eLife

Latest preprint reviews

1. Stability of motor representations after paralysis

   This article has 7 authors:

   1. Charles Guan
   2. Tyson Aflalo
   3. Carey Y Zhang
   4. Elena Amoruso
   5. Emily R Rosario
   6. Nader Pouratian
   7. Richard A Andersen

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     Using data from a tetraplegic individual, the authors show that the neural representations for attempted single finger movements after multiple years after the injury is still organized in a way that is typical for healthy participants. They also show that the representational structure does not change during task training on a simple finger classification task, and that the representational structure - even without active motor outflow or sensory inflow - switches from a motor representation to a sensory representation during the trial. The results have important implications for the use and training of BCI devices in humans.

     (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

2. Regional importation and asymmetric within-country spread of SARS-CoV-2 variants of concern in the Netherlands

   This article has 13 authors:

   1. Alvin X Han
   2. Eva Kozanli
   3. Jelle Koopsen
   4. Harry Vennema
   5. RIVM COVID-19 molecular epidemiology group
   6. Karim Hajji
   7. Annelies Kroneman
   8. Ivo van Walle
   9. Don Klinkenberg
   10. Jacco Wallinga
   11. Colin A Russell
   12. Dirk Eggink
   13. Chantal Reusken

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     The authors present an analysis of SARS-CoV-2 variant of concern movements into and within the Netherlands. The primary finding is that flight bans (in conjunction with other NPIs) were grossly insufficient at stopping the invasion of new variants into The Netherlands over a one-year period. Although consistent with similar analyses of other regions early in the pandemic, this manuscript provides additional evidence of the inadequacy of flight bans at stopping the spread of variants that are already widespread globally, especially (but not only) when importations continue via ground travel. The reviewers have questioned the rigor of the statistical models and the presentation of the main result, including analyses that were included but do not appear to contribute to the main argument.

     (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, ScreenIT

3. c-Myc plays a key role in IFN-γ-induced persistence of Chlamydia trachomatis

   This article has 11 authors:

   1. Nadine Vollmuth
   2. Lisa Schlicker
   3. Yongxia Guo
   4. Pargev Hovhannisyan
   5. Sudha Janaki-Raman
   6. Naziia Kurmasheva
   7. Werner Schmitz
   8. Almut Schulze
   9. Kathrin Stelzner
   10. Karthika Rajeeve
   11. Thomas Rudel

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This paper will be of interest to scientists working to understand Chlamydia trachomatis persistence, and host pathogen interaction in general. The authors report the surprising observation that the mechanism of restriction of bacterial growth is through the inhibition of c-Myc signaling by IFNg as opposed to IDO-dependent depletion of tryptophan levels, as had been previously suggested.

     (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. Transient cell-in-cell formation underlies tumor relapse and resistance to immunotherapy

   This article has 23 authors:

   1. Amit Gutwillig
   2. Nadine Santana-Magal
   3. Leen Farhat-Younis
   4. Diana Rasoulouniriana
   5. Asaf Madi
   6. Chen Luxenburg
   7. Jonathan Cohen
   8. Krishnanand Padmanabhan
   9. Noam Shomron
   10. Guy Shapira
   11. Annette Gleiberman
   12. Roma Parikh
   13. Carmit Levy
   14. Meora Feinmesser
   15. Dov Hershkovitz
   16. Valentina Zemser-Werner
   17. Oran Zlotnik
   18. Sanne Kroon
   19. Wolf-Dietrich Hardt
   20. Reno Debets
   21. Nathan Edward Reticker-Flynn
   22. Peleg Rider
   23. Yaron Carmi

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     Although immunotherapy has revolutionized the cancer field, most tumors do not respond, and in those that do respond, acquired resistance is often inevitable. Several mechanisms have been proposed to be involved in acquired resistance to immunotherapy. In the present study, the authors show that tumor cells from multi-cellular structures protect the inner core of tumor cells via the prevention of penetration by lytic molecules. The formation of these structures is mediated by anti-tumor T cells even with tumors that have retained their immunogenic neoantigens. This work identifies a novel possible resistance mechanism to immune-mediated tumor killing.

     (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

5. Comprehensive machine-learning survival framework develops a consensus model in large-scale multicenter cohorts for pancreatic cancer

   This article has 10 authors:

   1. Libo Wang
   2. Zaoqu Liu
   3. Ruopeng Liang
   4. Weijie Wang
   5. Rongtao Zhu
   6. Jian Li
   7. Zhe Xing
   8. Siyuan Weng
   9. Xinwei Han
   10. Yu-ling Sun

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This work sets out to develop a better machine learning-based predictor of survival/prognosis for patients diagnosed with pancreatic cancer, by developing a large combinatorial family of machine learning methods based on a high-dimensional set of -omics and other patient data features; using ten publicly available data sets. A reduced set of features (giving rise to a signature called AIDPS that involves 9 genes) was identified. Unfortunately, the authors used all ten data sets both in the discover stage and in the validation stage of their study. There was also a large mismatch between the initial number of covariates (15,288 genes) and the number of samples (n=1280). The combinatorial ensemble of ML models makes for an unwieldy methodology that is difficult to interpret or duplicate.

     (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. Delineating the transcriptional landscape and clonal diversity of virus-specific CD4+ T cells during chronic viral infection

   This article has 5 authors:

   1. Ryan Zander
   2. Achia Khatun
   3. Moujtaba Y Kasmani
   4. Yao Chen
   5. Weiguo Cui

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This study by Zander et al provides a valuable transcriptomic resource of murine CD4 T cell subsets in chronic viral infection. This study will be of broad interest to a wide range of researchers focused on studying CD4 T cell biology.

     (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. Age acquired skewed X chromosome inactivation is associated with adverse health outcomes in humans

   This article has 16 authors:

   1. Amy L Roberts
   2. Alessandro Morea
   3. Ariella Amar
   4. Antonino Zito
   5. Julia S El-Sayed Moustafa
   6. Max Tomlinson
   7. Ruth CE Bowyer
   8. Xinyuan Zhang
   9. Colette Christiansen
   10. Ricardo Costeira
   11. Claire J Steves
   12. Massimo Mangino
   13. Jordana T Bell
   14. Chloe CY Wong
   15. Timothy J Vyse
   16. Kerrin S Small

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     Women are a mosaic of two population of cells, one with the paternal X-chromosome and the other with the maternal one in the active state due to random X-chromosome inactivation (XCI) that occurs during embryogenesis. During aging, one of the two populations dominates the other in a significant proportion of women. This skewing of XCI is of unknown etiology and its impact on health remains enigmatic. In this study, Amy L. Robert et al, demonstrate that skewing may not be benign and it is associated with a modest but significant increased risk of cardiovascular disease and cancer.

     (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

8. Disruption in structural–functional network repertoire and time-resolved subcortical fronto-temporoparietal connectivity in disorders of consciousness

   This article has 11 authors:

   1. Rajanikant Panda
   2. Aurore Thibaut
   3. Ane Lopez-Gonzalez
   4. Anira Escrichs
   5. Mohamed Ali Bahri
   6. Arjan Hillebrand
   7. Gustavo Deco
   8. Steven Laureys
   9. Olivia Gosseries
   10. Jitka Annen
   11. Prejaas Tewarie

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary

     This study aims to characterise the brain dynamics of different disorders of consciousness by studying patients in a minimally conscious state and those with unresponsive wakefulness syndrome, along with healthy controls. The authors apply elegant analyses to the dynamics of brain functional connectivity to successfully discriminate between healthy controls and patients, revealing reduced metastability and a contracted network repertoire in disorders of consciousness. Overall, the study provides important new information on the mechanisms of disorders of consciousness and the functional brain networks involved.

     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

9. A non-transcriptional function of Yap regulates the DNA replication program in Xenopus laevis

   This article has 8 authors:

   1. Rodrigo Meléndez García
   2. Olivier Haccard
   3. Albert Chesneau
   4. Hemalatha Narassimprakash
   5. Jérôme Roger
   6. Muriel Perron
   7. Kathrin Marheineke
   8. Odile Bronchain

   This article has been curated by 1 group:

   • Curated by eLife

     Evaluation Summary:

     This manuscript is of interest within the fields of DNA replication, developmental biology and oncology. Focusing on the YAP protein, a major regulator of tissue growth and repair, it identifies an interesting new role in DNA replication dynamics, beyond its known role in gene transcription regulation. A series of experimental manipulations support the key claims of the paper. Additional control experiments, as well as mechanistic insight into how RIF1 and YAP interact, and insight into how that interaction influences replication timing would make the paper stronger.

     (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

10. This article has 14 authors:

    1. Guang Wang
    2. Yong-Feng Wang
    3. Jiang-Lan Li
    4. Ru-Ji Peng
    5. Xin-Yin Liang
    6. Xue-Dong Chen
    7. Gui-Hua Jiang
    8. Jin-Fang Shi
    9. Yang-Hu Si-Ma
    10. Shi-Qing Xu
    11. 苏州大学苏州医学院基础医学与生物科学学院, 江苏 苏州215123, 中国
    12. 苏州大学第一附属医院临床检验科, 江苏 苏州215006, 中国
    13. School of Biology and Basic Medical Sciences, Suzhou Medical College, Soochow University, Suzhou, Jiangsu 215123, China
    14. Department of Clinical Laboratory, First Affiliated Hospital of Soochow University, Suzhou, Jiangsu 215006, China

    This article has been curated by 1 group:

    • Curated by eLife

      Evaluation Summary:

      The authors present a manuscript addressing an important unmet need, specifically focused on understanding the effects of high protein on hematopoiesis. This information can be of interest to basic biologists and clinicians who specialize in the areas of various diseases associated with elevated protein concentration (e.g. infections, inflammation, multiple myeloma, renal failure, etc). This is in part what makes for the complexity in studying this entity as the consequences of such disparate diseases are difficult to parcel out as causes of which specific disease manifestations. Furthermore, the presented work is done in an invertebrate model without additional confirmation in other model systems. Taken together, the work, which is plentiful in experiments, provides an incomplete understanding of cause and effect, leading to overinterpretation of results and overstating of derived conclusions.

      (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