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  1. Hierarchical encoding of natural sounds mixtures in ferret auditory cortex

    This article has 3 authors:
    1. Agnès Landemard
    2. Célian Bimbard
    3. Yves Boubenec
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This paper presents valuable findings on the processing of sound mixtures in the auditory cortex of ferrets, a species widely used for studies of auditory processing. Using the convenient and relatively high-resolution method of functional ultrasound imaging, the authors provide solid evidence that background noise invariance emerges across the auditory cortical processing hierarchy. However, differences between this and other methods limit the comparisons that can be made across different species, and additional controls are needed to fully substantiate the paper's claims. This work will nonetheless be of interest to researchers studying the auditory cortex and the neural mechanisms underlying auditory scene analysis and hearing in noise.

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    This article has 5 evaluationsAppears in 1 listLatest version Latest activity
  2. Single-Cell Atlas of AML Reveals Age-Related Gene Regulatory Networks in t(8;21) AML

    This article has 5 authors:
    1. Jessica Whittle
    2. Stefan Meyer
    3. Georges Lacaud
    4. Syed Murtuza Baker
    5. Mudassar Iqbal
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This manuscript provides a single-cell transcriptomic atlas for AML (222 samples comprising 748,679 cells) integrating data from multiple studies. They use this dataset to investigate t(8;21) AML, and they reconstruct the Gene Regulatory Network and enhancer Gene Regulatory Network, which allowed identification of interesting targets. This aggregation is useful and can help infer differences in genetic regulatory modules based on the age of disease onset, which may help explain age-related variations in prognosis and disease development. However, result interpretations and the motivation and critical analysis of the applied computational methods are incomplete, and the statistical analyses lack control experiments and should be improved to avoid potential selection bias in the later analyses.

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    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  3. Gain neuromodulation mediates task-relevant perceptual switches: evidence from pupillometry, fMRI, and RNN Modelling

    This article has 10 authors:
    1. Gabriel Wainstein
    2. Christopher J Whyte
    3. Kaylena A Ehgoetz Martens
    4. Eli J Müller
    5. Vicente Medel
    6. Britt Anderson
    7. Elisabeth Stöttinger
    8. James Danckert
    9. Brandon R Munn
    10. James M Shine
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    • Curated by eLife

      eLife Assessment

      This valuable paper explores the idea that transient modulations of neural gain promote switches between distinct perceptual interpretations of ambiguous stimuli. The authors provide solid evidence for this idea by pupillometry (an indirect proxy of neuromodulatory activity), fMRI, neural network modeling, and dynamical systems analyses. The highly integrative nature of this approach is rare in the field.

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    This article has 12 evaluationsAppears in 1 listLatest version Latest activity
  4. TopBP1 biomolecular condensates: a new therapeutic target in advanced-stage colorectal cancer

    This article has 16 authors:
    1. Laura Morano
    2. Nadia Vezzio-Vié
    3. Adam Aissanou
    4. Tom Egger
    5. Antoine Aze
    6. Solène Fiachetti
    7. Benoît Bordignon
    8. Cédric Hassen-Khodja
    9. Hervé Seitz
    10. Louis-Antoine Milazzo
    11. Véronique Garambois
    12. Laurent Chaloin
    13. Nathalie Bonnefoy
    14. Céline Gongora
    15. Angelos Constantinou
    16. Jihane Basbous
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This valuable study demonstrates that the GSK-3 inhibitor AZD2858 inhibits the formation of TOPBP1 condensates and hence DNA damage responses in colorectal cancer cells. The evidence supporting the claims of the authors is convincing, although uncovering how this drug blocks bio-condensate formation would have strengthened the study. The work will be of interest to cancer researchers searching for synergistic drug combination strategies.

      [Editors' note: this paper was reviewed by Review Commons.]

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    This article has 5 evaluationsAppears in 1 listLatest version Latest activity
  5. Nuclear and cytosolic J-domain proteins provide synergistic control of Hsf1 at distinct phases of the heat shock response

    This article has 12 authors:
    1. Carmen Ruger-Herreros
    2. Lucia Svoboda
    3. Gurranna Male
    4. Aseem Shrivastava
    5. Markus Höpfler
    6. Katharina Jetzinger
    7. Jiri Koubek
    8. Günter Kramer
    9. Fabian den Brave
    10. Axel Mogk
    11. David S Gross
    12. Bernd Bukau
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    • Curated by eLife

      eLife Assessment

      This valuable study focuses on defining how the HSP70 chaperone system utilizes J-domain proteins to regulate the heat shock response-associated transcription factor HSF1. Using a combination of orthogonal techniques in yeast, this manuscript provides compelling evidence that the J-domain protein Apj1 facilitates attenuation of HSF1 transcriptional activity through a mechanism involving its dissociation from heat shock gene promoter regions. This work improves our understanding of HSF1 regulation and will be of broad interest to cell biologists interested in proteostasis, chaperone networks, and stress-responsive signaling.

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    This article has 5 evaluationsAppears in 1 listLatest version Latest activity
  6. A theory of brain-computer interface learning via low-dimensional control

    This article has 9 authors:
    1. Jorge A Menéndez
    2. Jay A Hennig
    3. Matthew D Golub
    4. Emily R Oby
    5. Patrick T Sadtler
    6. Aaron P Batista
    7. Steven M Chase
    8. Byron M Yu
    9. Peter E Latham
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This valuable study proposes a network implementation of the "re-aiming" learning strategy, which has been hypothesized to underlie brain-computer interface learning. Combining theoretical arguments, numerical simulations, and analysis of experimental data, the authors provide convincing evidence for their hypothesis. This paper will likely be of broad interest to the systems neuroscience community.

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    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  7. Cross-species insemination reveals mouse sperm ability to enter and cross the fish micropyle

    This article has 9 authors:
    1. Suma Garibova
    2. Eva Stickler
    3. Fatima Al Ali
    4. Maha A Abdulla
    5. Abbirami Sathappan
    6. Sahar Da’as
    7. Lilian Ghanem
    8. Rick Portman
    9. Matteo A Avella
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This valuable study reports the conservation of sperm-egg envelope binding by demonstrating successful recognition of the micropyle in fish eggs by the mouse sperm. However, the evidence supporting the conclusions drawn remains incomplete. In particular, the proposed specific role of CatSper in micropyle recognition and passage is not fully demonstrated. This study will be of interest to reproductive biologists and clinicians studying the biology of fertilization and fertility.

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    This article has 3 evaluationsAppears in 1 listLatest version Latest activity
  8. Transcriptional coregulation in cis around a contact insulation site revealed by single-molecule microscopy

    This article has 7 authors:
    1. Maciej A Kerlin
    2. Ilham Aboulfath-Ladid
    3. Julia Roensch
    4. Chloé Jaubert
    5. Aude Battistella
    6. Kyra JE Borgman
    7. Antoine Coulon
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This important study combines an innovative experimental approach with mathematical modeling to demonstrate that genes separated by strong topological boundaries can exhibit coordinated transcriptional bursting, providing new insights into how regulatory information is transmitted across the genome. The evidence is solid within the studied locus, but the interpretation and generality of the findings would be strengthened by additional validation using simulated data and broader application beyond a single genomic region. This work will be of interest to cell biologists and biophysicists working on transcription and chromatin.

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    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  9. Single-cell profiling of the lung immune cells of diabetes-tuberculosis comorbidity reveals reduced type-II interferon and elevated Th17 responses

    This article has 9 authors:
    1. Shweta Chaudhary
    2. Mothe Sravya
    3. Falak Pahwa
    4. Sureshkumar V
    5. Prateek Singh
    6. Shivam Chaturvedi
    7. Debasisa Mohanty
    8. Debasis Dash
    9. Ranjan Kumar Nanda
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This study presents a valuable finding on the intersection between tuberculosis and diabetes and the impact on immune responses, notably T cell and myeloid cell responses. The single-cell data collected and analyzed are convincing and provide a rich dataset to develop a more detailed understanding of cellular responses during Mtb infection of diabetic mice. Some of the mechanistic claims are incomplete, as there are no experiments performed to clearly define a role for IL-16 or IL-17 in disease. Inclusion of analysis of human samples would have strengthened the conclusions in the paper for translational impact, as well as the inclusion of a DM group alone in addition to DM-TB vs TB in some of the experiments.

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    This article has 3 evaluationsAppears in 1 listLatest version Latest activity
  10. Integrated transcriptomic analysis of human induced pluripotent stem cell-derived osteogenic differentiation reveals a regulatory role of KLF16

    This article has 18 authors:
    1. Ying Ru
    2. Meng Ma
    3. Xianxiao Zhou
    4. Divya Kriti
    5. Ninette Cohen
    6. Sunita D’Souza
    7. Christoph Schaniel
    8. Susan M. Motch Perrine
    9. Sharon Kuo
    10. Oksana Pichurin
    11. Dalila Pinto
    12. Genevieve Housman
    13. Greg Holmes
    14. Eric Schadt
    15. Harm van Bakel
    16. Bin Zhang
    17. Ethylin Wang Jabs
    18. Meng Wu
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      The authors investigated KLF Transcription Factor 16 (KLF16) as an inhibitor of osteogenic differentiation, which plays a critical role in bone development, metabolism and repair. The results of the study are valuable as they could help to facilitate future research on the regulation of osteogenesis in vitro and in vivo. However, the evidence overall is incomplete, as validation by knockout mouse models would help to strengthen the conclusions.

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    This article has 3 evaluationsAppears in 1 listLatest version Latest activity
  11. Shining light on the dark matter of pertussis: evidence for an asymptomatic carriage state from a longitudinal cohort of mother/infant dyads

    This article has 3 authors:
    1. Christian E Gunning
    2. Christopher J Gill
    3. Pejman Rohani
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This important study provides evidence for asymptomatic Bordetella pertussis carriage among mothers in a longitudinal cohort in Zambia, significantly advancing understanding of transmission dynamics. The evidence presented is convincing, with strengths including routine sampling irrespective of symptoms and rigorous qPCR methodology, although confirmatory diagnostics would further strengthen the claims. Overall, the study represents an influential contribution to the field of infectious disease epidemiology.

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    This article has 3 evaluationsAppears in 1 listLatest version Latest activity
  12. Patchy Striatonigral Neurons Modulate Locomotor Vigor in Response to Environmental Valence

    This article has 9 authors:
    1. Sarah Hawes
    2. Bo Liang
    3. Braden Oldham
    4. Breanna T Sullivan
    5. Lupeng Wang
    6. Bin Song
    7. Lisa Chang
    8. Da-Ting Lin
    9. Huaibin Cai
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      The manuscript by Hawes et al. provides important findings on how striatal projection neurons regulate spontaneous locomotion speed in the context of implicit motivation and distinct contextual valence. Overall, the evidence for the findings is solid, although evidence for the claim that striatonigral projections from the matrix and patches have functionally opposing roles is incomplete. This work will be of broad interest to neuroscientists in the basal ganglia, movement control, and cognition fields.

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    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  13. Modular DNA Barcoding of Nanobodies Enables Multiplexed in situ Protein Imaging and High-throughput Biomolecule Detection

    This article has 6 authors:
    1. Shilin Zhong
    2. Ruiyu Wang
    3. Xinwei Gao
    4. Qingchun Guo
    5. Rui Lin
    6. Minmin Luo
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This study presents an important practical modification of the orthogonal hybridization chain reaction (HCR) technique, a promising yet underutilized method with broad potential for future applications across various fields. The authors advance this technique by integrating peptide ligation technology and nanobody-based antibody mimetics - cost-effective and scalable alternatives to conventional antibodies - into a DNA-immunoassay framework, which convincingly merges oligonucleotide-based detection with immunoassay methodologies.

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    This article has 3 evaluationsAppears in 1 listLatest version Latest activity
  14. Fitness drivers of division of labor in vertebrates

    This article has 2 authors:
    1. Irene García-Ruiz
    2. Dustin Rubenstein
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This valuable work formulates an individual-based model to understand the evolution of division of labor in vertebrates, in particular, to examine the role of indirect versus direct fitness benefits. The evidence supporting the main conclusions is incomplete at this stage, with key details of simulation assumptions not adequately described and exploration of alternative assumptions and parameter space lacking.

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    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  15. Five-Year Survival Outcomes for Breast Cancer Patients Across Continental Africa: A Contemporary Review of Literature with Meta Analysis

    This article has 9 authors:
    1. Augustina Badu-Peprah
    2. Ernest Kissi Kontor
    3. Adu-Gyamfi Benjamin
    4. Jessica Kumah
    5. Akosua Aya Essuman
    6. Bossoh Selorm
    7. Issahak Nurudeen
    8. Bismark Osei Owusu
    9. Nityanand Jain
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This study presents a valuable meta-analysis that highlights low and highly variable breast cancer survival rates across Africa, emphasizing the pressing need for public health in Africa. The evidence supporting the claims of the authors is solid, although a clarification of the crude 5-year survival rates would have strengthened the study. The work will be of interest to scientists working in the field of public health and breast cancer.

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    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  16. Causal associations between plasma proteins and prostate cancer: a Proteome-Wide Mendelian Randomization

    This article has 7 authors:
    1. Chen Lin
    2. Rong Zhuona
    3. Gu Yanlun
    4. Chen Yuke
    5. Yu Wei
    6. Zhou Ying
    7. Pang Xiaocong
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This study presents a valuable meta-analysis of two independent genome-wide association studies (GWASs) elucidating the role of plasma proteins as biomarkers for improving early detection of prostate cancer (PCa). The evidence supporting novel protein biomarkers of PCa risk is solid, although exploration of how these markers may also be shared with other prostate diseases would have strengthened the study. The work will be of interest to the field for elucidating novel variants of prostate cancer risk.

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    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  17. MorphoNet 2.0: An innovative approach for qualitative assessment and segmentation curation of large-scale 3D time-lapse imaging datasets

    This article has 7 authors:
    1. Benjamin Gallean
    2. Tao Laurent
    3. Kilian Biasuz
    4. Ange Clement
    5. Noura Faraj
    6. Patrick Lemaire
    7. Emmanuel Faure
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This work presents an important technical advancement with the release of MorphoNet 2.0, a user-friendly, standalone platform for 3D+T segmentation and analysis in biological imaging. The authors provide convincing evidence of the tool's capabilities through illustrative use cases, though broader validation against current state-of-the-art tools would strengthen its position. The software's accessibility and versatility make it a resource that will be of value for the bioimaging community, particularly in specialized subfields.

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    This article has 5 evaluationsAppears in 1 listLatest version Latest activity
  18. Multiphase separation in postsynaptic density regulated by membrane geometry via interaction valency and volume

    This article has 3 authors:
    1. Risa Yamada
    2. Giovanni B Brandani
    3. Shoji Takada
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This valuable study provides a conceptual advance in our understanding of how membrane geometry modulates the balance between specific and non-specific molecular interactions, reversing multiphase morphologies in postsynaptic protein assemblies. Using a mesoscale simulation framework grounded in experimental binding affinities, the authors successfully recapitulate key experimental observations in both solution and membrane-associated systems, providing novel mechanistic insight into how spatial constraints regulate postsynaptic condensate organization. While the evidence supporting the conclusions is largely solid, a few aspects of the analysis and model proposed remain incomplete.

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    This article has 5 evaluationsAppears in 1 listLatest version Latest activity
  19. Chronic stress impairs autoinhibition in neurons of the locus coeruleus to increase asparagine endopeptidase activity

    This article has 7 authors:
    1. Hiroki Toyoda
    2. Doyun Kim
    3. Byeong Geon Koh
    4. Tomomi Sano
    5. Takashi Kanematsu
    6. Seog Bae Oh
    7. Youngnam Kang
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      This fundamental study explores a novel cellular mechanism underlying the degeneration of locus coeruleus neurons during chronic restraint stress. The evidence supporting the overexpression of LC neurons after chronic stress is compelling. However, to fully support the broad implications for LC degeneration and Alzheimer's disease, the study would benefit from stronger causal integration and validation in age-relevant models.

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    This article has 5 evaluationsAppears in 1 listLatest version Latest activity
  20. Making plant tissue accessible for cryo-electron tomography

    This article has 19 authors:
    1. Matthias Pöge
    2. Marcel Dickmanns
    3. Peng Xu
    4. Meijing Li
    5. Oda H Schiøtz
    6. Christoph OJ Kaiser
    7. Jianfei Ma
    8. Anna Bieber
    9. Cristina Capitanio
    10. Johann Brenner
    11. Margot Riggi
    12. Sven Klumpe
    13. Manuel Miras
    14. Neda S Kazemein Jasemi
    15. Waltraud X Schulze
    16. Rüdiger Simon
    17. Wolf B Frommer
    18. Jürgen M Plitzko
    19. Wolfgang Baumeister
    This article has been curated by 1 group:
    • Curated by eLife

      eLife Assessment

      Thick multicellular plant samples provide unique challenges when it comes to cryo-preservation, which has resulted in limited successful examples for structural studies using in situ cryo-electron tomography. To address this deficiency, this important study describes procedures for high-pressure-freezing, focused ion-beam milling, and cryo-electron tomography imaging of certain plant types. The results described in the paper provide solid evidence for the usefulness of the methods described, although some reservations remain about the applicability of the methods to a wider range of plant cell types.

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    This article has 4 evaluationsAppears in 1 listLatest version Latest activity