iiinova — where your digital self keeps evolving

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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Reposted by F. B. Dincaslan

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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Reposted by F. B. Dincaslan

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 · 23/08/2026

I think fresh perspectives and different ideas matter in science a lot but this is more about arrogance and thinking they have some wizardry, yes.

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F. B. Dincaslan @dincaslan.bsky.social · 16/08/2026

With AI making things worse in such cases, I think we will see more senior researchers withdrawing from such authorship style unless they trust the corresponding authors or collaborators in general. Possibly trusted groups will get more collaboration requests.

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F. B. Dincaslan @dincaslan.bsky.social · 16/08/2026

But I see a quite opposite pattern everywhere in academia. People rarely care about what significant contribution means. Also if you are an established researcher, suddenly a tiniest contribution makes you an author. So, sometimes, academia is a hopeless place for fairness.

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F. B. Dincaslan @dincaslan.bsky.social · 16/08/2026

But I see a quite opposite pattern everywhere in academia everywhere. People rarely care about significant contribution. Also if you are an established researcher, suddenly a tiniest contribution makes you an author. So, sometimes, academia is a hopeless place for fairness.

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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

FYI: I don’t trust anyone anymore about writing 🙂‍↔️

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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

I am not sure it helps to deal with such heatwaves we encountered last month in EU in general though. But yeah in the smart city country above, you will be surprised to see trees and green everywhere. It is not a coincidence or simply artisti. It is also keep the temp and humidity level controlled.

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F. B. Dincaslan @dincaslan.bsky.social · 02/08/2026

Disclaimer: I am not a city planning expert. We used to talk these with PhD students in the respective field while I was doing PhD in engineering.

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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

It is the same reason why I don’t want to work for some companies that they want to hire you as a university associated postdoc without no company/staff/salary benefits, and no intention for publishing. Go and hire a scientist, why do you hire as a postdoc? Nonsense for me.

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F. B. Dincaslan @dincaslan.bsky.social · 28/07/2026

Although I enjoy agentic tools, I have different mindsets for academia and industry jobs. We r already a sort of cheap labor in academia. There is no point of continuing this for profitable business model. If there is no transparent knowledge sharing, then we become even cheaper labor for industry.

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F. B. Dincaslan @dincaslan.bsky.social · 28/07/2026

It is funny ‘cause t competition. Claude has trained w our domain knowledge, evolved into pharma company. Somehow they r getting worse for t same cost. After witnessing this, I don’t want to use “free AI“ unless they really mean it. We are sharing our expertise with these companies free, no thanks.

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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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Reposted by F. B. Dincaslan

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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Reposted by F. B. Dincaslan

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

Another example can be you have readings of 3 separate well seedings of cells from same treatment. Let’s say you have two 5000, then one 3000. You will have repeat this seeding with 3 replicates 2 more time. You will likely to have outliers every time. Is it seeding or reading? What to do etc.

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F. B. Dincaslan @dincaslan.bsky.social · 19/07/2026

I can expand what I mean. let’s say you have 3 replicates for qPCR run of the given sample. Two of them are 23 but the third one is 11. They are from the same cDNA. It is likely to be technical error while loading. Do you exclude or include, and why and if so how kinda simple questions.

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F. B. Dincaslan @dincaslan.bsky.social · 19/07/2026

The course planner can start simple such as, How to deal with messy data before any statistical tests applied ? What is the distinction between data cleaning or wrangling vs. data manipulation or bias ? How do you choose the right test/design before? etc.

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F. B. Dincaslan @dincaslan.bsky.social · 19/07/2026

This may sometimes lead to data selection bias or misinterpretation of the results. I don’t think it is realistic that the data is consistent all the time. When to include or exclude is a big question mark.

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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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Reposted by F. B. Dincaslan

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 · 24/06/2026

It is one of my fav shows. I wish they had more seasons of this satire mockumentary. I was laughing hard while watching almost every episode.

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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 · 15/06/2026

Expert led AI summary prompts then cross checked as reviews might be a good example of 2. I don’t like it but it seems the norm nowadays..

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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 · 05/06/2026

as an example I ask about some viral sequence parts for translation efficiency etc. these are technically harmless in the setting I use but still the tool think twice before responding.

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F. B. Dincaslan @dincaslan.bsky.social · 05/06/2026

I am in the field of RNA therapeutics. I noticed the puzzling of Claude whenever I query something related to my research area. Also, even Google responses lag. I assume whatever the AI tool they use (Gemini?), it also added some security/tracking features.

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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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F. B. Dincaslan @dincaslan.bsky.social · 09/05/2026

They somehow published an errata. Yet, I still think it is not good idea for random people to write papers about a field that they are not actively involved in. It was not a small mistake for that many authors to miss.

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F. B. Dincaslan @dincaslan.bsky.social · 08/05/2026

I shared your tool with a colleague looking for free alternatives. She loved it. Please feel free to keep going with good work! People always talk :)

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Reposted by F. B. Dincaslan

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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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 · 19/04/2026

It is quite cheap. The company is famous with affordable option compared to other companies outside. They automate a few things, optimise a few others and overall reduce the cost.

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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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F. B. Dincaslan @dincaslan.bsky.social · 11/03/2026

Switzerland is a good alternative.

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F. B. Dincaslan @dincaslan.bsky.social · 03/03/2026

It was hard to convince people to share reused/modified code details unless it is novel, when open source was optional. Some used to believe these reproducibility efforts were waste of time. I am glad that now it is mandatory.

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F. B. Dincaslan @dincaslan.bsky.social · 28/02/2026

You can easily code a master thesis quality work within a few hours. The quality of these and supervisor expectations will increase due to tech available for sure.

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F. B. Dincaslan @dincaslan.bsky.social · 28/02/2026

I cant stop myself reading his blog and posts either. Usually relevant and high quality. Thanks a million!

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Reposted by F. B. Dincaslan

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 · 17/02/2026

Knowledge might be but memorising is not for sure

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