eLife

Latest preprint reviews

1. A novel bioinformatics pipeline for the identification of immune inhibitory receptors as potential therapeutic targets

   This article has 11 authors:

   1. Akashdip Singh
   2. Alberto Miranda Bedate
   3. Helen J von Richthofen
   4. Saskia V Vijver
   5. Michiel van der Vlist
   6. Raphael Kuhn
   7. Alexander Yermanos
   8. Jürgen J Kuball
   9. Can Kesmir
   10. M Ines Pascoal Ramos
   11. Linde Meyaard

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     The authors presented a valuable bioinformatics pipeline for screening and identifying inhibitory receptors for potential drug targets. They provided solid evidence showing a sequential reduction in the search space through various screening tools and algorithms and demonstrated that this pipeline can be used to "rediscover" known targets. Further experimental validation on putative and unknown inhibitory receptors will strengthen the evidence reported in this work. This study will be of interest to bioinformaticians and computational biologists working on immune regulation, sequence screening, and target identification of immune checkpoint inhibitors.

   Reviewed by eLife

2. Damage-induced basal epithelial cell migration modulates the spatial organization of redox signaling and sensory neuron regeneration

   This article has 4 authors:

   1. Alexandra M Fister
   2. Adam Horn
   3. Michael R Lasarev
   4. Anna Huttenlocher

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This important study identifies a novel link between the early keratinocyte response to wounds and the subsequent regenerative capacity of local sensory neurons. The evidence supporting the claims of the authors is convincing, although inclusion of conditional genetics or cell-autonomy tests would have strengthened the mechanistic aspects. The work will be of interest to cell and developmental biologists interested in tissue regeneration and cell interactions in a broader context.

   Reviewed by eLife

3. Dependence of nucleosome mechanical stability on DNA mismatches

   This article has 6 authors:

   1. Thuy TM Ngo
   2. Bailey Liu
   3. Feng Wang
   4. Aakash Basu
   5. Carl Wu
   6. Taekjip Ha

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This manuscript reports important data on the stability of nucleosomes with dsDNA substrates containing defined mismatches at three defined nucleosomal positions. Compelling evidence obtained by single-molecule FRET experiments shows that certain mismatches lead to more stable nucleosomes likely because mismatches kink to enhance DNA flexibility leading to higher nucleosome stability. The biological significance and implications of the findings remain unclear.

   Reviewed by eLife

4. A novel bivalent interaction mode underlies a non-catalytic mechanism for Pin1-mediated protein kinase C regulation

   This article has 7 authors:

   1. Xiao-Ru Chen
   2. Karuna Dixit
   3. Yuan Yang
   4. Mark I McDermott
   5. Hasan Tanvir Imam
   6. Vytas A Bankaitis
   7. Tatyana I Igumenova

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     Pin1 as an essential prolyl cis/trans isomerase has attracted considerable attention because this enzyme family is implicated in cancer and neurodegenerative diseases. However, the requirement for its catalytic function remains a matter of dispute. The authors provide solid evidence that Pin1 modulates the activity of an important cell signaling kinase, Protein Kinase C, by a non-catalytic mechanism, acting as a chaperone to regulate the stability of this kinase.

   Reviewed by eLife

5. The Genetic Architecture of Dietary Iron Overload and Associated Pathology in Mice

   This article has 30 authors:

   1. Brie K. Fuqua
   2. Lambda Moses
   3. Stela McLachlan
   4. Calvin Pan
   5. Richard C. Davis
   6. Simon T. Hui
   7. Nam Che
   8. Zhiqiang Zhou
   9. Carmen Ng
   10. Sarada Charugundla
   11. Montgomery Blencowe
   12. Zara Saleem
   13. Aika Miikeda
   14. Beyza Ozdemir
   15. Chester Hui
   16. Thy Li
   17. Clara L. Stolin
   18. Marianne Kozuch
   19. Jie Zhou
   20. Kathryn Page
   21. Hiro Irimagawa
   22. Nam Ku
   23. Kodi Taraszka
   24. Nathan LaPierre
   25. David W. Killilea
   26. David M. Frazer
   27. Xia Yang
   28. Eleazar Eskin
   29. Chris D. Vulpe
   30. Aldons J. Lusis

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This manuscript presents a detailed phenotyping of the role of dietary iron in a large number of genetically distinct mouse strains. There are exciting and convincing data that could be valuable in their impact on the fields of nutrition, iron metabolism and anemia.

   Reviewed by eLife

6. Emergence of brain-like mirror-symmetric viewpoint tuning in convolutional neural networks

   This article has 5 authors:

   1. Amirhossein Farzmahdi
   2. Wilbert Zarco
   3. Winrich A Freiwald
   4. Nikolaus Kriegeskorte
   5. Tal Golan

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This computational study is a valuable empirical investigation into the common trait of neurons in brains and artificial neural networks: responding effectively to both objects and their mirror images and it focuses on uncovering conditions that lead to mirror symmetry in visual networks and the evidence convincingly demonstrates that learning contributes to expanding mirror symmetry tuning, given its presence in the data. Additionally, the paper delves into the transformation of face patches in primate visual hierarchy, shifting from view specificity to mirror symmetry to view invariance. It empirically analyzes factors behind similar effects in two network architectures, and key claims highlight the emergence of invariances in architectures with spatial pooling, driven by learning bilateral symmetry discrimination and importantly, these effects extend beyond faces, suggesting broader relevance. Despite strong experiments, some interpretations lack explicit support, and the paper overlooks pre-training emergence of mirror symmetry.

   Reviewed by eLife

7. Prediction error determines how memories are organized in the brain

   This article has 5 authors:

   1. Nicholas GW Kennedy
   2. Jessica C Lee
   3. Simon Killcross
   4. R Fred Westbrook
   5. Nathan M Holmes

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This is a fundamental study examining the role of prediction error in state allocation of memories. The data provided are convincing and largely support the conclusion that a gradual change between acquisition and extinction maintains the memory state of acquisition and thus results in extinction that is resistant to restoration. This paper is of interest to behavioural and neuroscience researchers studying learning, memory, and the neural mechanisms of those processes as well as to clinicians using extinction-based therapies in treating anxiety-based disorders

   Reviewed by eLife

8. Plural molecular and cellular mechanisms of pore domain KCNQ2 encephalopathy

   This article has 25 authors:

   1. Timothy J Abreo
   2. Emma C Thompson
   3. Anuraag Madabushi
   4. Kristen L Park
   5. Heun Soh
   6. Nissi Varghese
   7. Carlos G Vanoye
   8. Kristen Springer
   9. Jim Johnson
   10. Scotty Sims
   11. Zhigang Ji
   12. Ana G Chavez
   13. Miranda J Jankovic
   14. Bereket Habte
   15. Aamir R Zuberi
   16. Cathleen M Lutz
   17. Zhao Wang
   18. Vaishnav Krishnan
   19. Lisa Dudler
   20. Stephanie Einsele-Scholz
   21. Jeffrey L Noebels
   22. Alfred L George
   23. Atul Maheshwari
   24. Anastasios Tzingounis
   25. Edward C Cooper

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     The paper investigates a potential cause of a type of severe epilepsy that develops in early life because of a defect in a gene called KCNQ2. The significance is fundamental because it substantially advances our understanding of a major research question. The strength of the evidence is convincing because appropriate methods are used that are in line with the state-of-the art.

   Reviewed by eLife

9. Decoding the complexity of delayed wound healing following Enterococcus faecalis infection

   This article has 6 authors:

   1. Cenk Celik
   2. Stella Tue Ting Lee
   3. Frederick Reinhart Tanoto
   4. Mark Veleba
   5. Kimberly Kline
   6. Guillaume Thibault

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     Wounds are commonly infected, which can lead to delayed or poor wound healing, thereby significantly impacting morbidity and overall quality of life for patients. This manuscript uses single cell RNA sequencing to try to understand the impact of infection on various cell types during wound healing in a mouse model. The methodology is solid and the results provide a valuable 'atlas' of the cellular changes associated with infected and uninfected wounds which will be of interest to the field.

   Reviewed by eLife

10. Decoupling of the onset of anharmonicity between a protein and its surface water around 200 K

    This article has 11 authors:

    1. Lirong Zheng
    2. Bingxin Zhou
    3. Banghao Wu
    4. Yang Tan
    5. Juan Huang
    6. Madhusudan Tyagi
    7. Victoria García Sakai
    8. Takeshi Yamada
    9. Hugh O'Neill
    10. Qiu Zhang
    11. Liang Hong

    This article has been curated by 1 group:

    • Curated by eLife

      eLife assessment

      The study answers the important question of whether the conformational dynamics of proteins are slaved by the motion of solvent water or are intrinsic to the polypeptide. The results from neutron scattering experiments, involving isotopic labelling, carried out on a set of four structurally different proteins are convincing, showing that protein motions are not coupled to the solvent. A strength of this work is the study of a set of proteins using spectroscopy covering a range of resolutions. The work is of broad interest to researchers in the fields of protein biophysics and biochemistry.

    Reviewed by eLife