eLife

Latest preprint reviews

1. PTPN22 R620W gene editing in T cells enhances low-avidity TCR responses

   This article has 6 authors:

   1. Warren Anderson
   2. Fariba Barahmand-pour-Whitman
   3. Peter S Linsley
   4. Karen Cerosaletti
   5. Jane H Buckner
   6. David J Rawlings

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     PTPN22 is a protein tyrosine phosphatase which negatively regulates antigen receptor signaling. It has been proposed that several genetic variants of PTPN22 might be loss of function (LOF) variants, leading to hyper-responsive T cell proliferative and effector responses. The authors investigate how the PTPN22 R620W variant, associated with multiple autoimmune diseases, might contribute to breech of peripheral T cell tolerance. This work greatly advances and clarifies ongoing confusion of whether PTPN22 SNP(620W) is a LOF mutant.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #1 and Reviewer #3 agreed to share their name with the authors.)

   Reviewed by eLife

2. Transcription factors underlying photoreceptor diversity

   This article has 6 authors:

   1. Juan M Angueyra
   2. Vincent P Kunze
   3. Laura K Patak
   4. Hailey Kim
   5. Katie Kindt
   6. Wei Li

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This manuscript offers a valuable transcriptomic data set of known types of adult zebrafish photoreceptors (rod and cones). The study further identifies a large set of differentially expressed transcription factors, many of which still have an unidentified function in photoreceptors. Using CRISPR F0 screening, the study shows that the two tbx2 zebrafish paralogues are involved in photoreceptors specification beyond what is currently known. The study uses a solid methodology and the results will be valuable for researchers interested in photoreceptor biology. At present, however, the manuscript has a misleading title and focus: the analysis of adult photoreceptors can hardly offer a scenario of the transcription factors involved in the specification of photoreceptors.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #3 agreed to share their name with the authors.)

   Reviewed by eLife

3. Emergence of time persistence in a data-driven neural network model

   This article has 5 authors:

   1. Sebastien Wolf
   2. Guillaume Le Goc
   3. Georges Debrégeas
   4. Simona Cocco
   5. Rémi Monasson

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     The authors show that how high-dimensional neural signals can be reduced to low-dimensional models with variables that can be directly linked to behavior. The reduced model can account for long timescales of persistent activity that arise from transisions between metastable model states. The authors further show that the rate of these transitions is modulated by water temperature according to the classic Arrhenius law.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. The reviewers remained anonymous to the authors.)

   Reviewed by eLife

4. Inhibition of noradrenergic signalling in rodent orbitofrontal cortex impairs the updating of goal-directed actions

   This article has 8 authors:

   1. Juan Carlos Cerpa
   2. Alessandro Piccin
   3. Margot Dehove
   4. Marina Lavigne
   5. Eric J Kremer
   6. Mathieu Wolff
   7. Shauna L Parkes
   8. Etienne Coutureau

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     The capacity to flexibly modify our actions in order to seek goals relies upon specific brain regions and neurochemicals. Cerpa et al identify norepinephrine (but not dopamine) within the ventrolateral orbitofrontal cortex (OFC) as key to updating identity-specific action-outcome associations when environmental conditions change. These conclusions are relatively well supported by the data and will be of interest to behavioural neuroscientists studying the function of OFC or noradrenaline signalling, as well as researchers studying associative learning.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #1 agreed to share their name with the authors.)

   Reviewed by eLife

5. scRNA-sequencing reveals subtype-specific transcriptomic perturbations in DRG neurons of PirtEGFPf mice in neuropathic pain condition

   This article has 11 authors:

   1. Chi Zhang
   2. Ming-Wen Hu
   3. Xue-Wei Wang
   4. Xiang Cui
   5. Jing Liu
   6. Qian Huang
   7. Xu Cao
   8. Feng-Quan Zhou
   9. Jiang Qian
   10. Shao-Qiu He
   11. Yun Guan

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This is an important paper that uses state of the art technology to address the underlying neurobiology of neuropathic pain, a topic of considerable translational relevance. The study describes changes in gene expression at a single cell resolution in somatosensory neurons following peripheral nerve injury. Bioinformatics analyses were employed to segregate neurons in sub-classes and to derive predictions on potential functions of regulated genes. While the work has considerable strengths, such as the single cell approach, there are also some weaknesses, including the fact that new gene candidates did not undergo functional analysis.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #2 agreed to share their name with the authors.)

   Reviewed by eLife

6. Revised International Staging System (R-ISS) stage-dependent analysis uncovers oncogenes and potential immunotherapeutic targets in multiple myeloma (MM)

   This article has 15 authors:

   1. Ling Zhong
   2. Peng Hao
   3. Qian Zhang
   4. Tao Jiang
   5. Huan Li
   6. Jialing Xiao
   7. Chenglong Li
   8. Lan Luo
   9. Chunbao Xie
   10. Jiang Hu
   11. Liang Wang
   12. Yuping Liu
   13. Yi Shi
   14. Wei Zhang
   15. Bo Gong

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This paper is of potential interest to a broad audience across myeloma study and single cell technology, as it implies a major adjustment to our current understanding of pathogenesis and treatment of myeloma. Overall the data quality is good, although reasonable alternative explanations of the data can be identified.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. The reviewers remained anonymous to the authors.)

   Reviewed by eLife

7. SRSF6 balances mitochondrial-driven innate immune outcomes through alternative splicing of BAX

   This article has 6 authors:

   1. Allison R Wagner
   2. Chi G Weindel
   3. Kelsi O West
   4. Haley M Scott
   5. Robert O Watson
   6. Kristin L Patrick

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This paper is of interest to people studying how differentially spliced genes regulate biological processes, and in particular, those interested in the intersection of cell death and immunity. This work offers new insight into how an alternatively spliced protein with a well-known function in cell death regulates the basal expression of genes involved in immunity and sensitizes cells to apoptotic cell death. Overall, the major conclusions are supported by the data but more investigation is needed to support the mechanism by which BAX splicing is inducing the phenotypes observed.

     (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. The reviewers remained anonymous to the authors.)

   Reviewed by eLife

8. Single-cell characterization of human GBM reveals regional differences in tumor-infiltrating leukocyte activation

   This article has 10 authors:

   1. Philip Schmassmann
   2. Julien Roux
   3. Steffen Dettling
   4. Sabrina Hogan
   5. Tala Shekarian
   6. Tomás A Martins
   7. Marie-Françoise Ritz
   8. Sylvia Herter
   9. Marina Bacac
   10. Gregor Hutter

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     This study is valuable and contains results that are supported by convincing evidence. In the future, the observations could be further strengthened by independent validation, and by looking at larger numbers of patients, as well as by determining whether patient heterogeneity is either contributing to or obscuring certain patterns. The work will be of interest to a broad audience in the oncology and immunology fields as it is on a cancer type that does not respond well to immune checkpoint therapeutics.

   Reviewed by eLife

9. Hormone replacement therapy for postmenopausal atherosclerosis is offset by late age iron deposition

   This article has 10 authors:

   1. Tianze Xu
   2. Jing Cai
   3. Lei Wang
   4. Li Xu
   5. Hongting Zhao
   6. Fudi Wang
   7. Esther G Meyron-Holtz
   8. Fanis Missirlis
   9. Tong Qiao
   10. Kuanyu Li

   This article has been curated by 1 group:

   • Curated by eLife

     eLife assessment

     In this potentially important study, the authors attempt to explain why hormone replacement therapy with estrogen is not effective in preventing atherosclerosis in post-menopausal women by showing that iron accumulation prevents the hormone replacement therapy benefit through negative regulation of estrogen receptor expression via Mdm2-mediated proteolysis. The strength of evidence is currently incomplete as control groups are missing and there is a lack of clear-cut evidence that this effect is related to the estradiol therapy in addition to the accumulation of iron in the post-menopausal state. The general public as well as specialists might find this work to be of interest.

   Reviewed by eLife

10. Neutrophil-mediated fibroblast-tumor cell il-6/stat-3 signaling underlies the association between neutrophil-to-lymphocyte ratio dynamics and chemotherapy response in localized pancreatic cancer: A hybrid clinical-preclinical study

    This article has 12 authors:

    1. Iago de Castro Silva
    2. Anna Bianchi
    3. Nilesh U Deshpande
    4. Prateek Sharma
    5. Siddharth Mehra
    6. Vanessa Tonin Garrido
    7. Shannon Jacqueline Saigh
    8. Jonathan England
    9. Peter Joel Hosein
    10. Deukwoo Kwon
    11. Nipun B Merchant
    12. Jashodeep Datta

    This article has been curated by 1 group:

    • Curated by eLife

      Evaluation Summary:

      Iago De Castro et al, constitute an exciting study conveying to readers that neutrophil-to-lymphocyte ratio dynamics predict pancreatic cancer pathologic response to neoadjuvant therapy. Specifically, the authors aim to determine the effect of gemcitabine/paclitaxel and anti-Ly6G treatment on stromal T cells and CAF populations. They conclude that neutrophil-to-lymphocyte ratios are associated with survival following this treatment and use animal models to show metastatic effects allied to it. The authors attempt to convey that microenvironmental neutrophils could play a causal role in pancreatic cancer chemoresistance. It was agreed that while the discoveries are very interesting, the public could benefit from the authors improving: the relevance to the human condition, providing a stronger link to fibroblastic cell functional transitions, broadening the discussion regarding previous/related published studies, and strengthening the anti-Ly6G specificity proof within the provided data.

      (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #2 agreed to share their name with the authors.)

    Reviewed by eLife