dincaslan

@dincaslan.bsky.social
37 followers 71 following 128 posts

Post-Doc in 🇪🇺 | Research 👩🏻‍🔬👩🏻‍💻 📚 Books | Travelling 🧭 | Chess ♟️ Skeets in TR/ENG Views are my own

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Reposted by F. B. Dincaslan
Sebastian S. Cocioba @atinygreencell.bsky.social · 26/09/2026
Feeling proud of where SpliceCraft is at right now. Still got more details to add and UI jank to solve, but powerful af and open source. Made, with love, for this community. Enjoy. SpliceCraft.bio
splicecraft.bio
SpliceCraft — the in-terminal plasmid workbench
Design, clone & mutate plasmids in a mouse-friendly terminal workbench. Everything runs on your own computer — no cloud, no account.
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Melike Dönertaş @mdonertas.bsky.social · 16/09/2026
📢 We are hiring at METU! One postdoctoral researcher (wet lab) and four PhD/MSc students (computational) for our TÜBİTAK 2232-A project on healthy ageing and neuroprotection, expected to start in March 2027. Applications are through: donertas-group.github.io/join_us please share 🙏
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ISCB News @iscb.bsky.social · 03/09/2026
🧬🏴󠁧󠁢󠁳󠁣󠁴󠁿 Abstract submissions are open for ISCB UK 2027 in Glasgow this April! Submit your original #bioinformatics research to be considered for a talk or poster presentation. 📅 Submission deadline: Tuesday, February 16, 2027 📥Submit here: www.iscb.org/uk2027/call-for-submis…
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F. B. Dincaslan @dincaslan.bsky.social · 16/08/2026
When some people ask whether it is necessary to put my name on an article that I suggested a few ideas and design perspective, I tell them it depends on the context and the level of contribution. However there is no harm in acknowledging. Though people don’t care this, which is a bit sad.
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F. B. Dincaslan @dincaslan.bsky.social · 12/08/2026
It is tiring to convince people about being transparent about AI involvement in writing. If I need to go over every piece of text myself, why we bother writing together is my newest existential challenge academically.
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F. B. Dincaslan @dincaslan.bsky.social · 02/08/2026
One of the reasons why S’pore was a smart city was not simply infrastructure or digital adoption, but also the trees! They grow trees everywhere to control the heat in the city. Also it helps people to maintain good mood. Perhaps it is time for countries dealing w/heatwaves to make cities as such.
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F. B. Dincaslan @dincaslan.bsky.social · 28/07/2026
I sometimes send draft resume to the companies. I sent to a Google associated company recently. They rejected but shortly after I received an email stating free credits to test Google sciency products.
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F. B. Dincaslan @dincaslan.bsky.social · 25/07/2026
@science.org is rocking this year 🔥
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Emily M. Bender @emilymbender.bsky.social · 22/07/2026
Do read the whole thing, think about your personal and professional values, and how they can serve as strong grounds for resistance and refusal. leidendeclaration.ai
leidendeclaration.ai
Leiden Declaration on Artificial Intelligence and Mathematics
This declaration calls for action to address the challenges posed by the use of artificial intelligence within mathematics research.
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Ming Tommy Tang @tommytang.bsky.social · 21/07/2026
(Harvard STAT115): Introduction to Bioinformatics and Computational Biology by Shirley Liu. liulab-dfci.github.io/bioinfo-com...
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F. B. Dincaslan @dincaslan.bsky.social · 19/07/2026
I appreciate the examples being from real datasets. I think there should also be a such course “hidden curriculum of data handling (for experimental biology)” for challenging data. Many of biologists don’t even know how to deal with variable data or outliers in different experimental setting.
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Melike Dönertaş @mdonertas.bsky.social · 17/07/2026
Super happy to share that I closed the loop and returned where my journey started.. This time as a faculty at METU Informatics Institute. Thanks so much to everyone who supported my journey so far! Looking forward to continue our collaborations & starting new ones 💪🤩
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F. B. Dincaslan @dincaslan.bsky.social · 22/06/2026
People might think I am crazy but I want to go to the US for another post-doc or similar research opportunities. Some places in the US have still decent investment in research.
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F. B. Dincaslan @dincaslan.bsky.social · 07/06/2026
When my mind is occupied with a lot of thoughts than I can’t think through at home, I play bullet chess continuously for hours since the last year of PhD. In fact, now, I am pretty good at it particularly. I sometimes think joining official tournaments to see my actual level.
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F. B. Dincaslan @dincaslan.bsky.social · 09/05/2026
I requested a pdf, as I could not access, from Nature paper correspondence working at a prestigious institution. I wonder how long it will take to reply me for this simple request. I will try first author as well. Perhaps I can ask the data as well.
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Michael Love @mikelove.bsky.social · 30/04/2026
Bioconductor 3.23 is released! Thanks to the core team for all the hard work that goes into a release, and to the package reviewers. The lab has a bunch of updates in here that I'll post in 🧵 over the next few days:
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Richard Sever @richardsever.bsky.social · 29/04/2026
Despite its importance, peer review is something rarely taught. HHMI have a new peer review training program that takes advantage of preprints openrxiv.org/peer-review-...
openrxiv.org
Peer review training with preprints [Guest post] - openRxiv
About Guest Posts The openRxiv blog includes occasional guest posts on different aspects of science communication and open research. This allows us to provide space for new perspectives from groups pi...
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F. B. Dincaslan @dincaslan.bsky.social · 23/04/2026
This is crazy 🎭 I noticed an actual review paper peer reviewed and published at IF>6 journal under cell group. I notified the journal that there is something “bullshit” (w/formal language). The review is still there. They had nonsense tables with misleading info. Yet, no one did anything about it.
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F. B. Dincaslan @dincaslan.bsky.social · 28/03/2026
It is easy to spot work fully written by AI. People do not even bother to correct the nonsense. It is tiring. I also use AI tools. I am AI hyped for summaries, data analysis and advanced coding features. However, the expertise is required to make sure it’s reliability. Let’s use our brain more 🧠
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Stephen Turner @stephenturner.us · 28/02/2026
Just found reviewer from @simonpcouch.com: Human-scale LLM code review, as if a member of the tidyverse team were there with you to workshop your code for reproducibility, readability, and resilience. Note it's still very experimental. #Rstats github.com/simonpcouch/...
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F. B. Dincaslan @dincaslan.bsky.social · 21/02/2026
I am impressed by Claude.
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F. B. Dincaslan @dincaslan.bsky.social · 14/02/2026
I want to have one week of completely free time. No chores no calls no messages but just pure scientific discussions time to time. Meals&quiet space. Also freedom to do whatever you want to pursue/build in short period of time (ideas to tools).Yes, a retreat 🔥
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F. B. Dincaslan @dincaslan.bsky.social · 14/02/2026
Since 2026, I heard a lot of groundbreaking or good enough studies from Science. I used to enjoy Cell papers (despite being long and boring for some researchers). Nature was meh. I really like NAR. Now I feel like Science is my favorite overall. They also have support to ECRs, it is a plus as well.
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F. B. Dincaslan @dincaslan.bsky.social · 24/01/2026
I have been feeling far behind the single cell and high throughput data analysis in 2 years of not working anything related to it. I need to catch up. I want to use Claude code and also try some fancy figures with other LLM tools. A manuscript in RNA therapeutics would be nice as well. 2026 goals.
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Melike Dönertaş @mdonertas.bsky.social · 22/01/2026
Nature Aging @nataging.nature.com turns 5 and asked ~50 researchers to reflect on the field. I am honored to contribute alongside colleagues whose work has shaped how I think about #aging science. Past, present and future perspectives on the science of aging www.nature.com/articles/s43...
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Mark A. Hanson @hansonmark.bsky.social · 13/01/2026
We've got ISSUES. Literally. We scraped >100k special issues & over 1 million articles to bring you a PISS-poor paper. We quantify just how many excess papers are published by guest editors abusing special issues to boost their CVs. How bad is it & what can we do? arxiv.org/abs/2601.07563 A 🧵 1/n
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Nikolai Slavov @slavov-n.bsky.social · 01/01/2026
As I hope for a successful and productive 2026, my thoughts revolve around the core prerequisites: ◼️ They are both simple & challenging: blog.slavovlab.net/2019/12/31/r...
blog.slavovlab.net
Research success
We — the research community — can be much more successful if we invest more time and effort in what matters: Coming up with original new leads and helping each other grow as scientists …
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Daniel Gorelick @danielgorelick.bsky.social · 31/12/2025
2025 was the year we stopped debating whether paying peer reviewers might work and started showing that it does.
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Ming Tommy Tang @tommytang.bsky.social · 28/12/2025
5. Data Visualization socviz.co/ by Kieran Healy. I've read book 4 and 5.
socviz.co
Data Visualization
A practical introduction.
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Ming Tommy Tang @tommytang.bsky.social · 28/12/2025
4. Fundamentals of Data Visualization clauswilke.com/dataviz/
clauswilke.com
Fundamentals of Data Visualization
A guide to making visualizations that accurately reflect the data, tell a story, and look professional.
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Ming Tommy Tang @tommytang.bsky.social · 25/12/2025
10/ The truth? Feeling like a beginner again is normal. The best bioinformaticians aren’t the ones who “know it all.” They’re the ones who adapt.
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Yamuna Krishnan @krishnanyamuna.bsky.social · 17/12/2025
Organelles do NOT have a single uniform pH. And if you think they must, because “protons diffuse fast,” this paper is for you. A thread on why that assumption is wrong; and what we found instead. 🧵 1/n
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Rob Patro @robp.bsky.social · 17/12/2025
So question for single-cell peeps. It seems that ParseBio is even more locked-down than 10x! Is it the case that if I'm not a "registered" ParseBio customer, I can't even access their splitpipe software? Is there any archived version of splitpipe available?
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Claus Wilke @clauswilke.com · 07/10/2025
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
We still can’t predict much of anything in biology
Biology is hard. Yes, even for AI.
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ISCB News @iscb.bsky.social · 03/10/2025
🇬🇧 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 🔗 www.iscb.org/uk2026/call-for-submis…
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Slavov Laboratory @slavovlab.bsky.social · 21/09/2025
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... 🧵
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F. B. Dincaslan @dincaslan.bsky.social · 30/08/2025
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 ✨
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Ming Tommy Tang @tommytang.bsky.social · 26/08/2025
Free course: Intro to Computational Biology by Mike Love, author of DESeq2. biodatascience.github.io/compbio/
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Stephen Turner @stephenturner.us · 09/08/2025
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...
doi.org
Moving from biotech to academia
Thoughts and advice on transitioning from a career in industry biotech to academia. 1.4k words, 6 minute reading time.
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Ming Tommy Tang @tommytang.bsky.social · 28/07/2025
You can not live without Rmarkdown if you use R for genomics data analysis. Cheatsheet from Posit: rstudio.github.io/cheatsheets...
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F. B. Dincaslan @dincaslan.bsky.social · 25/07/2025
Thanks Science&Jennifer Sills for making all these struggles visible.
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Nucleic Acids Research @narjournal.bsky.social · 16/07/2025
🔬 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
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Ming Tommy Tang @tommytang.bsky.social · 14/07/2025
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
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F. B. Dincaslan @dincaslan.bsky.social · 13/07/2025
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.
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F. B. Dincaslan @dincaslan.bsky.social · 12/07/2025
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.
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Ming Tommy Tang @tommytang.bsky.social · 05/07/2025
🧵 1/ In bioinformatics, cutoffs rule everything. What’s “significant”? What’s not? Let’s talk thresholds—and how they shape your science.
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F. B. Dincaslan @dincaslan.bsky.social · 29/06/2025
Duolingo’s constant expansion of courses that I have already completed reminds me that nothing in language learning lasts without (daily) practice.
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F. B. Dincaslan @dincaslan.bsky.social · 29/06/2025
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.
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Dilek Koptekin @dilekopter.bsky.social · 26/06/2025
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/... 👇🏽
science.org
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...
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Ian Sudbery @iansudbery.bsky.social · 14/05/2025
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
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