Bioengineering

Toward De Novo Protein Design from Natural Language

1. Fengyuan Dai
2. Shiyang You
3. Yudian Zhu
4. Yuan Gao
5. Lihao Fu
6. Xibin Zhou
7. Jin Su
8. Chentong Wang
9. Yuliang Fan
10. Xiaoxiao Ma
11. Xianjun Deng
12. Letong Yu
13. Hui Qian
14. Yan He
15. Yitao Ke
16. Chenchen Han
17. Xing Chang
18. Liangzhen Zheng
19. Sheng Wang
20. Yajie Wang
21. Anping Zeng
22. Shunzhi Wang
23. Tong Si
24. Jianming Liu
25. Hongyuan Lu
26. Fajie Yuan

Reviewed by Arcadia Science

Self-Organizing Neural Networks in Novel Moving Bodies: Anatomical, Behavioral, and Transcriptional Characterization of a Living Construct with a Nervous System

1. Haleh Fotowat
2. Laurie O’Neill
3. Léo Pio-Lopez
4. Megan Sperry
5. Patrick Erickson
6. Tiffany Lin
7. Michael Levin

Reviewed by Arcadia Science

Free-Form Microfluidic Microneedle Array Patches

1. Ian A. Coates
2. Madison M. Driskill
3. Netra U. Rajesh
4. Gabriel Lipkowitz
5. Dan Ilyin
6. Yue Xu
7. Maria T. Dulay
8. Gunilla B. Jacobson
9. Jillian L. Perry
10. Shaomin Tian
11. Joseph M. DeSimone

Reviewed by Arcadia Science

Isolating Small Extracellular Vesicles from Small Volumes of Blood Plasma using size exclusion chromatography and density gradient ultracentrifugation: A Comparative Study

1. Fang Kong
2. Megha Upadya
3. Andrew See Wong Weng
4. Rinkoo Dalan
5. Ming Dao

• Curated by eLife

  eLife Assessment

  This work provides a simple, rapid and valuable protocol for the isolation of small extracellular vesicles from small volumes of plasma, using two well-known methodologies, in tandem: size exclusion chromatography (SEC) and density gradient ultracentrifugation (DGUC). The authors exhaustively test these methodologies separately and in combination, showing superior results for the SEC-DGUC in terms of purity and yield. The results obtained in this work are convincing, using multiple state-of-art methodologies for the characterization of the isolates that support their conclusions.

Reviewed by eLife

Development of antigen-dextramers for detection and evaluation of CAR T cells

1. Rasmus U. W. Friis
2. Maria Ormhøj
3. Cecilie S. Krüger-Jensen
4. Markus Barden
5. Keerthana Ramanathan
6. Mikkel R. Hansen
7. Hinrich Abken
8. Sine R. Hadrup

Reviewed by Arcadia Science

Lab-in-the-loop therapeutic antibody design with deep learning

1. Nathan C. Frey
2. Isidro Hötzel
3. Samuel D. Stanton
4. Ryan Kelly
5. Robert G. Alberstein
6. Emily Makowski
7. Karolis Martinkus
8. Daniel Berenberg
9. Jack Bevers
10. Tyler Bryson
11. Pamela Chan
12. Alicja Czubaty
13. Tamica D’Souza
14. Henri Dwyer
15. Anna Dziewulska
16. James W. Fairman
17. Allen Goodman
18. Jennifer Hofmann
19. Henry Isaacson
20. Aya Ismail
21. Samantha James
22. Taylor Joren
23. Simon Kelow
24. James R. Kiefer
25. Matthieu Kirchmeyer
26. Joseph Kleinhenz
27. James T. Koerber
28. Julien Lafrance-Vanasse
29. Andrew Leaver-Fay
30. Jae Hyeon Lee
31. Edith Lee
32. Donald Lee
33. Wei-Ching Liang
34. Joshua Yao-Yu Lin
35. Sidney Lisanza
36. Andreas Loukas
37. Jan Ludwiczak
38. Sai Pooja Mahajan
39. Omar Mahmood
40. Homa Mohammadi-Peyhani
41. Santrupti Nerli
42. Ji Won Park
43. Jaewoo Park
44. Stephen Ra
45. Sarah Robinson
46. Saeed Saremi
47. Franziska Seeger
48. Imee Sinha
49. Anna M. Sokol
50. Natasa Tagasovska
51. Hao To
52. Edward Wagstaff
53. Amy Wang
54. Andrew M. Watkins
55. Blair Wilson
56. Shuang Wu
57. Karina Zadorozhny
58. John Marioni
59. Aviv Regev
60. Yan Wu
61. Kyunghyun Cho
62. Richard Bonneau
63. Vladimir Gligorijević

Reviewed by Arcadia Science

Mitochondrial adenine base editing of mouse somatic tissues via adeno-associated viral delivery

1. Christian D Mutti
2. Lindsey Van Haute
3. Lucia Luengo-Gutierrez
4. Keira Turner
5. Pedro Silva-Pinheiro
6. Michal Minczuk

• Curated by eLife

  eLife Assessment

  The authors have demonstrated the use of adenine base editors delivered via adeno-associated viruses to introduce edits in the mitochondrial genome. The manuscript describes the methodology well, and the conclusions are convincingly supported by the results. The valuable results highlight the potential of these base editors to model mtDNA variations in somatic tissues in animal models.

Reviewed by eLife

Scaly-Tail Organ Enhances Static Stability during Pel’s Scaly-tailed Flying Squirrels’ Arboreal Locomotion

1. Andrew K. Schulz
2. Mrudul Chellapurath
3. Pranav C. Khandelwal
4. SeyedReza Rezaei
5. Stefan Merker
6. Ardian Jusufi

Reviewed by preLights

Semantical and geometrical protein encoding toward enhanced bioactivity and thermostability

1. Yang Tan
2. Bingxin Zhou
3. Lirong Zheng
4. Guisheng Fan
5. Liang Hong

• Curated by eLife

  eLife Assessment

  ProtSSN is a valuable approach that generates protein embeddings by integrating sequence and structural information, demonstrating improved prediction of mutation effects on thermostability compared to competing models. The evidence supporting the authors' claims is compelling, with well-executed comparisons. This work will be of particular interest to researchers in bioinformatics and structural biology, especially those focused on protein function and stability.

Reviewed by eLife

DyAb: sequence-based antibody design and property prediction in a low-data regime

1. Joshua Yao-Yu Lin
2. Jennifer L. Hofmann
3. Andrew Leaver-Fay
4. Wei-Ching Liang
5. Stefania Vasilaki
6. Edith Lee
7. Pedro O. Pinheiro
8. Natasa Tagasovska
9. James R. Kiefer
10. Yan Wu
11. Franziska Seeger
12. Richard Bonneau
13. Vladimir Gligorijevic
14. Andrew Watkins
15. Kyunghyun Cho
16. Nathan C. Frey

Reviewed by Arcadia Science