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Sho Takeshita 竹下翔

@takeshita-sho

A PhD student in Biophysics @JHU. Interested in proteins and deep learning.

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19.11.2024
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Latest posts by Sho Takeshita 竹下翔 @takeshita-sho

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I was testing DeepSeek's knowledge and it was interesting to see that it can hallucinate Chinese characters. However, it seems that using this Chinese character (完整=complete / intact) translated into English would provide a reasonable statement.

10.03.2026 18:21 👍 0 🔁 0 💬 0 📌 0

Clathrin is an Intrinsic Driver of Membrane Fission https://www.biorxiv.org/content/10.64898/2026.03.05.709932v1

06.03.2026 11:50 👍 2 🔁 2 💬 0 📌 0

Transforming macromolecular structures into simulations of self-assembly https://www.biorxiv.org/content/10.64898/2026.01.27.702082v1

29.01.2026 00:46 👍 5 🔁 3 💬 0 📌 0

A membrane-driven biochemical oscillator tunable by the volume to surface area ratio https://www.biorxiv.org/content/10.1101/2025.11.14.688573v1

16.11.2025 22:47 👍 5 🔁 1 💬 0 📌 1

Glad he's okay!

03.10.2025 23:48 👍 1 🔁 0 💬 0 📌 0

This is a rather unfortunate change that seems to have come as a surprise to just about everyone. FYI for students and PIs who were looking to apply for the NSF GRFP

26.09.2025 17:09 👍 6 🔁 2 💬 2 📌 0
This means individuals in the following statuses at the time of application are eligible:

    Undergraduate in the final (senior) year of a bachelor’s degree program
    Bachelor’s degree-holder with NO enrollment in a graduate degree program (non-degree graduate coursework allowed)
    Individual enrolled in a joint bachelor’s-master’s degree program with at least three undergraduate years completed  
    First-year graduate student in their first graduate degree program with less than one academic year completed in the degree program (according to institution’s academic calendar)
        Individuals enrolled in joint bachelor’s-master’s degree programs are considered graduate students. For GRFP, joint bachelor’s-master’s degrees are defined as degrees concurrently pursued and awarded.
        Not be a current NSF employee.

Applications that do not meet eligibility requirements will be returned without review as being ineligible for a fellowship.

This means individuals in the following statuses at the time of application are eligible: Undergraduate in the final (senior) year of a bachelor’s degree program Bachelor’s degree-holder with NO enrollment in a graduate degree program (non-degree graduate coursework allowed) Individual enrolled in a joint bachelor’s-master’s degree program with at least three undergraduate years completed First-year graduate student in their first graduate degree program with less than one academic year completed in the degree program (according to institution’s academic calendar) Individuals enrolled in joint bachelor’s-master’s degree programs are considered graduate students. For GRFP, joint bachelor’s-master’s degrees are defined as degrees concurrently pursued and awarded. Not be a current NSF employee. Applications that do not meet eligibility requirements will be returned without review as being ineligible for a fellowship.

Announcing such a major change to NSF GRFP this late in the cycle is incredibly cruel. 2nd yr students (mine included) have been working so hard on their proposals despite ongoing uncertainty. They are driven and passionate about being outstanding scientists and helping those coming up behind them.

26.09.2025 17:46 👍 163 🔁 77 💬 7 📌 11

wtaf...

26.09.2025 17:12 👍 1 🔁 0 💬 0 📌 0

Check out this cool manuscript I was a part of!

08.09.2025 18:03 👍 4 🔁 0 💬 0 📌 0

Evaluation of De Novo Deep Learning Models on the Protein-Sugar Interactome https://www.biorxiv.org/content/10.1101/2025.09.02.673778v1

07.09.2025 00:48 👍 9 🔁 4 💬 0 📌 0
Proteins can form dimers and bind DNA specifically and nonspecifically, exploiting 3D and 1D diffusion. This can drives both enhanced and impaired dwell time and target occupancy depending on spacing between specific targets.

Proteins can form dimers and bind DNA specifically and nonspecifically, exploiting 3D and 1D diffusion. This can drives both enhanced and impaired dwell time and target occupancy depending on spacing between specific targets.

Does protein dimerization always help targeting and dwell time on DNA? Not for a population! Dwell time is especially sensitive to spacing between DNA targets. Nonspecific binding and facilitated (1D) diffusion also play a key role. Super proud of Mankun Sang’s work!
doi.org/10.1101/2025...

11.07.2025 16:23 👍 11 🔁 4 💬 1 📌 0

How will I ever learn statistical physics 😱???

10.07.2025 16:19 👍 1 🔁 0 💬 0 📌 0