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.

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.

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.

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.

@science.org is rocking this year 🔥

F. B. Dincaslan@dincaslan.bsky.social · 6mo ago

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.

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

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.

leidendeclaration.ai

(Harvard STAT115): Introduction to Bioinformatics and Computational Biology by Shirley Liu. liulab-dfci.github.io/bioinfo-com...

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.

Ming Tommy Tang@tommytang.bsky.social · last mo.

Free Book: Statistics for the Experimental Bench Biologist middleprofessor.github.io/benchbiostats/

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 💪🤩

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.

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.

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.

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:

Bioconductor@bioconductor.bsky.social · 4mo ago

🚀 We’re excited to share the release of Bioconductor 3.23, featuring: ✅2418 software packages (94 new) ✅437 experiment data packages (5 new) ✅928 annotation packages ✅8 books (2 new) ✅28 workflows 🔗 Please see the full release announcement here: bioconductor.org/news/bioc_3_...

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-...

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...

openrxiv.org

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.

Theo Sanderson@theo.io · 4mo ago

Indeed.. here is "generate the first page of a great Nature paper that will get lots of citations. It must be very novel."

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 🧠

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/...

I am impressed by Claude.

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 🔥

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.

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.

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...

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

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...

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 …

blog.slavovlab.net

2025 was the year we stopped debating whether paying peer reviewers might work and started showing that it does.

5. Data Visualization socviz.co/ by Kieran Healy. I've read book 4 and 5.

4. Fundamentals of Data Visualization clauswilke.com/dataviz/

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.

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

bioRxivpreprint@biorxivpreprint.bsky.social · 8mo ago

Organelles harbour pH gradients https://www.biorxiv.org/content/10.64898/2025.12.12.694065v1

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?