{"title":"Consistency Analysis of Programmed Death Ligand 1 Expression in Non–Small Cell Lung Cancer Between Pleural Effusion and Matched Primary Lung Cancer Tissues by Immunohistochemical Double Staining","authors":"Zihan Sun, Xiaoyue Xiao, Shuo Liang, Haiyue Ma, Yue Sun, Linlin Zhao, Cong Wang, Xinxiang Chang, Huan Zhao, Huiqin Guo, Zhihui Zhang","doi":"10.1016/j.labinv.2024.102058","DOIUrl":"10.1016/j.labinv.2024.102058","url":null,"abstract":"<div><p>In clinical practice, programmed death ligand 1 (PD-L1) detection is prone to nonspecific staining due to the complex cellular composition of pleural effusion smears. In this study, diaminobenzidine (DAB) and 3-amino-9-ethylcarbazole (AEC) immunohistochemistry double staining was performed to investigate PD-L1 expression in tumor cells from malignant pleural effusion (MPE). MPE was considered as a metastasis in non–small cell lung cancer patients; thus, the heterogeneity between metastatic and primary lung cancer was revealed as well. Ninety paired specimens of MPE cell blocks and matched primary lung cancer tissues from non–small cell lung cancer patients were subjected to PD-L1 and thyroid transcription factor-1(TTF-1)/p63 immunohistochemistry double staining. Two experienced pathologists independently evaluated PD-L1 expression using 3 cutoffs (1%, 10%, and 50%). PD-L1 expression in MPE was strongly correlated with that in matched primary lung cancer tissues (R = 0.813; <em>P</em> < .001). Using a 4-tier scale (cutoffs: 1%, 10%, and 50%), the concordance was 71.1% (Cohen’s κ = .534). Using a 2-tier scale, the concordance was 75.6% (1%, Cohen’s κ = 0.53), 78.9% (10%, Cohen’s κ = 0.574), and 95.6% (50%, Cohen’s κ = 0.754). The rates of PD-L1 positivity in MPE (56.7%) were higher than that in lung tissues (32.2%). All 27 discordant cases had higher scores in MPE. The double-staining method provided superior identification of PD-L1-positive tumor cells on a background with nonspecific staining. In conclusion, PD-L1 expression was moderately concordant between metastatic MPE cell blocks and matched primary lung carcinoma tissues, with variability related to tumor heterogeneity. MPE should be considered to detect PD-L1 when histological specimens are unattainable, especially when PD-L1 expression is >50%. PD-L1 positivity rates were higher in MPE. Double staining can improve PD-L1 detection by reducing false-negative/positive results.</p></div>","PeriodicalId":17930,"journal":{"name":"Laboratory Investigation","volume":"104 6","pages":"Article 102058"},"PeriodicalIF":5.0,"publicationDate":"2024-04-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140811772","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Richard M. Levenson , Yashbir Singh , Bastian Rieck , Quincy A. Hathaway , Colleen Farrelly , Jennifer Rozenblit , Prateek Prasanna , Bradley Erickson , Ashok Choudhary , Gunnar Carlsson , Deepa Sarkar
{"title":"Advancing Precision Medicine: Algebraic Topology and Differential Geometry in Radiology and Computational Pathology","authors":"Richard M. Levenson , Yashbir Singh , Bastian Rieck , Quincy A. Hathaway , Colleen Farrelly , Jennifer Rozenblit , Prateek Prasanna , Bradley Erickson , Ashok Choudhary , Gunnar Carlsson , Deepa Sarkar","doi":"10.1016/j.labinv.2024.102060","DOIUrl":"10.1016/j.labinv.2024.102060","url":null,"abstract":"<div><p>Precision medicine aims to provide personalized care based on individual patient characteristics, rather than guideline-directed therapies for groups of diseases or patient demographics. Images—both radiology- and pathology-derived—are a major source of information on presence, type, and status of disease. Exploring the mathematical relationship of pixels in medical imaging (“radiomics”) and cellular-scale structures in digital pathology slides (“pathomics”) offers powerful tools for extracting both qualitative and, increasingly, quantitative data. These analytical approaches, however, may be significantly enhanced by applying additional methods arising from fields of mathematics such as differential geometry and algebraic topology that remain underexplored in this context. Geometry’s strength lies in its ability to provide precise local measurements, such as curvature, that can be crucial for identifying abnormalities at multiple spatial levels. These measurements can augment the quantitative features extracted in conventional radiomics, leading to more nuanced diagnostics. By contrast, topology serves as a robust shape descriptor, capturing essential features such as connected components and holes. The field of topological data analysis was initially founded to explore the shape of data, with functional network connectivity in the brain being a prominent example. Increasingly, its tools are now being used to explore organizational patterns of physical structures in medical images and digitized pathology slides. By leveraging tools from both differential geometry and algebraic topology, researchers and clinicians may be able to obtain a more comprehensive, multi-layered understanding of medical images and contribute to precision medicine’s armamentarium.</p></div>","PeriodicalId":17930,"journal":{"name":"Laboratory Investigation","volume":"104 6","pages":"Article 102060"},"PeriodicalIF":5.0,"publicationDate":"2024-04-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0023683724017380/pdfft?md5=777f9e6f7a440e4327c19b8c8316b3f9&pid=1-s2.0-S0023683724017380-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140851503","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Rui Hou , Yadong Wang , Shiyao Cao , Xinrui Sun , Luo Jiang
{"title":"N6-Methyladenosine–Modified KREMEN2 Promotes Tumorigenesis and Malignant Progression of High-Grade Serous Ovarian Cancer","authors":"Rui Hou , Yadong Wang , Shiyao Cao , Xinrui Sun , Luo Jiang","doi":"10.1016/j.labinv.2024.102059","DOIUrl":"10.1016/j.labinv.2024.102059","url":null,"abstract":"<div><p>High-grade serous ovarian cancer (HGSOC) remains the most lethal female cancer by far. Herein, clinical HGSOC samples had higher N<sup>6</sup>-methyladenosine (m<sup>6</sup>A) modification than normal ovarian tissue, and its dysregulation had been reported to drive aberrant transcription and translation programs. However, Kringle-containing transmembrane protein 2 (KREMEN2) and its m<sup>6</sup>A modification have not been fully elucidated in HGSOC. In this study, the data from the high-throughput messenger RNA (mRNA) sequencing of clinical samples were processed using the weighted correlation network analysis and functional enrichment analysis. Results revealed that <em>KREMEN2</em> was a driver gene in the tumorigenesis of HGSOC and a potential target of m<sup>6</sup>A demethylase fat-mass and obesity-associated protein (FTO). KREMEN2 and FTO levels were upregulated and downregulated, respectively, and correlation analysis showed a significant negative correlation in HGSOC samples. Importantly, upregulated <em>KREMEN2</em> was remarkably associated with lymph node metastasis, distant metastasis, peritoneal metastasis, and high International Federation of Gynecology and Obstetrics stage (Ⅲ/Ⅳ), independent of the age of patients. KREMEN2 promoted the growth of HGSOC in vitro and in vivo, which was dependent on FTO. The methylated RNA immunoprecipitation qPCR and RNA immunoprecipitation assays were performed to verify the m<sup>6</sup>A level and sites of <em>KREMEN2</em>. FTO overexpression significantly decreased m<sup>6</sup>A modification in the 3′ and 5′ untranslated regions of <em>KREMEN2</em> mRNA and downregulated its expression. In addition, we found that FTO-mediated m<sup>6</sup>A modification of <em>KREMEN2</em> mRNA was recognized and stabilized by the m<sup>6</sup>A reader IGF2BP1 rather than by IGF2BP2 or IGF2BP3. This study highlights the m<sup>6</sup>A modification of KREMEN2 and extends the importance of RNA epigenetics in HGSOC.</p></div>","PeriodicalId":17930,"journal":{"name":"Laboratory Investigation","volume":"104 6","pages":"Article 102059"},"PeriodicalIF":5.0,"publicationDate":"2024-04-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140811757","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Daisuke Inoue , Hitomi Hoshino , Ya-Ying Chen , Makoto Yamamoto , Akiya Kogami , Mana Fukushima , Kay-Hooi Khoo , Tomoya O. Akama , Yoshio Yoshida , Motohiro Kobayashi
{"title":"Structural Elucidation and Prognostic Relevance of 297-11A-Sulfated Glycans in Ovarian Carcinoma","authors":"Daisuke Inoue , Hitomi Hoshino , Ya-Ying Chen , Makoto Yamamoto , Akiya Kogami , Mana Fukushima , Kay-Hooi Khoo , Tomoya O. Akama , Yoshio Yoshida , Motohiro Kobayashi","doi":"10.1016/j.labinv.2024.102057","DOIUrl":"https://doi.org/10.1016/j.labinv.2024.102057","url":null,"abstract":"<div><p>Ovarian carcinoma is usually diagnosed at an advanced stage with peritoneal dissemination and/or lymph node metastasis, and the prognosis for such advanced carcinoma is very poor. Therefore, new biomarkers to predict patient prognosis are needed. Miyamoto et al. previously showed that keratan sulfate (KS) detected by the 5D4 monoclonal antibody was expressed in ovarian carcinoma. However, the detailed structure of such KS was not determined, and the biological significance of this finding remained to be clarified. We previously generated the 297-11A monoclonal antibody, which recognizes galactose (Gal)-6-<em>O</em>-sulfated <em>N</em>-acetyllactosamine (LacNAc) located at the nonreducing terminus. Because the 297-11A epitope overlaps with that of 5D4, here we chose to use the 297-11A antibody as a tool to analyze KS and related structures. We conducted immunohistochemical analysis of 98 ovarian carcinoma cases with 297-11A antibody combined with a series of glycosidases and performed mass spectrometry analysis of the human serous ovarian carcinoma cell line OVCAR-3 to deduce the glycan structure of 297-11A-sulfated glycans. We also performed western blot analysis to assess a potential association of 297-11A-sulfated glycans with the mucin core protein mucin 16 (MUC16; also known as cancer antigen 125 (CA125)). Finally, we examined the relationship between 297-11A expression and patient prognosis. Consequently, 297-11A-sulfated glycans were primarily expressed in serous and endometrioid carcinomas and poorly expressed in mucinous and clear cell carcinomas. We reveal that structurally, 297-11A-sulfated glycans expressed in ovarian carcinoma are <em>O</em>-glycans carrying partially sialylated, Gal-6-<em>O</em>-sulfated LacNAc and that these glycans are likely displayed on MUC16 mucin core proteins. Of clinical importance is that expression of 297-11A-sulfated glycans correlated with shorter progression-free survival in patients. Thus, 297-11A-sulfated glycans may serve as a predictor of ovarian carcinoma recurrence.</p></div>","PeriodicalId":17930,"journal":{"name":"Laboratory Investigation","volume":"104 6","pages":"Article 102057"},"PeriodicalIF":5.0,"publicationDate":"2024-04-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140645245","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Alexander Kurz , Heimo Müller , Jakob N. Kather , Lucas Schneider , Tabea-C. Bucher , Titus J. Brinker
{"title":"3-Dimensional Reconstruction From Histopathological Sections: A Systematic Review","authors":"Alexander Kurz , Heimo Müller , Jakob N. Kather , Lucas Schneider , Tabea-C. Bucher , Titus J. Brinker","doi":"10.1016/j.labinv.2024.102049","DOIUrl":"10.1016/j.labinv.2024.102049","url":null,"abstract":"<div><p>Although pathological tissue analysis is typically performed on single 2-dimensional (2D) histologic reference slides, 3-dimensional (3D) reconstruction from a sequence of histologic sections could provide novel opportunities for spatial analysis of the extracted tissue. In this review, we analyze recent works published after 2018 and report information on the extracted tissue types, the section thickness, and the number of sections used for reconstruction. By analyzing the technological requirements for 3D reconstruction, we observe that software tools exist, both free and commercial, which include the functionality to perform 3D reconstruction from a sequence of histologic images. Through the analysis of the most recent works, we provide an overview of the workflows and tools that are currently used for 3D reconstruction from histologic sections and address points for future work, such as a missing common file format or computer-aided analysis of the reconstructed model.</p></div>","PeriodicalId":17930,"journal":{"name":"Laboratory Investigation","volume":"104 6","pages":"Article 102049"},"PeriodicalIF":5.0,"publicationDate":"2024-03-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0023683724017276/pdfft?md5=4529a38dc0d19a63556b676bbe3276a6&pid=1-s2.0-S0023683724017276-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140184813","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Hyang Joo Ryu , Chayeon Kim , Hyenguk Jang , Sun Il Kim , Sang Joon Shin , Kee Yang Chung , Carlos Torres-Cabala , Sang Kyum Kim
{"title":"Nuclear Localization of Yes-Associated Protein is Associated With Tumor Progression in Cutaneous Melanoma","authors":"Hyang Joo Ryu , Chayeon Kim , Hyenguk Jang , Sun Il Kim , Sang Joon Shin , Kee Yang Chung , Carlos Torres-Cabala , Sang Kyum Kim","doi":"10.1016/j.labinv.2024.102048","DOIUrl":"10.1016/j.labinv.2024.102048","url":null,"abstract":"<div><p>Yes-associated protein (YAP), an effector molecule of the Hippo signaling pathway, is expressed at high levels in cutaneous melanoma. However, the role of YAP in melanoma progression according to cellular localization is poorly understood. Tissues from 140 patients with invasive melanoma were evaluated by immunohistochemistry. Flow cytometry, western blotting, viability assays, wound healing assays, verteporfin treatment, and xenograft assays were conducted using melanoma cell lines B16F1 and B16F10 subjected to <em>Yap</em><sup><em>S127A</em></sup> transfection and <em>siYap</em> knockdown. Nuclear YAP localization was identified in 63 tumors (45.0%) and was more frequent than cytoplasmic YAP in acral lentiginous and nodular subtypes (<em>P</em> =.007). Compared with cytoplasmic YAP melanomas, melanomas with nuclear YAP had higher mitotic activity (<em>P</em> =.016), deeper invasion (<em>P</em> <.001), and more frequently metastasized to lymph nodes (<em>P</em> <.001) and distant organs (<em>P</em> <.001). Patients with nuclear YAP melanomas had poorer disease-free survival (<em>P</em> <.001) and overall survival (<em>P</em> <.001). Nuclear YAP was an independent risk factor for distant metastasis (hazard ratio: 3.206; 95% CI: 1.032-9.961; <em>P</em> =.044). Proliferative ability was decreased in <em>siYap</em>B16F1 (<em>P</em> <.001) and <em>siYap</em>B16F10 (<em>P</em> =.001) cells and increased in <em>Yap</em><sup><em>S127A</em></sup>B16F1 (<em>P</em> =.003) and <em>Yap</em><sup><em>S127A</em></sup>B16F10 (<em>P</em> =.002) cells. Cell cycle analysis demonstrated relative G1 retention in <em>siYap</em>B16F1 (<em>P</em> <.001) and <em>siYap</em>B16F10 (<em>P</em> <.001) cells and S retention in <em>Yap</em><sup><em>S127A</em></sup>B16F1 cells (<em>P</em> =.008). Wound healing assays showed that <em>Yap</em> knockdown inhibited cell invasion (<em>siYap</em>B16F1, <em>P</em> =.001; <em>siYap</em>B16F10, <em>P</em> <.001), whereas nuclear YAP promoted it (<em>Yap</em><sup><em>S127A</em></sup>B16F, <em>P</em> <.001; <em>Yap</em><sup><em>S127A</em></sup>B16F1, <em>P</em> =.017). Verteporfin, a direct YAP inhibitor, reduced cellular proliferation in B16F1 (<em>P</em> =.003) and B16F10 (<em>P</em> <.001) cells. Proliferative effects of nuclear YAP were confirmed in xenograft mice (<em>P</em> <.001). In conclusion, nuclear YAP in human melanomas showed subtype specificity and correlated with proliferative activity and proinvasiveness. It is expected that YAP becomes a useful prognostic marker, and its inhibition may be a potential therapy for melanoma patients.</p></div>","PeriodicalId":17930,"journal":{"name":"Laboratory Investigation","volume":"104 5","pages":"Article 102048"},"PeriodicalIF":5.0,"publicationDate":"2024-03-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0023683724017264/pdfft?md5=90703e8054d7649ad0dc9a9e88eb3d8a&pid=1-s2.0-S0023683724017264-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140136931","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Eugenia Awuah Boadi , Samuel Shin , Bok-Eum Choi , Khanh Ly , Christopher B. Raub , Bidhan C. Bandyopadhyay
{"title":"Sex-specific Stone-forming Phenotype in Mice During Hypercalciuria/Urine Alkalinization","authors":"Eugenia Awuah Boadi , Samuel Shin , Bok-Eum Choi , Khanh Ly , Christopher B. Raub , Bidhan C. Bandyopadhyay","doi":"10.1016/j.labinv.2024.102047","DOIUrl":"10.1016/j.labinv.2024.102047","url":null,"abstract":"<div><p>Sex differences in kidney stone formation are well known. Females generally have slightly acidic blood and higher urine pH when compared with males, which makes them more vulnerable to calcium stone formation, yet the mechanism is still unclear. We aimed to examine the role of sex in stone formation during hypercalciuria and urine alkalinization through acetazolamide and calcium gluconate supplementation, respectively, for 4 weeks in wild-type (WT) and moderately hypercalciuric [TRPC3 knockout [KO](−/−)] male and female mice. Our goal was to develop calcium phosphate (CaP) and CaP+ calcium oxalate mixed stones in our animal model to understand the underlying sex-based mechanism of calcium nephrolithiasis. Our results from the analyses of mice urine, serum, and kidney tissues show that female mice (WT and KO) produce more urinary CaP crystals, higher [Ca<sup>2+</sup>], and pH in urine compared to their male counterparts. We identified a sex-based relationship of stone-forming phenotypes (types of stones) in our mice model following urine alkalization/calcium supplementation, and our findings suggest that female mice are more susceptible to CaP stones under those conditions. Calcification and fibrotic and inflammatory markers were elevated in treated female mice compared with their male counterparts, and more so in TRPC3 KO mice compared with their WT counterparts. Together these findings contribute to a mechanistic understanding of sex-influenced CaP and mixed stone formation that can be used as a basis for determining the factors in sex-related clinical studies.</p></div>","PeriodicalId":17930,"journal":{"name":"Laboratory Investigation","volume":"104 5","pages":"Article 102047"},"PeriodicalIF":5.0,"publicationDate":"2024-03-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140059832","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"SIRT1: An Intermediator of Key Pathways Regulating Pulmonary Diseases","authors":"Yi-Zhu Jiang , Xin-Ran Huang , Jing Chang , Yong Zhou , Xiao-Ting Huang","doi":"10.1016/j.labinv.2024.102044","DOIUrl":"10.1016/j.labinv.2024.102044","url":null,"abstract":"<div><p>Silent information regulator type-1 (SIRT1), a nicotinamide adenine dinucleotide<sup>+</sup>-dependent deacetylase, is a member of the sirtuins family and has unique protein deacetylase activity. SIRT1 participates in physiological as well as pathophysiological processes by targeting a wide range of protein substrates and signalings. In this review, we described the latest progress of SIRT1 in pulmonary diseases. We have introduced the basic information and summarized the prominent role of SIRT1 in several lung diseases, such as acute lung injury, acute respiratory distress syndrome, chronic obstructive pulmonary disease, lung cancer, and aging-related diseases.</p></div>","PeriodicalId":17930,"journal":{"name":"Laboratory Investigation","volume":"104 5","pages":"Article 102044"},"PeriodicalIF":5.0,"publicationDate":"2024-03-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140059833","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}