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Lymphovascular Space Invasion in Endometrial Cancer: Does it Matter Where and How Much to Sample? A Macroscopic Study of 208 Hysterectomies 子宫内膜癌的淋巴血管腔浸润:在哪里取样和取样多少有关系吗?208例子宫切除术的宏观分析。
IF 5.5 1区 医学 Q1 PATHOLOGY Pub Date : 2025-09-11 DOI: 10.1016/j.modpat.2025.100885
Deniz Ates , Sevilay Karahan , Aleyna Oruç , Alp Usubutun
Lymphovascular space invasion (LVSI) is a key prognostic factor in endometrial cancer, guiding adjuvant treatment decisions. This retrospective study analyzed 208 hysterectomy specimens with confirmed LVSI to determine optimal sampling strategies for detecting substantial LVSI. Samples/blocks from tumor infiltration fronts were reviewed microscopically, and LVSI foci were counted per slide and summed across all slides. Cutoffs of ≥5, ≥4, and ≥3 LVSI foci were evaluated. Only the ≥5 threshold significantly correlated with lymph node metastasis (P = .038) compared with <5 LVSI. Both patients with ≥5 LVSI foci either on a single slide or those reaching this threshold by summing across slides were associated with nodal metastasis (P = .023). However, significantly worse overall survival was observed only in patients with ≥5 foci on a single slide, not in those reaching the threshold by summing across multiple slides (P < .001). Focal LVSI (<5 foci) showed no significant overall survival compared with substantial LVSI. Increased sampling from the tumor infiltration front improved LVSI detection rates (P < .001), but gains in detecting substantial LVSI plateaued after 7 samples/blocks. Higher LVSI levels were associated with deep LVSI and cervical/endocervical LVSI (P < .001). Deep LVSI was linked to reduced overall survival compared with superficial LVSI (P < .001), whereas cervical/endocervical LVSI showed no significant association with overall survival (P = .273). Tumor grade, deep LVSI, and cervical involvement predicted nodal metastasis, whereas the microcystic, elongated, and fragmented pattern did not. These findings support using a threshold of ≥5 LVSI foci on at least 1 slide—as opposed to summing across slides—as a marker of worse overall survival. For optimal evaluation, at least 7 tumor infiltration front samples/blocks should be taken, including deep myometrium and cervical/endocervical canal, to ensure adequate assessment and identify patients at higher risk of nodal spread.
淋巴血管腔浸润(LVSI)是子宫内膜癌的关键预后因素,指导辅助治疗决策。本回顾性研究分析了208例确诊LVSI的子宫切除术标本,以确定检测大量LVSI的最佳采样策略。在显微镜下检查肿瘤浸润前沿的样本/块,每张载玻片计算LVSI病灶,并在所有载玻片上求和。评估LVSI病灶≥5、≥4和≥3的截止点。只有≥5阈值与淋巴结转移有显著相关性(p = 0.038)
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引用次数: 0
DNA Methylation-Based Classification of Kidney Neoplasms 基于DNA甲基化的肾肿瘤分类。
IF 5.5 1区 医学 Q1 PATHOLOGY Pub Date : 2025-09-10 DOI: 10.1016/j.modpat.2025.100884
Antonios Papanicolau-Sengos , Omkar Singh , Kyung Park , Matija Snuderl , Maria Tretiakova , Maria Merino , Bradley Stohr , Jeff Simko , Fang-Ming Deng , Emily Chan , Jasper Wu , Jairo Barreto , Rohit Gupta , Brian Park , Rust Turakulov , Zied Abdullaev , David A. Solomon , Kenneth Aldape
Renal neoplasms are morphologically and molecularly heterogeneous, with their diagnosis often hindered by interobserver variability and overlapping microscopic features. A subset of cases is unclassifiable despite immunohistochemical, mutation, and cytogenetic-based diagnostic workup. Through examination of the genome-wide DNA methylation signatures of over 2000 renal neoplasms, we identified 23 coherent groups that correlate with known neoplasm types and identified novel clinically relevant subtypes of existing neoplasm types. We used machine learning models to develop and validate a classifier trained on DNA methylation profiles of 1284 samples. The classifier was tested on an external data set of 287 renal neoplasms with >90% concordance between expected neoplasm type and high-score DNA methylation-based classification. Discordance between the original histologic label and methylation class led to potential reclassification of some cases. This work demonstrates proof of principle for the feasibility of a DNA methylation classifier as a clinically useful tool to assist in the diagnosis of renal neoplasms.
肾肿瘤在形态学和分子上是不均匀的,其诊断常常受到观察者之间的差异和重叠的显微镜特征的阻碍。尽管免疫组织化学、突变和基于细胞遗传学的诊断检查,仍有一部分病例无法分类。通过检查超过2000个肾肿瘤的全基因组DNA甲基化特征,我们确定了23个与已知肿瘤类型相关的连贯组,并确定了现有肿瘤类型的新的临床相关亚型。我们使用机器学习模型开发并验证了在1284个样本的DNA甲基化谱上训练的分类器。该分类器在287例肾肿瘤的外部数据集上进行了测试,预期肿瘤类型与高分DNA甲基化分类之间的一致性为bbb90 %。原始组织学标记和甲基化分类之间的不一致导致一些病例可能被重新分类。这项工作证明了DNA甲基化分类器作为辅助肾脏肿瘤诊断的临床有用工具的可行性。
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引用次数: 0
PolyPath: Adapting a Large Multimodal Model for Multislide Pathology Report Generation polyypath:采用大型多模态模型生成多片病理报告。
IF 5.5 1区 医学 Q1 PATHOLOGY Pub Date : 2025-09-10 DOI: 10.1016/j.modpat.2025.100886
Faruk Ahmed, Lin Yang, Tiam Jaroensri, Andrew Sellergren, Yossi Matias, Avinatan Hassidim, Greg S. Corrado, Dale R. Webster, Shravya Shetty, Shruthi Prabhakara, Yun Liu, Daniel Golden, Ellery Wulczyn, David F. Steiner
The interpretation of histopathology cases underlies many important diagnostic and treatment decisions in medicine. Notably, this process typically requires pathologists to integrate and summarize findings across multiple slides per case. Existing vision-language capabilities in computational pathology have so far been largely limited to small regions of interest, larger regions at low magnification, or single whole-slide images (WSIs). This limits interpretation of findings that span multiple high-magnification regions across multiple WSIs. By making use of Gemini 1.5 Flash, a large multimodal model with a 1-million token context window, we demonstrate the ability to generate bottom-line diagnoses from up to 40,000 image patches of size 768 × 768 pixels from multiple WSIs at 10× magnification. This is the equivalent of up to 11 hours of video at 1 fps. Expert pathologist evaluations demonstrate that the generated report text is clinically accurate and equivalent to or preferred over the original reporting for 68% (95% CI, 60%-76%) of multislide examples with up to 5 slides. Although performance decreased for examples with ≥6 slides, this study demonstrates the promise of leveraging the long-context capabilities of modern large multimodal models for the uniquely challenging task of medical report generation where each case can contain thousands of image patches.
组织病理学病例的解释是医学中许多重要诊断和治疗决策的基础。值得注意的是,这个过程通常需要病理学家整合和总结每个病例的多张幻灯片的发现。到目前为止,计算病理学中现有的视觉语言能力很大程度上局限于感兴趣的小区域、低倍率下的大区域或单个整片图像(wsi)。这限制了对跨多个wsi的多个高倍区域的发现的解释。通过使用Gemini 1.5 Flash(一个具有100万个令牌上下文窗口的大型多模态模型(LMM)),我们展示了在10倍放大率下,从多个wsi中多达40,000个768 x 768像素的图像补丁生成底线诊断的能力。这相当于以每秒1帧的速度播放长达11小时的视频。专家病理学家评估表明,生成的报告文本在临床上是准确的,68% (95% CI:[60%, 76%])的多张幻灯片的例子相当于或优于原始报告。虽然对于6张或更多幻灯片的示例,性能会下降,但本研究表明,利用现代lmm的长上下文功能,可以完成具有独特挑战性的医疗报告生成任务,其中每个病例可能包含数千个图像补丁。
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引用次数: 0
Methylation Signatures Identify Two Distinct Clusters of Uterine Leiomyosarcoma With Unique Histologic and Clinical Behaviors 甲基化特征鉴定两个具有独特组织学和临床行为的子宫平滑肌肉瘤簇。
IF 5.5 1区 医学 Q1 PATHOLOGY Pub Date : 2025-09-04 DOI: 10.1016/j.modpat.2025.100883
Christopher Felicelli, Drew Duckett, Zachary Coty-Fattal, Yue Feng, Farres Obeidin, Borislav A. Alexiev, Lucas Santana dos Santos, Lawrence Jennings, Jian-Jun Wei
Uterine leiomyosarcoma (uLMS) is a rare and deadly gynecologic malignancy. uLMS is histologically heterogeneous and presents with a wide spectrum of tumor differentiation, with a broad range of genomic DNA instability, which can make the diagnosis and prognosis of uLMS challenging. Methylation has emerged as a useful molecular tool in tumor classification and diagnosis in certain neoplasms. We initiated this study to investigate the role of global methylation in the differential diagnosis of uLMS from its mimics in correlation with pathologic characteristics and clinical outcomes. In this study, we performed array-based global methylation profiling analysis in a total of 71 uLMS and compared the methylation signatures of uLMS with several other uterine mesenchymal tumors and soft tissue leiomyosarcoma. We found that uLMS demonstrated distinct methylation patterns differing from all other tumor types. Notably, methylation profiling defines 2 distinct subgroups of uLMS with differing copy number alterations, resulting in unique histologic and clinical behaviors, further emphasized by differences in methylation pathway analysis. This study is the first to report methylation profiling as a useful diagnostic tool in differentiating uLMS from mimics and defines 2 subtypes of uLMS based on methylation signatures.
子宫平滑肌肉瘤是一种罕见且致命的妇科恶性肿瘤。uLMS具有组织学异质性,肿瘤分化谱广,基因组DNA不稳定性大,这给uLMS的诊断和预后带来了挑战。甲基化在某些肿瘤的分类和诊断中已成为一种有用的分子工具。我们启动了这项研究,以探讨全局甲基化在uLMS及其模拟物的鉴别诊断中的作用,以及与病理特征和临床结果的关系。在这项研究中,我们对71例uLMS进行了基于阵列的全局甲基化分析(GMP),并将uLMS与其他几种子宫间充质肿瘤和软组织平滑肌肉瘤(stLMS)的甲基化特征进行了比较。我们发现uLMS表现出不同于所有其他肿瘤类型的独特甲基化模式。值得注意的是,甲基化谱定义了两个不同的uLMS亚群,它们具有不同的拷贝数改变,导致独特的组织学和临床行为,甲基化途径分析的差异进一步强调了这一点。这项研究首次报道了甲基化分析作为区分uLMS和模拟物的有用诊断工具,并根据甲基化特征定义了两种uLMS亚型。
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引用次数: 0
Epstein-Barr Virus–Associated Gastric Cancer: A Histopathologic Study With Comprehensive Molecular Profiling eb病毒相关胃癌:一项综合分子图谱的组织病理学研究
IF 5.5 1区 医学 Q1 PATHOLOGY Pub Date : 2025-09-04 DOI: 10.1016/j.modpat.2025.100881
Valentina Angerilli , Jessica Gasparello , Antonio Collesei , Carlotta Ceccon , Francesca Bergamo , Marianna Sabbadin , Paola Parente , Alessandro Vanoli , Monia Niero , Claudio Luchini , Roberta Gafà , Angelo Paolo Dei Tos , Federica Grillo , Luca Mastracci , Sara Lonardi , Matteo Fassan
A subset of gastric cancers (GCs) is linked to Epstein-Barr virus (EBV) infection. This study aims to characterize the histopathological and molecular features of EBV-associated GCs (EBVaGCs), focusing on predictive biomarkers and genomic and transcriptomic analysis. A total of 35 primary EBVaGCs were considered. The presence of EBV was confirmed with in situ hybridization. Immunohistochemical analyses for HER2, PD-L1, claudin 18.2, and mismatch repair proteins were performed. Genomic and transcriptomic profiles were assessed using AmoyDx Master Panel, which can identify single-nucleotide variants, InDels, and copy number variations on 571 hot genes, as well as microsatellite status, tumor molecular burden, and homologous recombination deficiency at the DNA level; however, at the RNA level, it identifies rearrangements/fusions in 45 genes and also quantifies the expression of 2396 cancer-related transcripts. The following histotypes were identified: carcinoma with lymphoid stroma (CLS; 69%), tubular (20%), and mixed (11%). Most cases were associated with atrophic gastritis (71%), and only 11% with dysplasia. The vast majority (94%) of EBVaGCs expressed EBV-encoded RNA in all tumor cells. Mismatch repair deficiency and HER2 overexpression were each observed in 6% of cases, whereas all tumors had a PD-L1-combined positive score ≥10. Sixty-six percent of cases showed moderate/strong claudin 18.2 expression in ≥75% of cancer cells. The most frequently altered genes were PIK3CA (41%) and ARID1A (17%). Transcriptomic analysis revealed substantial differential gene expression between EBVaGCs and EBV-negative controls, with upregulation of genes involved in antigen presentation, natural killer cell-mediated cytotoxicity, and cytokine-cytokine receptor interaction in EBVaGCs. Within EBVaGC, CLS showed higher expression of immune-related transcripts and higher PD-L1 expression than other histotypes. This study establishes EBVaGC as a distinct molecular class, with a distinctive profile of genomic alterations and expression of predictive biomarkers, and also with a unique immune microenvironment with enhanced cytotoxic activity. The findings highlight EBV’s role in early tumor development and EBVaG-CLS as a distinct subgroup within EBVaGC, characterized by unique morphologic features and a pronounced immune activation profile.
胃癌(GCs)的一个子集与eb病毒(EBV)感染有关。本研究旨在描述ebv相关GCs (EBVaGCs)的组织病理学和分子特征,重点关注预测性生物标志物和基因组学和转录组学分析。共考虑35例原发性ebvagc。通过原位杂交证实了EBV的存在。对HER2、PD-L1、Claudin 18.2 (CLDN18)和错配修复(MMR)蛋白进行免疫组化分析。使用AmoyDX Master面板评估基因组和转录组谱,该面板可以在DNA水平上识别571个热基因、微卫星状态、TMB和HRD上的SNV、InDels和CNV,而在RNA水平上,除了45个基因的重排/融合外,还可以量化2396个癌症相关转录物的表达。确定了以下组织类型:淋巴样间质癌(CLS; 69%),管状癌(20%)和混合型(11%)。大多数病例伴有萎缩性胃炎(71%),仅11%伴有不典型增生。绝大多数(94%)EBVaGCs在所有肿瘤细胞中表达EBER。6%的病例存在MMR缺陷和HER2过表达,所有肿瘤的PD-L1联合阳性评分均≥10。66%的病例在≥75%的癌细胞中显示中度/强烈的CLDN18表达。最常见的改变基因是PIK3CA(41%)和ARID1A(17%)。转录组学分析显示EBVaGCs与ebv阴性对照之间存在显著的基因表达差异,EBVaGCs中参与抗原呈递、自然杀伤细胞介导的细胞毒性和细胞因子-细胞因子受体相互作用的基因表达上调。在EBVaGC中,CLS中免疫相关转录物的表达和PD-L1的表达高于其他组织类型。本研究确定EBVaGC是一个独特的分子类别,具有独特的基因组改变和预测性生物标志物的表达,并且具有独特的免疫微环境,具有增强的细胞毒性活性。这些发现强调了EBV在早期肿瘤发展中的作用,以及EBVaGC - cls作为EBVaGC中一个独特的亚群,具有独特的形态特征和明显的免疫激活谱。
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引用次数: 0
Deep Learning-Assisted System Improves Practical Effects in Cervical Cytopathology Diagnosis: A Comparative Study of Reading Modes 深度学习辅助系统提高宫颈细胞病理学诊断的实际效果:阅读模式的比较研究。
IF 5.5 1区 医学 Q1 PATHOLOGY Pub Date : 2025-09-04 DOI: 10.1016/j.modpat.2025.100882
Zichen Ye , Peiyu Zhang , Ronggan Wei , Haiyan Niu , Hongxia Li , Mingjuan Wang , Sara Lu Riggs , Peng Xue
Deep learning (DL) has significantly improved the diagnostic accuracy and efficiency of cytopathologists. However, current DL-assisted reading modes have yet to be fully evaluated, and there is limited evidence regarding cytopathologists’ preferences and experiences. This study employs a randomized, controlled, 4-way crossover design to assess the effectiveness of 4 distinct cytopatholog reading modes. This study included retrospectively collected 1620 cervical slides between 2021 and 2022. These slides were read by 108 certified cytopathologists with varying expertise using the 4 reading modes: unassisted, concurrent, second, and triage mode. A questionnaire survey was conducted to gather the cytopathologists’ adoption of each mode, including mode score and their confidence and preferences. Compared with unassisted, all DL-assisted modes improved the cytopathologists’ diagnostic performance. The unassisted mode had a sensitivity of 66.2% and a specificity of 72.5%. The second, concurrent, and triage modes all improved on these metrics: sensitivity increased by 20.2%, 17.3%, and 16.7%, respectively, whereas specificity increased by 13.2%, 10.8%, and 22.3%, respectively. The median reading time per slide was prolonged in second mode from 200 to 235 seconds but substantially reduced to 130 seconds in triage mode, and 53 seconds in concurrent mode (P < .0001 for all). Moreover, the questionnaire survey showed that >90% of cytopathologists agreed that the DL-assisted mode was useful in improving diagnostic confidence, and they preferred the concurrent mode, whereas the triage mode achieved the highest performance in the mode score. The second mode stands out for its heightened sensitivity, the triage mode boasts superior specificity, and the concurrent mode leads in efficiency when assisting cytopathologists. These findings provide useful information for choosing appropriate DL-assisted modes in cytopathological practice.
深度学习(DL)显著提高了细胞病理学家的诊断准确性和效率。然而,目前的dl辅助阅读模式尚未得到充分的评估,并且关于细胞病理学家的偏好和经验的证据有限。本研究采用随机、对照、四向交叉设计来评估四种不同阅读模式在宫颈细胞病理学阅读中的有效性。该研究回顾性收集了2021年至2022年期间的1620份宫颈玻片。这些幻灯片由108名具有不同专业知识的认证细胞病理学家阅读,使用四种阅读模式:无辅助,并发,第二和分诊模式。通过问卷调查收集细胞病理学家对每种模式的采用情况,包括模式得分和他们的信心和偏好。与无辅助相比,所有dl辅助模式都提高了细胞病理学家的诊断性能。无辅助模式的敏感性为66.2%,特异性为72.5%。第二种、并发和分诊模式在这些指标上都有所改善:敏感性分别提高了20.2%、17.3%和16.7%,特异性分别提高了13.2%、10.8%和22.3%。在第二模式下,每张幻灯片的平均阅读时间从200秒延长到235秒,但在分诊模式下大幅减少到130秒,在并发模式下减少到53秒(P
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引用次数: 0
Digital Spatial Profiling Demonstrates Differences Between Fibrosarcomatous Transformation of Dermatofibrosarcoma Protuberans and Its Conventional Counterparts 数字空间分析显示纤维肉瘤转化的皮肤纤维肉瘤隆突和它的传统同行之间的差异。
IF 5.5 1区 医学 Q1 PATHOLOGY Pub Date : 2025-09-01 DOI: 10.1016/j.modpat.2025.100879
Nicholas Frazzette , Suvrajit Maji , Nada Mohamed , Austin Jones , Ata S. Moshiri , Robert W. Ricciotti , Shreeram Akilesh , Jose G. Mantilla
Dermatofibrosarcoma protuberans (DFSP) is a neoplasm of the dermis with a tendency for aggressive local growth and recurrence. A minority of DFSP cases may transform into higher-grade sarcoma (fibrosarcomatous transformation [FST]) (DFSP-FST), which is associated with more aggressive behavior and risk of metastasis. The histologic diagnosis of DFSP-FST may be challenging, particularly in small biopsies. Currently, there are no specific markers to reliably support the diagnosis of DFSP-FST. We identified 33 DFSP from 32 patients, including 9 patients with FST and 1 distant metastasis. Tissue microarrays (TMAs) were created using representative areas of all cases, including DFSP-FST, conventional regions from DFSP-FST, and pure conventional DFSP. Digital spatial profiling of the entire transcriptome was performed on the TMAs using the Nanostring GeoMx platform. Expression data were queried to identify differentially expressed genes specific to the regions of transformation in DFSP. Immunohistochemistry for PReferentially expressed Antigen in MElanoma (PRAME) was subsequently performed using a clinically validated protocol. Digital spatial profiling demonstrated significant gene expression differences between DFSP-FST and conventional DFSP. Genes that were overexpressed in DFSP-FST include PRAME, CTAG1B, and MMP11. Immunohistochemical analysis for PRAME showed positive expression in 7 of 10 DFSP-FST (70%) and 1 of 23 conventional DFSP (4%) (P < .0001). Gene expression profiling shows significant upregulation of PRAME and CTAG1B in DFSP-FST compared with conventional DFSP, a finding that was validated by immunohistochemistry for PRAME. Therefore, immunohistochemistry for PRAME may be useful to support the diagnosis of FST, especially in small biopsies. Increased expression of CTAG1B (NY-ESO-1) in DFSP-FST may also offer future therapeutic potential.
隆突性皮肤纤维肉瘤(DFSP)是一种真皮肿瘤,具有侵袭性局部生长和复发的倾向。少数DFSP病例可转化为更高级别的肉瘤(纤维肉瘤转化,FST-DFSP),这与更具侵袭性的行为和转移风险相关。FST-DFSP的组织学诊断可能具有挑战性,特别是在小活检中。目前,还没有特异性的标志物来可靠地支持FST-DFSP的诊断。我们从32例患者中发现33例DFSP,包括9例FST和1例远处转移。使用所有病例的代表性区域创建组织微阵列,包括DFSP- fst, FST-DFSP的常规区域和纯常规DFSP。利用Nanostring GeoMx平台在组织微阵列上对整个转录组进行数字空间分析。查询表达数据,以确定DFSP中特异性转化区域的差异表达基因。随后使用临床验证的方案对PRAME进行免疫组化。数字空间分析显示FST-DFSP与传统DFSP之间存在显著的基因表达差异。FST-DFSP中过表达的基因包括PRAME、CTAG1B和MMP11。免疫组化分析显示PRAME在7/10 (70%)FST-DFSP和1/23(4%)常规DFSP中呈阳性表达(p
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引用次数: 0
Cover 封面
IF 5.5 1区 医学 Q1 PATHOLOGY Pub Date : 2025-09-01 DOI: 10.1016/S0893-3952(25)00168-1
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引用次数: 0
Cross-Platform Methylation-Based Site of Origin Classification for Squamous Cell Carcinomas 基于跨平台甲基化的鳞状细胞癌起源位点分类。
IF 5.5 1区 医学 Q1 PATHOLOGY Pub Date : 2025-09-01 DOI: 10.1016/j.modpat.2025.100878
Allen W. Zhang , Vahid Akbari , Andrew Galbraith , Zoe Kore , YuQi Li , Samuel Leung , Jennifer X. Ji , Kristy Dever , Julie MacIsaac , Hilary Brewis , Diane Pan , Cornelius Kürten , Andrew Ajisebutu , Alberto Contreras-Sanz , Alireza Moeen , Jeffrey A. Zuccato , Vikas Patil , Peter C. Black , Wan Lam , Erin Pleasance , Julia R. Naso
Squamous cell carcinomas (SCCs) are one of the most common cancer types and can arise at nearly any anatomic site. Because SCCs are one of the most common metastases, do not have reliable site-specific morphologic or genomic features, and have considerable morphologic and immunohistochemical overlap with urothelial carcinomas, distinguishing between primary and metastatic squamous-appearing tumors can be challenging. This distinction can be critical to clinical management. We present Squamous cell carcinoma Methylation for Origin Site (SquaMOS), a methylation-based classifier to predict site of origin of squamous-appearing carcinomas. Trained on publicly available array-based methylation data from 1062 primary SCCs (from lung, head and neck, cervix, and esophagus) and urothelial carcinomas, SquaMOS predicted site of origin in primary tumors with 96.1% accuracy in an internal test set (n = 458) and 97.4% accuracy in an external test set from 3 institutions (n = 78). On metastatic tumors (n = 51), SquaMOS predictions were 96.1% accurate. SquaMOS was directly applicable to shallow Nanopore sequencing data (CpG probe site coverage, 0.25-2.88×) with an accuracy of 91.7% (n = 36; 100% accurate for high-confidence predictions). When tested on SCCs outside the training set types (n = 15, including 3 metastases to lung), no cases were misclassified as of lung origin, supporting accuracy of lung vs nonlung origin classification for diverse SCC types. Overall, we demonstrate highly accurate performance of the SquaMOS classifier on primary and metastatic tumors from multiple data sources, robust to suboptimal tumor purity. We illustrate transferability of our array-based classifier to low-depth Nanopore sequencing data, a potentially rapid means of site of origin determination in a clinical setting.
鳞状细胞癌(SCCs)是最常见的癌症类型之一,几乎可以在任何解剖部位发生。由于SCCs是最常见的转移瘤之一,没有可靠的部位特异性形态学或基因组特征,并且与尿路上皮癌有相当大的形态学和免疫组织化学重叠,因此区分原发性和转移性鳞状肿瘤可能具有挑战性。这种区别对临床管理至关重要。我们提出SquaMOS(鳞状细胞癌起源位点甲基化),这是一种基于甲基化的分类器,用于预测鳞状癌的起源位点。SquaMOS对来自1062例原发性SCCs(来自肺、头颈、宫颈和食道)和尿路上皮癌的公开阵列甲基化数据进行了训练,在内部测试集(n=458)和外部测试集(n=78)中,SquaMOS预测原发性肿瘤的起源位置的准确性分别为96.1%和97.4%。对于转移性肿瘤(n=51), SquaMOS预测准确率为96.1%。SquaMOS直接适用于浅孔测序数据(CpG探针位点覆盖率为0.25-2.88X),准确率为91.7% (n=36;高置信度预测准确率为100%)。当对训练集类型以外的SCC进行测试时(n=15,包括3例肺转移),没有病例被错误地分类为肺源性,这支持了肺与非肺源性SCC类型分类的准确性。总体而言,我们从多个数据源证明了SquaMOS分类器在原发性和转移性肿瘤上的高度准确性能,对次优肿瘤纯度具有很强的稳健性。我们说明了我们的基于阵列的分类器对低深度纳米孔测序数据的可转移性,这是一种在临床环境中潜在的快速起源位点测定方法。
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引用次数: 0
HNF1A-inactived Hepatocellular Adenomas in Fibropolycystic Kidney and Liver Disease Are Associated With Germline HNF1B Variant 纤维多囊肾和肝脏疾病中hnf1a失活肝细胞腺瘤与种系HNF1B变异相关
IF 5.5 1区 医学 Q1 PATHOLOGY Pub Date : 2025-09-01 DOI: 10.1016/j.modpat.2025.100880
Catherine E. Hagen , Dipti M. Karamchandani , Luisa Ricaurte , Nagaswaroop Nagaraj , Vivekananda Sarangi , Christopher P. Hartley , Chirag Patel , Marcela Salomao , Rish Pai , Rondell P. Graham
HNF1A-inactivated hepatocellular adenomas are rarely described in patients with hepatorenal fibrocystic disease, and their genetic relationship remains unexplored. This study reports a series of HNF1A-inactivated hepatocellular adenomas with molecular sequencing analysis in patients with fibrocystic kidney and/or liver disease. Cases were retrospectively identified from the pathology archives of 3 institutions. Clinical history was collected from chart review, and hematoxylin-and-eosin–stained slides along with relevant immunohistochemistry were reviewed for liver specimens. Next-generation sequencing was performed on paired lesional hepatocellular adenoma and nonneoplastic tissue. The study group comprised 8 patients (median age, 25 years; male:female, 1:7). Six patients had evidence of congenital hepatic fibrosis, 1 had polycystic liver disease with multiple cysts and bile duct hamartomas, and 1 had an uninvolved background liver but with polycystic kidney disease. Histologic examination revealed that all hepatocellular adenomas showed circumscribed, well-differentiated hepatocellular proliferation with unpaired arterioles and loss of liver fatty acid–binding protein staining via immunohistochemistry. Three patients were found to have novel HNF1B germline variants (c.1430A>C). Our data reveal a new syndromic association for HNF1A-inactivated hepatocellular adenomas. We hypothesize that aberrant interactions between HNF1A and HNF1B may contribute to the pathogenesis of hepatocellular adenomas in these patients. Further studies are necessary to discover additional germline variants that may result in a similar phenotype.
hnf1a失活肝细胞腺瘤在肝肾纤维囊性疾病患者中很少被描述,其遗传关系仍未被探索。本研究报道了一系列hnf1a失活的肝细胞腺瘤,并对纤维囊性肾和/或肝脏疾病患者进行了分子测序分析。病例回顾性地从三家机构的病理档案中确定。从图表中收集临床病史,并对肝脏标本进行H&E染色切片及相关免疫组织化学检查。对病变肝细胞腺瘤和非肿瘤组织进行新一代测序。研究组包括8例患者(中位年龄25岁,男女比例1:7)。6例患者有先天性肝纤维化的证据,1例患有多囊性肝病伴多发囊肿和胆管错构瘤,1例有未受累的背景肝脏但患有多囊性肾病。组织学检查显示,所有肝细胞腺瘤均表现为界限分明、分化良好的肝细胞增生,伴不配对的小动脉,免疫组织化学显示LFABP染色缺失。3例患者被发现有新的HNF1B种系变异(C . 1430a >C)。我们的数据揭示了hnf1a失活肝细胞腺瘤的一种新的综合征相关性。我们假设HNF1A和HNF1B之间的异常相互作用可能有助于这些患者肝细胞腺瘤的发病机制。需要进一步的研究来发现可能导致类似表型的其他种系变异。
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引用次数: 0
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Modern Pathology
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