Showing page 1 of 15 pages of list content

  1. The common TMEM173 HAQ, AQ alleles rescue CD4 T cellpenia, restore T-regs, and prevent SAVI (N153S) inflammatory disease in mice

    This article has 7 authors:
    1. Alexandra Aybar-Torres
    2. Lennon A Saldarriaga
    3. Ann T. Pham
    4. Amir M. Emtiazjoo
    5. Ashish K Sharma
    6. Andrew J. Bryant
    7. Lei Jin
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This study describes useful mouse models of knock-ins of human STING1 variants and an assessment of these variants' action in mouse immune cells. While the data included in the manuscript are solid, because of the authors' interpretation and conclusions made, the work is currently considered incomplete.

    Reviewed by eLife

    This article has 4 evaluationsAppears in 2 listsLatest version Latest activity
  2. Unraveling the Power of NAP-CNB’s Machine Learning-enhanced Tumor Neoantigen Prediction

    This article has 11 authors:
    1. Almudena Méndez-Pérez
    2. Andrés M. Acosta-Moreno
    3. Carlos Wert-Carvajal
    4. Pilar Ballesteros-Cuartero
    5. Rubén Sánchez-García
    6. José R Macías
    7. Rebeca Sanz-Pamplona
    8. Ramon Alemany
    9. Carlos Óscar S. Sorzano
    10. Arrate Muñoz-Barrutia
    11. Esteban Veiga
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This important study assesses a novel in silico neoantigen prediction algorithm combined with in vivo validation to determine important parameters of neoantigen immunogenicity and tumor control. The strength of evidence is compelling. This study contributes to the field and will aid in the development of improved personalized cancer vaccines.

    Reviewed by eLife

    This article has 4 evaluationsAppears in 2 listsLatest version Latest activity
  3. Target-agnostic identification of human antibodies to Plasmodium falciparum sexual forms reveals cross stage recognition of glutamate-rich repeats

    This article has 17 authors:
    1. Axelle Amen
    2. Randy Yoo
    3. Amanda Fabra-García
    4. Judith Bolscher
    5. William J.R. Stone
    6. Isabelle Bally
    7. Sebastián Dergan-Dylon
    8. Iga Kucharska
    9. Roos M. de Jong
    10. Marloes de Bruijni
    11. Teun Bousema
    12. C. Richter King
    13. Randall S. MacGill
    14. Robert W. Sauerwein
    15. Jean-Philippe Julien
    16. Pascal Poignard
    17. Matthijs M. Jore
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment:

      This important study combines experiments that rely on the use of target-agnostic memory B cell sorting and screening approaches and thorough characterization of antibodies with specificities to the sexual stages of Plasmodium falciparum. The authors present solid findings that one antibody, B1E11K, is cross-reactive with multiple proteins containing glutamate-rich repeats. B1E11k binds to the repeats through homotypic interactions, similar to what has been observed for Plasmodium circumsporozoite protein repeat-directed antibodies. Despite the importance of the findings beyond the field of malaria, the writing, in several places, lacks clarity.

    Reviewed by eLife

    This article has 4 evaluationsAppears in 2 listsLatest version Latest activity
  4. The zinc transporter Slc30a1 in macrophages plays a protective role against Salmonella infection

    This article has 6 authors:
    1. Pinanong Na-Phatthalung
    2. Shumin Sun
    3. Enjun Xie
    4. Jia Wang
    5. Junxia Min
    6. Fudi Wang
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      Work described in this manuscript reveals the importance of the zinc transporter SLC30A1 in the antimicrobial function of macrophages, specifically against Salmonella. Cell-targeted deletion of the zinc transporter increased susceptibility of mice to systemic infection with Salmonella, leading to decreases in several cell functions such as nos2 expression. The authors argue that zinc homeostasis promotes macrophage cell function that is not conductive to the intracellular proliferation of Salmonella. This study provides novel and supportive evidence for a new pathway in nutritional immunity.

    Reviewed by eLife

    This article has 5 evaluationsAppears in 2 listsLatest version Latest activity
  5. UFMTrack: Under-Flow Migration Tracker enabling analysis of the entire multi-step immune cell extravasation cascade across the blood-brain barrier in microfluidic devices

    This article has 9 authors:
    1. Mykhailo Vladymyrov
    2. Luca Marchetti
    3. Sidar Aydin
    4. Sasha Soldati
    5. Adrien Mossu
    6. Arindam Pal
    7. Laurent Gueissaz
    8. Akitaka Ariga
    9. Britta Engelhardt
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This work is important because it attempts to elucidate how immune cells migrate across the blood brain barrier. The authors developed a convincing framework to visualize, recognize and track the movement of different immune cells across primary human and mouse brain microvascular endothelial cells without the need for fluorescence-based imaging using microfluidic devices. The data gathered are solid, and this work will be of interest to the cancer biology, immunology and medical therapeutics fields.

    Reviewed by eLife

    This article has 4 evaluationsAppears in 2 listsLatest version Latest activity
  6. An Evaluation of the Tumor Microenvironment through CALR, IL1R1, IFNB1, and IFNG to Assess Prognosis and Immunotherapy Response in Bladder Cancer Patients

    This article has 12 authors:
    1. Lilong Liu
    2. Zhenghao Liu
    3. Lei Fan
    4. Zhipeng Yao
    5. Junyi Hu
    6. Yaxin Hou
    7. Yang Li
    8. Yuhong Ding
    9. Yingchun Kuang
    10. Ke Chen
    11. Yi Hao
    12. Zheng Liu
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This study investigates the associations of four ICD-related genes in bladder cancer with increased immune cell infiltration and more prolonged survival. The study is valuable because it identifies a risk-scoring model, showing a correlation between high-risk scores based on four ICD-related genes and weak anti-tumour immune function. However, the evidence supporting the association of these genes and immunotherapy response is incomplete.

    Reviewed by eLife

    This article has 3 evaluationsAppears in 2 listsLatest version Latest activity
  7. Lymphoid origin of a lineage of intrinsically activated plasmacytoid dendritic cell in mice and humans

    This article has 15 authors:
    1. Alessandra Araujo
    2. Joseph D Dekker
    3. Kendra Garrison
    4. Zhe Su
    5. Catherine Rhee
    6. Zicheng Hu
    7. Bum-Kyu Lee
    8. Daniel Osorio
    9. Jiwon Lee
    10. Vishwanath R Iyer
    11. Lauren I. R. Ehrlich
    12. George Georgiou
    13. Gregory C Ippolito
    14. Stephen Yi
    15. Haley O Tucker
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This useful study aims to add fresh insights into the sharing of lymphoid and CDP (common DC precursor) lineage origin of plasmacytoid dendritic cells (pDCs). The evidence for a small subset of pDCs sharing its origin with B cell progenitors and depending on BCL11a expression is solid, although further functional characterization of the reported pDC subset would significantly enhance the significance of the study. The study will be of relevance to cellular immunologists interested in the ontogeny of plasmacytoid dendritic cells.

    Reviewed by eLife

    This article has 3 evaluationsAppears in 2 listsLatest version Latest activity
  8. SLAM/SAP signaling regulates discrete γδ T cell developmental checkpoints and shapes the innate-like γδ TCR repertoire

    This article has 12 authors:
    1. Somen K Mistri
    2. Brianna M. Hilton
    3. Katherine J. Horrigan
    4. Emma S. Andretta
    5. Remi Savard
    6. Oliver Dienz
    7. Kenneth J Hampel
    8. Diana L. Gerrard
    9. Joshua T. Rose
    10. Nikoletta Sidiropoulos
    11. Devdoot Majumdar
    12. Jonathan E. Boyson
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This important study highlights the role of SLAM-SAP signaling in shaping innate-like γδ T cell subsets, providing compelling evidence for the importance of SLAM-SAP in immune system regulation, and the potential implications of the findings for tumor surveillance and infectious disease management. The work will be of broad interest to immunologists.

    Reviewed by eLife

    This article has 3 evaluationsAppears in 2 listsLatest version Latest activity
  9. Exposure to live saprophytic Leptospira before challenge with a pathogenic serovar prevents severe leptospirosis and promotes kidney homeostasis

    This article has 3 authors:
    1. Suman Kundu
    2. Advait Shetty
    3. Maria Gomes-Solecki
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This important study could potential provide insight into mechanisms for vaccine-mediated protection, although the evidence for live Leptospira contributing to protection against a pathogenic serovar is still incomplete. The work will be of interest to the scientists interested in host-pathogen interactions and leptospirosis.

    Reviewed by eLife

    This article has 5 evaluationsAppears in 2 listsLatest version Latest activity
  10. Deconstructing Complexity: A Computational Topology Approach to Trajectory Inference in the Human Thymus with tviblindi

    This article has 13 authors:
    1. Jan Stuchly
    2. David Novak
    3. Nadezda Brdickova
    4. Petra Hadlova
    5. Ahmad Iksi
    6. Daniela Kuzilkova
    7. Michael Svaton
    8. George Alehandro Saad
    9. Pablo Engel
    10. Herve Luche
    11. Ana E. Sousa
    12. Afonso R. M. Almeida
    13. Tomas Kalina
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      The authors present an algorithm and workflow for the inference of developmental trajectories from single-cell data, including a mathematical approach to increase computational efficiency. While such efforts are in principle useful, the absence of benchmarking against synthetic data and a wide range of different single-cell data sets make this study incomplete. Based on what is presented, one can neither ultimately judge if this will be an advance over previous work nor whether the approach will be of general applicability.

    Reviewed by eLife

    This article has 5 evaluationsAppears in 2 listsLatest version Latest activity
  11. CD81+ fibroblasts, a unique subpopulation with accelerated cellular senescence, exaggerate inflammation and activate neutrophils via C3/C3aR1 axis in periodontitis

    This article has 10 authors:
    1. Liangliang Fu
    2. Chenghu Yin
    3. Qin Zhao
    4. Shuling Guo
    5. Wenjun Shao
    6. Ting Xia
    7. Quan Sun
    8. Liangwen Chen
    9. Min Wang
    10. Haibin Xia
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This useful study identifies a population of CD81-positive fibroblasts showing senescence signatures that can activate neutrophils through the C3/C3aR1 axis, hence contributing to the inflammatory response in periodontitis. Solid evidence, combining in vitro and in vivo analyses and mouse and human data, supports these findings. The work could be of interest to researchers working in the senescence and oral medicine fields

    Reviewed by eLife

    This article has 4 evaluationsAppears in 2 listsLatest version Latest activity
  12. Dynamic chromatin architecture identifies new autoimmune-associated enhancers for IL2 and novel genes regulating CD4+ T cell activation

    This article has 12 authors:
    1. Matthew C. Pahl
    2. Prabhat Sharma
    3. Rajan M. Thomas
    4. Zachary Thompson
    5. Zachary Mount
    6. James Pippin
    7. Peter A. Morawski
    8. Peng Sun
    9. Chun Su
    10. Daniel J. Campbell
    11. Struan F.A. Grant
    12. Andrew D. Wells
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This study presents a useful characterization of 3D chromosome conformation changes in activated T lymphocytes, linking risk variants for autoimmune disease to putative target genes. The study employs solid methods and approaches and demonstrates the utility of using chromatin conformation to understand gene regulatory processes. However, the same data modality (chromatin conformation) was previously generated by another group in the same model system, and a more in-depth comparison of results would have improved the utility of this study.

    Reviewed by eLife

    This article has 4 evaluationsAppears in 2 listsLatest version Latest activity
  13. Functional identification of soluble uric acid as an endogenous inhibitor of CD38

    This article has 6 authors:
    1. Shijie Wen
    2. Hiroshi Arakawa
    3. Shigeru Yokoyama
    4. Yoshiyuki Shirasaka
    5. Haruhiro Higashida
    6. Ikumi Tamai
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This important study provides solid evidence, both from biochemical analyses and in vivo mouse models, that soluble uric acid serves as an enzymatic inhibitor of the NADase CD38, thereby impacting inflammatory responses. By shedding light onto the intricate interplay between uric acid and CD38, the authors highlight potential therapeutic avenues for inflammatory and age-related conditions, which may be of interest to medical biologists, biochemists, and cell biologists. Further in vivo and in vitro validation suggested would be helpful to cement the significance and implications of these findings.

    Reviewed by eLife

    This article has 4 evaluationsAppears in 2 listsLatest version Latest activity
  14. Thymic dendritic cell-derived IL-27p28 promotes the establishment of functional bias against IFN-γ production in newly generated CD4+ T cells through STAT1-related epigenetic mechanisms

    This article has 6 authors:
    1. Jie Zhang
    2. Hui Tang
    3. Haoming Wu
    4. Xuewen Pang
    5. Rong Jin
    6. Yu Zhang
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This study presents a useful reassessment of the potential role of dendritic cell-derived IL-27 p28 cytokine in the functional maturation of CD4+CD8- thymocytes, and CD4+ recent thymic emigrants. The evidence supporting the claims of the authors is solid and serves to reaffirm what has been previously described, with the overall advance in understanding the mechanism(s) responsible for the intrathymic functional programming of CD4+ T cells being limited.

    Reviewed by eLife

    This article has 4 evaluationsAppears in 2 listsLatest version Latest activity
  15. A modular platform to display multiple hemagglutinin subtypes on a single immunogen

    This article has 7 authors:
    1. Dana Thornlow Lamson
    2. Faez Amokrane Nait Mohamed
    3. Mya Vu
    4. Daniel P. Maurer
    5. Larance Ronsard
    6. Daniel Lingwood
    7. Aaron G. Schmidt
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This valuable study showcases a novel and exciting vaccine platform but the evidence supporting the claims is incomplete. The work would benefit from robust statistical analysis of experimental groups with a larger number of individuals. There is also comparison to other existing vaccine platforms (such as the mosaic nanoparticle where hemagglutinin trimers are used).

    Reviewed by eLife

    This article has 4 evaluationsAppears in 2 listsLatest version Latest activity
  16. Chemokine expression profile of an innate granuloma

    This article has 5 authors:
    1. Megan E. Amason
    2. Cole J. Beatty
    3. Carissa K. Harvest
    4. Daniel R. Saban
    5. Edward A. Miao
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This is a valuable study of the spatial organization of innate granulomas following Chromobacterium violaceum infection and the expression of CC and CXC chemokines in the granuloma at several time points following infection. There is a wealth of information to be gained from this study. However, the analysis of these granulomas is incomplete, with room for orthogonal validation of some of the key findings with additional animals (using ISH or IHC), in addition to a more quantitative analysis of some of the currently more qualitative conclusions.

    Reviewed by eLife

    This article has 3 evaluationsAppears in 2 listsLatest version Latest activity
  17. Combining mutation and recombination statistics to infer clonal families in antibody repertoires

    This article has 4 authors:
    1. Natanael Spisak
    2. Thomas Dupic
    3. Thierry Mora
    4. Aleksandra M. Walczak
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This important study provides a new, apparently high-performance algorithm for B cell clonal family inference. The new algorithm is highly innovative and based on a rigorous probabilistic analysis of the relevant biological processes and their imprint on the resulting sequences, however, the strength of evidence regarding the algorithm's performance is incomplete, due to (1) a lack of clarity regarding how different data sets were used for different steps during algorithm development and validation, resulting in concerns of circularity, (2) a lack of detail regarding the settings for competitor programs during benchmarking, and (3) method development, data simulation for method validation, and empirical analyses all based on the B cell repertoire of a single subject. With clarity around these issues and application to a more diverse set of real samples, this paper could be fundamental to immunologists and important to any researcher or clinician utilizing B cell receptor repertoires in their field (e.g., cancer immunology).

    Reviewed by eLife

    This article has 5 evaluationsAppears in 2 listsLatest version Latest activity
  18. ACK1 and BRK non-receptor tyrosine kinase deficiencies are associated with familial systemic lupus and involved in efferocytosis

    This article has 25 authors:
    1. Stephanie Guillet
    2. Tomi Lazarov
    3. Natasha Jordan
    4. Bertrand Boisson
    5. Maria Tello
    6. Barbara Craddock
    7. Ting Zhou
    8. Chihiro Nishi
    9. Rohan Bareja
    10. Hairu Yang
    11. Frederic Rieux-Laucat
    12. Rosa Irene Fregel Lorenzo
    13. Sabrina D. Dyall
    14. David Isenberg
    15. David D’Cruz
    16. Nico Lachmann
    17. Olivier Elemento
    18. Agnes Viale
    19. Nicholas D. Socci
    20. Laurent Abel
    21. Shigekazu Nagata
    22. Morgan Huse
    23. W. Todd Miller
    24. Jean-Laurent Casanova
    25. Frederic Geissmann
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      The paper reports rare compound heterozygous deletion variants that affect the kinase domains of non-receptor tyrosine kinases TNK and ACK1 in families with human systemic lupus erythematosus (SLE). Using a mouse experimental model and human induced pluripotent stem cell (hiPSC)-derived macrophages, the study provides solid evidence that clarifies cause-effect relationships and that suggests a potential cellular mechanism underlying the resultant nephritis. With the identification of novel SLE-related genes, this manuscript provides an important basis for understanding the molecular and cellular basis of SLE pathogenesis.

    Reviewed by eLife

    This article has 3 evaluationsAppears in 2 listsLatest version Latest activity
  19. Defining cell type-specific immune responses in a mouse model of allergic contact dermatitis by single-cell transcriptomics

    This article has 14 authors:
    1. Youxi Liu
    2. Meimei Yin
    3. Xiaoting Mao
    4. Shuai Wu
    5. Shuangping Wei
    6. Shujun Heng
    7. Yichun Yang
    8. Jinwen Huang
    9. Zhuolin Guo
    10. Chuan Li
    11. Chao Ji
    12. Liu Hu
    13. Wenjie Liu
    14. Ling-juan Zhang
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This study on scRNA-seq of allergic contact dermatitis (ACD) is important in that it presents new data on fibroblasts in ACD and links to recent studies on other cell types and their signatures. The evidence presented is solid in that the data support claims of unique roles for subtypes of fibroblasts in ACD. Overall, this paper will be used as a resource by many in the skin inflammation field.

    Reviewed by eLife

    This article has 3 evaluationsAppears in 2 listsLatest version Latest activity
  20. 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 JHE 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

      This work is potentially useful because it has generated a mineable yield of new candidate immune inhibitory receptors, which can serve both as drug targets and as subjects for further biological investigation. It is noted however that the work is rather incomplete, in that it does little to validate the putative new receptors, and instead makes a study of their putative distribution across cell types. Experimental follow-up to demonstrate the claimed properties for the proteins identified, or mining existing experimental data sources on gene expression across tissues to at least show that the pipeline correctly identified genes likely to be specific to immune cells, would make this work more complete.

    Reviewed by eLife

    This article has 3 evaluationsAppears in 2 listsLatest version Latest activity