npj Imaging最新文献

Automated smartphone based cell analysis platform. 基于智能手机的自动细胞分析平台。

npj Imaging Pub Date : 2025-10-22 DOI: 10.1038/s44303-025-00093-z

Meryem Beyza Avci, Fatma Kurul, Mehmet Turkan, Arif E Cetin

引用次数: 0

Confounder-aware foundation modeling for accurate phenotype profiling in cell imaging. 在细胞成像中精确表型分析的混杂意识基础建模。

npj Imaging Pub Date : 2025-10-22 DOI: 10.1038/s44303-025-00116-9

Giorgos Papanastasiou, Pedro P Sanchez, Argyrios Christodoulidis, Guang Yang, Walter Hugo Lopez Pinaya

{"title":"Confounder-aware foundation modeling for accurate phenotype profiling in cell imaging.","authors":"Giorgos Papanastasiou, Pedro P Sanchez, Argyrios Christodoulidis, Guang Yang, Walter Hugo Lopez Pinaya","doi":"10.1038/s44303-025-00116-9","DOIUrl":"https://doi.org/10.1038/s44303-025-00116-9","url":null,"abstract":"Image-based profiling is rapidly transforming drug discovery, offering unprecedented insights into cellular responses. However, experimental variability hinders accurate identification of mechanisms of action (MoA) and compound targets. Existing methods commonly fail to generalize to novel compounds, limiting their utility in exploring uncharted chemical space. To address this, we present a confounder-aware foundation model integrating a causal mechanism within a latent diffusion model, enabling the generation of balanced synthetic datasets for robust biological effect estimation. Trained on over 13 million Cell Painting images and 107 thousand compounds, our model learns robust cellular phenotype representations, mitigating confounder impact. We achieve state-of-the-art MoA and target prediction for both seen (0.66 and 0.65 ROC-AUC) and unseen compounds (0.65 and 0.73 ROC-AUC), significantly surpassing real and batch-corrected data. This innovative framework advances drug discovery by delivering robust biological effect estimations for novel compounds, potentially accelerating hit expansion. Our model establishes a scalable and adaptable foundation for cell imaging, holding the potential to become a cornerstone in data-driven drug discovery.","PeriodicalId":501709,"journal":{"name":"npj Imaging","volume":"3 1","pages":"52"},"PeriodicalIF":0.0,"publicationDate":"2025-10-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145351084","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Author Correction: The chicken chorioallantoic membrane as a low-cost, high-throughput model for cancer imaging. 作者更正：鸡绒毛膜尿囊膜是一种低成本、高通量的癌症成像模型。

npj Imaging Pub Date : 2025-10-18 DOI: 10.1038/s44303-025-00118-7

Lydia M Smith, Hannah E Greenwood, Will E Tyrrell, Richard S Edwards, Vittorio de Santis, Friedrich Baark, George Firth, Muhammet Tanc, Samantha Y A Terry, Anne Herrmann, Richard Southworth, Timothy H Witney

引用次数: 0

Phosphatidylserine exposure and plasma membrane perforation as ferroptotic signatures for in vivo imaging. 磷脂酰丝氨酸暴露和质膜穿孔作为体内成像的铁下垂特征。

npj Imaging Pub Date : 2025-10-06 DOI: 10.1038/s44303-025-00110-1

Ali Yasin Sonay, Elana Apfelbaum, Benedict Edward Mc Larney, Jan Grimm

引用次数: 0

Author Correction: Aldehydic load as an objective imaging biomarker of mild traumatic brain injury. 作者更正：醛负荷作为轻度创伤性脑损伤的客观成像生物标志物。

npj Imaging Pub Date : 2025-10-06 DOI: 10.1038/s44303-025-00114-x

Alexia Kirby, Cian Ward, Clara S Goulet, Nicholas D Calvert, Ryan Daniel, Joseph Wai-Hin Leung, Ashwin Sharma, Mojmír Suchý, Cassandra Donatelli, Jing Wang, Emily Standen, Adam J Shuhendler

引用次数: 0

Enhanced maximum intensity projection (eMIP) for improving the fidelity of optoacoustic images. 用于提高光声图像保真度的增强最大强度投影（eMIP）。

npj Imaging Pub Date : 2025-10-06 DOI: 10.1038/s44303-025-00112-z

Manuel Gehmeyr, María Begoña Rojas López, Suhanyaa Nitkunanantharajah, Hubert Preißl, Andreas Vosseler, Reiner Jumpertz von Schwartzenberg, Andreas L Birkenfeld, Nikoletta Katsouli, Nikolina-Alexia Fasoula, Angelos Karlas, Michael Kallmayer, Anette-Gabriele Ziegler, Dominik Jüstel, Vasilis Ntziachristos

{"title":"Enhanced maximum intensity projection (eMIP) for improving the fidelity of optoacoustic images.","authors":"Manuel Gehmeyr, María Begoña Rojas López, Suhanyaa Nitkunanantharajah, Hubert Preißl, Andreas Vosseler, Reiner Jumpertz von Schwartzenberg, Andreas L Birkenfeld, Nikoletta Katsouli, Nikolina-Alexia Fasoula, Angelos Karlas, Michael Kallmayer, Anette-Gabriele Ziegler, Dominik Jüstel, Vasilis Ntziachristos","doi":"10.1038/s44303-025-00112-z","DOIUrl":"10.1038/s44303-025-00112-z","url":null,"abstract":"Three-dimensional (3D) image reconstructions are often rendered as two-dimensional images, using maximum intensity projections (MIPs). However, MIP's rendering fidelity depends on the alignment of the individual slices along the projection direction. Also, the presence of noise and artifacts affects the contrast and the projected image elements. We introduce enhanced MIP (eMIP), a methodology that aligns the boundaries (e.g., skin boundary) of adjacent slices of the 3D volume onto the same coordinate system assumed by MIP (e.g., same depth) and applies robust contrast adjustment to normalize the intensities of the projected slices. We benchmark eMIP on 1725 clinical scans of human skin, using raster-scan optoacoustic mesoscopy (RSOM) that were assessed by 8 experts. Our results show that eMIP facilitates interpretability compared to conventional MIP and increases consistently the perceived image quality. The improved diagnostic ability of eMIP has the potential to replace MIP in RSOM and similar modalities.","PeriodicalId":501709,"journal":{"name":"npj Imaging","volume":"3 1","pages":"49"},"PeriodicalIF":0.0,"publicationDate":"2025-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12501383/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145240686","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Super-resolution imaging with nanopipettes. 纳米吸管的超分辨率成像。

npj Imaging Pub Date : 2025-09-22 DOI: 10.1038/s44303-025-00108-9

Steffan Møller Sønderskov, Lasse Hyldgaard Klausen, Sebastian Amland Skaanvik, Xiaojun Han, Mingdong Dong

{"title":"Super-resolution imaging with nanopipettes.","authors":"Steffan Møller Sønderskov, Lasse Hyldgaard Klausen, Sebastian Amland Skaanvik, Xiaojun Han, Mingdong Dong","doi":"10.1038/s44303-025-00108-9","DOIUrl":"10.1038/s44303-025-00108-9","url":null,"abstract":"Uncovering structural information of biological systems at the nanoscale is vital for understanding their dynamics and function. Nanoscale imaging techniques that obtain structural information down to the single-molecule level under physiologically relevant conditions and without affecting the fragile structure of biomaterials are limited. Thus, the realization of such techniques is highly attractive, especially within the biological sciences. Nanopipette-based imaging using scanning ion conductance microscopy (SICM) fulfills these requirements, but resolution limitations and artefact formation hinder obtaining accurate structural information on the scale comparable to the pipette tip. Here, we present a novel technique, super-resolution SICM (SR-SICM), based on image deconvolution using simulated pipette point-spread functions. The technique is demonstrated on different types of nanostructures, where it surpasses the lateral resolution limit of SICM and mitigates imaging artefacts considerably. SR-SICM is applicable to any SICM dataset through user-friendly downloadable software promoting the possibility of single-molecule studies on a routine basis.","PeriodicalId":501709,"journal":{"name":"npj Imaging","volume":"3 1","pages":"46"},"PeriodicalIF":0.0,"publicationDate":"2025-09-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12454638/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145126681","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Radiomics in preclinical imaging research: methods, challenges and opportunities. 放射组学在临床前影像学研究中的应用：方法、挑战和机遇。

npj Imaging Pub Date : 2025-09-22 DOI: 10.1038/s44303-025-00104-z

Vlora Riberdy, Alessandro Guida, James Rioux, Kimberly Brewer

引用次数: 0

Enigmatic tubular ultrastructure in the bacterial defensive symbiont of the Asian citrus psyllid Diaphorina citri. 亚洲柑橘木虱细菌防御共生体的谜管状超微结构。

npj Imaging Pub Date : 2025-09-18 DOI: 10.1038/s44303-025-00107-w

Chihong Song, Junnosuke Maruyama, Kazuyoshi Murata, Toshinobu Suzaki, Atsushi Nakabachi

{"title":"Enigmatic tubular ultrastructure in the bacterial defensive symbiont of the Asian citrus psyllid Diaphorina citri.","authors":"Chihong Song, Junnosuke Maruyama, Kazuyoshi Murata, Toshinobu Suzaki, Atsushi Nakabachi","doi":"10.1038/s44303-025-00107-w","DOIUrl":"10.1038/s44303-025-00107-w","url":null,"abstract":"Candidatus Profftella armatura (Betaproteobacteria) is an organelle-like defensive symbiont inhabiting the symbiotic organ of a devastating citrus pest, the Asian citrus psyllid Diaphorina citri. Previous two-dimensional electron microscopy hinted at unprecedented ultrastructures in Profftella, but their precise architecture and composition were unknown. Here, using serial block-face scanning electron microscopy, high-voltage electron tomography, and fluorescence in situ hybridization, we show that elongated Profftella cells (2.8-136 μm observed) contain multiple tubes (1-43 per cell) up to 45 μm long. These tubes, occupying ~6.3% of the cell volume, are composed of five or six fibers twisted into a right-handed helix with a consistent diameter of ~230 nm. Their stability under high vacuum suggests a mechanical support role in elongated Profftella. Close association with ribosomes implies a possible role in protein synthesis. Our findings provide insight into the structural adaptations of intracellular symbionts and may inform strategies for controlling citrus pests.","PeriodicalId":501709,"journal":{"name":"npj Imaging","volume":"3 1","pages":"44"},"PeriodicalIF":0.0,"publicationDate":"2025-09-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12446461/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145088738","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Fungal infections in focus: accelerating non-invasive imaging from preclinical insights to clinical breakthroughs. 聚焦真菌感染：加速非侵入性成像从临床前洞察到临床突破。

npj Imaging Pub Date : 2025-09-16 DOI: 10.1038/s44303-025-00105-y

Lauren Michiels, Mahrukh Shameem, Eliane Vanhoffelen, Agustin Reséndiz-Sharpe, Simon A Johnston, Nicolas Beziere, Greetje Vande Velde

引用次数: 0