Bioengineering

AI-enabled alkaline-resistant evolution of protein to apply in mass production

1. Liqi Kang
2. Banghao Wu
3. Bingxin Zhou
4. Pan Tan
5. Yun (Kenneth) Kang
6. Yongzhen Yan
7. Yi Zong
8. Shuang Li
9. Zhuo Liu
10. Liang Hong

• Curated by eLife

  eLife Assessment

  This important work demonstrates the application of Pro-PRIME, a large language model, to engineer VHH antibodies with enhanced stability for extreme industrial environments. The evidence is convincing, showing through two rounds of design and experimental validation that AI-guided approaches can outperform traditional rational design methods. The solid methodology and results establish a foundation for further exploration of LLM-assisted protein engineering.

Reviewed by eLife

Compositional editing of extracellular matrices by CRISPR/Cas9 engineering of human mesenchymal stem cell lines

1. Sujeethkumar Prithiviraj
2. Alejandro Garcia Garcia
3. Karin Linderfalk
4. Bai Yiguang
5. Sonia Ferveur
6. Ludvig Nilsén Falck
7. Agatheeswaran Subramaniam
8. Sofie Mohlin
9. David Hidalgo Gil
10. Steven J Dupard
11. Dimitra Zacharaki
12. Deepak Bushan Raina
13. Paul E Bourgine

• Curated by eLife

  eLife Assessment

  The study presents a potentially valuable approach to genetically modify cells to produce extracellular matrices with altered compositions, termed cell-laid, engineered extracellular matrices (eECM). The evidence supporting the authors' conclusions regarding the utility of eECM for endogenous repair is solid, although there are some disagreements on the chondrogenicity of lyophilized constructs which was viewed as lacking robust evidence for endochondral ossification.

Reviewed by eLife

Coagulative Granular Hydrogels with an Enzyme Catalyzed Fibrin Network for Endogenous Tissue Regeneration

1. Zhipeng Deng
2. Camila B. Tovani
3. Simona Bianco
4. Gianni Comandini
5. Aya Elghajiji
6. Dave J. Adams
7. Fabrizio Scarpa
8. Michael R. Whitehouse
9. Annela M. Seddon
10. James P. K. Armstrong

Reviewed by preLights

Macroscopic label-free biomedical imaging with shortwave infrared Raman scattering

1. Bernardo A. Arús
2. Joycelyn Yiu
3. Jakob G. P. Lingg
4. Anja Hofmann
5. Amy R. Fumo
6. Honglei Ji
7. Carolin Jethwa
8. Roy K. Park
9. James Henderson
10. Kanuj Mishra
11. Iuliia Mukha
12. Andre C. Stiel
13. Donato Santovito
14. Christian Weber
15. Christian Reeps
16. Maria Rohm
17. Alexander Bartelt
18. Tulio A. Valdez
19. Andriy Chmyrov
20. Oliver T. Bruns

Reviewed by Arcadia Science

An emerging view of neural geometry in motor cortex supports high-performance decoding

1. Sean M Perkins
2. Elom A Amematsro
3. John Cunningham
4. Qi Wang
5. Mark M Churchland

• Curated by eLife

  eLife Assessment

  This paper presents a new method called MINT that is effective at BCI-style decoding tasks. The authors show convincing evidence to support their claims regarding how MINT is a new method that produces excellent decoding performance relative to the state-of-the-art. This work is important and will be of broad interest to neuroscientists and neuroengineers.

Reviewed by eLife

Clinical phenotypes in acute and chronic infarction explained through human ventricular electromechanical modelling and simulations

1. Xin Zhou
2. Zhinuo Jenny Wang
3. Julia Camps
4. Jakub Tomek
5. Alfonso Santiago
6. Adria Quintanas
7. Mariano Vazquez
8. Marmar Vaseghi
9. Blanca Rodriguez

• Curated by eLife

  eLife Assessment

  This computational study integrates detailed electrophysiology and mechanical contraction predictions, which are often modeled separately. The findings of this important work are that abnormal ECGs that are associated with higher risk of sudden cardiac death are predicted to have almost no relationship with left ventricular ejection fraction, which is conventionally used as a risk factor for arrhythmia. The conclusions are based on compelling evidence for the need of incorporating additional risk factors for assessing post-myocardial infarction patients.

Reviewed by eLife

Evaluation of machine learning-assisted directed evolution across diverse combinatorial landscapes

1. Francesca-Zhoufan Li
2. Jason Yang
3. Kadina E. Johnston
4. Emre Gürsoy
5. Yisong Yue
6. Frances H. Arnold

Reviewed by Arcadia Science

Applied tutorial for the design and fabrication of biomicrofluidic devices by resin 3D printing

1. Hannah.B. Musgrove
2. Megan.A. Catterton
3. Rebecca.R. Pompano

Reviewed by Arcadia Science

Complete suspension culture of human induced pluripotent stem cells supplemented with suppressors of spontaneous differentiation

1. Mami Matsuo-Takasaki
2. Sho Kambayashi
3. Yasuko Hemmi
4. Tamami Wakabayashi
5. Tomoya Shimizu
6. Yuri An
7. Hidenori Ito
8. Kazuhiro Takeuchi
9. Masato Ibuki
10. Terasu Kawashima
11. Rio Masayasu
12. Manami Suzuki
13. Yoshikazu Kawai
14. Masafumi Umekage
15. Tomoaki M Kato
16. Michiya Noguchi
17. Koji Nakade
18. Yukio Nakamura
19. Tomoyuki Nakaishi
20. Naoki Nishishita
21. Masayoshi Tsukahara
22. Yohei Hayashi

• Curated by eLife

  eLife Assessment

  This comprehensive and compelling study presents a robust, cost-effective method for expanding pluripotent stem cells. The authors have identified a media condition that maintains iPSCs in suspension cultures by inhibiting the PKCβ and Wnt signaling pathways. The manuscript is important for the pluripotent stem cell field as it seeks robust and economical approaches to expand iPSCs at scale for high throughput screens and preclinical studies. While the authors have tested their media and protocol on a few lines, given the variability of iPSCs, further testing across more cell lines and in different laboratory settings will be crucial to evaluate its reproducibility.

Reviewed by eLife

High-throughput expansion microscopy enables scalable super-resolution imaging

1. John H Day
2. Catherine M Della Santina
3. Pema Maretich
4. Alexander L Auld
5. Kirsten K Schnieder
6. Tay Shin
7. Edward S Boyden
8. Laurie A Boyer

• Curated by eLife

  eLife Assessment

  This important study develops a high throughput version of expansion microscopy that can be performed in 96-well plates. The engineered technology is convincing and compatible with standard microplates and automated microscopes and thus will be of broad interest. The application to hiPCS-derived cardiomyocytes treated with doxorubicin provides a solid proof-of-concept demonstrating the potential for high-throughput analysis.

Reviewed by eLife