Bioengineering

Modular DNA barcoding of nanobodies enables multiplexed in situ protein imaging and high-throughput biomolecule detection

1. Shilin Zhong
2. Ruiyu Wang
3. Xinwei Gao
4. Qingchun Guo
5. Rui Lin
6. Minmin Luo

• Curated by eLife

  eLife Assessment

  This fundamental manuscript presents a practical modification of the orthogonal hybridization chain reaction (HCR) technique, a promising yet underutilized method with broad potential for future applications across various fields. The authors advance this technique by integrating peptide ligation technology and nanobody-based antibody mimetics-cost-effective and scalable alternatives to conventional antibodies-into a DNA-immunoassay framework that merges oligonucleotide-based detection with immunoassay methodologies. Notably, they demonstrate with compelling evidence that this approach facilitates a modified ELISA platform capable of simultaneously quantifying multiple target protein expression levels within a single protein mixture sample.

Reviewed by eLife

Rapid Cell-Free Combinatorial Mutagenesis Workflow Using Small Oligos Suitable for High-Iteration, Active Learning-Guided Protein Engineering

1. Ryan Godin
2. Sepehr Hejazi
3. Bret Lange
4. Basmala Aldamak
5. Nigel F. Reuel

Reviewed by Arcadia Science

Open-source cell culture automation system with integrated cell counting for passaging microplate cultures

1. Greg Courville
2. Shivanshi Vaid
3. Alexis Toruño
4. Paul Lebel
5. Joana P. Cabrera
6. Preethi Raghavan
7. Axel Jacobsen
8. George Bell
9. Manuel D. Leonetti
10. Rafael Gómez-Sjöberg

Reviewed by Arcadia Science

De novo design of miniprotein agonists and antagonists targeting G protein-coupled receptors

1. Edin Muratspahić
2. David Feldman
3. David E. Kim
4. Xiangli Qu
5. Ana-Maria Bratovianu
6. Paula Rivera-Sánchez
7. Jan Hendrik Voss
8. Emil P. T. Hertz
9. Mads Jeppesen
10. Federica Dimitri
11. Kensuke Sakamoto
12. Amrita Nallathambi
13. Pia Peceli
14. Jianjun Cao
15. Brian P. Cary
16. Matthew J. Belousoff
17. Peter Keov
18. Phuc N.H. Trinh
19. Qingchao Chen
20. Yue Ren
21. Justyn Fine
22. Sudha Mishra
23. Annu Dalal
24. Shachie Sinha
25. Ramanuj Banerjee
26. Manisankar Ganguly
27. Karthik Varappalayam Karuppusamy
28. Isaac Sappington
29. Thomas Schlichthaerle
30. Jason Z. Zhang
31. Arvind Pillai
32. Brian Coventry
33. Ljubica Mihaljević
34. Magnus Bauer
35. Susana Vázquez Torres
36. Amir Motmaen
37. Gyu Rie Lee
38. Long Tran
39. Xinru Wang
40. Inna Goreshnik
41. Dionne K. Vafeados
42. Justin E. Svendsen
43. Parisa Hosseinzadeh
44. Nicolai Lindegaard
45. Matthäus Brandt
46. Yann Waltenspühl
47. Kristine Deibler
48. Lukas Deweid
49. Anja Bennett
50. Jendrik Schöppe
51. Tiantang Dong
52. Xiaoli Yan
53. Luke Oostdyk
54. William Cao
55. Lakshmi Anantharaman
56. Johan J. Weisser
57. Jesper Frank Bastlund
58. Christoffer Bundgaard
59. Ayodeji A. Asuni
60. Justin G. English
61. Lance Stewart
62. Lauren Halloran
63. Jamie B. Spangler
64. André Lieber
65. Arun K. Shukla
66. Patrick M. Sexton
67. Bryan L. Roth
68. Brian E. Krumm
69. Denise Wootten
70. Christopher G. Tate
71. Christoffer Norn
72. David Baker

Reviewed by Arcadia Science

CRISPR-edited DPSCs constitutively expressing BDNF enhance dentin regeneration in injured teeth

1. Ji Hyun Kim
2. Muhammad Irfan
3. Sreelekshmi Sreekumar
4. Atsawasuwan Phimon
5. Stephanie Kim
6. Seung Chung

• Curated by eLife

  eLife Assessment

  This study on the effect of the trophic factor BDNF upon dental cells is an understudied subject that is relevant to dental regeneration and repair. Given that the topic is new and has not been covered previously, the report is a useful foray into a new area of investigation, although several experimental results could be strengthened. The connection of BDNF and dental health is a solid attempt in potentially translating trophic factor signaling clinically, which has been stymied in past efforts.

Reviewed by eLife

Calibration and validation strategy for electromechanical cardiac digital twins

1. Zhinuo Jenny Wang
2. Maxx Holmes
3. Ruben Doste
4. Julia Camps
5. Francesca Margara
6. Mariano Vazquez
7. Blanca Rodriguez

• Curated by eLife

  eLife Assessment

  This is a potentially important study that explores the relevant range of parameter values for calibration and validation of cardiac electromechanics in ventricular models. Although much of the work presented is solid, the evidence provided to support the authors' key scientific claims is incomplete, especially as it relates to the emphasis on standardized validation and verification approaches. Notably, the level of model personalization presented in this work falls short of the threshold for what could reasonably be called a "digital twin", even by the relatively relaxed standards that have emerged in computational physiology and related fields in recent years.

Reviewed by eLife

Bacterial Wastewater-Based Epidemiology Using Surface-Enhanced Raman Spectroscopy and Machine Learning

1. Liam K. Herndon
2. Yirui Zhang
3. Fareeha Safir
4. Babatunde Ogunlade
5. Halleh B. Balch
6. Alexandria B. Boehm
7. Jennifer A. Dionne

Reviewed by Arcadia Science

Magnetically steered cell therapy for reduction of intraocular pressure as a treatment strategy for open-angle glaucoma

1. M Reza Bahranifard
2. Jessica Chan
3. A Thomas Read
4. Guorong Li
5. Lin Cheng
6. Babak N Safa
7. Seyed Mohammad Siadat
8. Anamik Jhunjhunwala
9. Hans E Grossniklaus
10. Stanislav Y Emelianov
11. W Daniel Stamer
12. Markus H Kuehn
13. C Ross Ethier

• Curated by eLife

  eLife Assessment

  This study has fundamental findings that support the potential application of exogenous stem cell therapy as a viable therapeutic option for the management of intraocular pressure (IOP) and to increase outflow facility. The evidence supporting the clinical application of stem cells is compelling, using a combination of established in vivo and ex vivo experimental techniques. The work will be of interest to both basic stem cell biologists and clinical glaucoma specialists.

Reviewed by eLife

AI.zymes: A Modular Platform for Evolutionary Enzyme Design

1. Lucas P. Merlicek
2. Jannik Neumann
3. Abbie Lear
4. Vivian Degiorgi
5. Moor M. de Waal
6. Tudor‐Stefan Cotet
7. Adrian J. Mulholland
8. H. Adrian Bunzel

Reviewed by Arcadia Science

Antibody affinity engineering using antibody repertoire data and machine learning

1. Lena Erlach
2. Simon Friedensohn
3. Daniel Neumeier
4. Derek M. Mason
5. Sai T. Reddy

Reviewed by Arcadia Science