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Journals Laboratory Investigation; a Jo...

Laboratory Investigation; a Journal of Technical Methods and Pathology

https://read.qxmd.com/read/38626875/advancing-precision-medicine-algebraic-topology-and-differential-geometry-in-radiology-and-computational-pathology
#1
REVIEW
Richard M Levenson, Yashbir Singh, Bastian Rieck, Quincy A Hathaway, Colleen Farrelly, Jennifer Rozenblit, Prateek Prasanna, Bradley Erickson, Ashok Choudhary, Gunnar Carlsson, Deepa Deepa
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...
April 14, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38626874/consistency-analysis-of-pd-l1-expression-in-nsclc-between-pleural-effusion-and-matched-primary-lung-cancer-tissues-by-immunohistochemical-double-staining
#2
JOURNAL ARTICLE
Zihan Sun, Xiaoyue Xiao, Shuo Liang, Haiyue Ma, Yue Sun, Linlin Zhao, Cong Wang, Xinxiang Chang, Huan Zhao, Huiqin Guo, Zhihui Zhang
In clinical practice, PD-L1 detection is prone to nonspecific staining due to the complex cellular composition of pleural effusion smears. In this study, DAB and AEC immunohistochemistry (IHC) 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 (NSCLC) patients, thus, the heterogeneity between metastatic and primary lung cancer was revealed as well. Ninety paired specimens of MPE cell blocks (CBs) and matched primary lung cancer tissues from NSCLC patients were subjected to PD-L1 and TTF-1/p63 IHC double staining...
April 14, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38615731/n-6-methyadenosine-modified-kremen2-promotes-tumorigenesis-and-malignant-progression-of-high-grade-serous-ovarian-cancer
#3
JOURNAL ARTICLE
Rui Hou, Yadong Wang, Shiyao Cao, Xinrui Sun, Luo Jiang
High-grade serous ovarian cancer (HGSOC) remains the most lethal female cancer by far. Herein, clinical HGSOC samples had higher N6 -methyladenosine (m6 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 m6 A modification have not been fully elucidated in HGSOC. In this study, the data from the high-throughput mRNA sequencing (RNA-seq) of clinical samples were processed using the weighted correlation network analysis (WGCNA) and functional enrichment analysis...
April 12, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38582455/structural-elucidation-and-prognostic-relevance-of-297-11a-sulfated-glycans-in-ovarian-carcinoma
#4
JOURNAL ARTICLE
Daisuke Inoue, Hitomi Hoshino, Ya-Ying Chen, Makoto Yamamoto, Akiya Kogami, Mana Fukushima, Kay-Hooi Khoo, Tomoya O Akama, Yoshio Yoshida, Motohiro Kobayashi
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...
April 4, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38513977/3-dimensional-reconstruction-from-histopathological-sections-a-systematic-review
#5
REVIEW
Alexander Kurz, Heimo Müller, Jakob N Kather, Lucas Schneider, Tabea-C Bucher, Titus J Brinker
While pathological tissue analysis is typically performed on single 2-dimensional (2D) histological reference slides, 3-dimensional (3D) reconstruction from a sequence of histological 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, that include the functionality to perform 3D reconstruction from a sequence of histological images...
March 19, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38490470/nuclear-localization-of-yes-associated-protein-is-associated-with-tumor-progression-in-cutaneous-melanoma
#6
JOURNAL ARTICLE
Hyang Joo Ryu, Chayeon Kim, Hyenguk Jang, Sun Il Kim, Sang Joon Shin, Kee Yang Chung, Carlos Torres-Cabala, Sang Kyum Kim
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 YapS127A transfection and siYap knockdown...
March 14, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38452903/sirt1-an-intermediator-of-key-pathways-regulating-pulmonary-diseases
#7
REVIEW
Yi-Zhu Jiang, Xin-Ran Huang, Jing Chang, Yong Zhou, Xiao-Ting Huang
Silent information regulator type-1 (SIRT1), a nicotinamide adenine dinucleotide+ (NAD+ )-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 describe the latest progress of SIRT1 in pulmonary diseases. We introduce the basic information and summarize 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...
March 5, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38452902/sex-specific-stone-forming-phenotype-in-mice-during-hypercalciuria-urine-alkalinization
#8
JOURNAL ARTICLE
Eugenia Awuah Boadi, Samuel Shin, Bok-Eum Choi, Khanh Ly, Christopher B Raub, Bidhan C Bandyopadhyay
Gender disparities in kidney stone formation are well-known. Women generally have slightly acidic blood and higher urine pH when compared with men, 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 (Acz) and calcium gluconate (CaG) supplementation, respectively, for 4 weeks in wild-type (WT) and hypercalciuric [TRPC3 KO (-/-)] male and female mice...
March 5, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38431118/advancing-ai-integration-into-the-pathology-workflow-exploring-opportunities-in-gastrointestinal-tract-biopsies
#9
REVIEW
Fazilet Yilmaz, Arlen Brickman, Fedaa Najdawi, Evgeny Yakirevich, Robert Egger, Murray B Resnick
This review aims to present a comprehensive overview of the current landscape of AI applications in the analysis of tubular GI biopsies. These publications cover a spectrum of conditions, ranging from inflammatory ailments to malignancies. Moving beyond the conventional diagnosis based on H&E stained whole-slide images (WSI), the review explores additional implications of AI, including its involvement in interpreting IHC results, molecular subtyping, and the identification of cellular spatial biomarkers...
February 29, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38431117/expression-of-sox4-significantly-predicts-the-risk-of-lymph-node-metastasis-for-patients-with-early-stage-esophageal-squamous-cell-carcinoma
#10
JOURNAL ARTICLE
Yifei Zhang, Yanbo Liu, Linfeng Wu, Tianyin Chen, Heng Jiao, Yuanyuan Ruan, Pinghong Zhou, Yiqun Zhang
Esophageal squamous cell cancer (ESCC) stands as a notably aggressive malignancy within the digestive system. In cases of early esophageal cancer without lymph node metastasis, endoscopic surgical resection offers a viable alternative, often resulting in improved patient quality of life. However, the paucity of methods to preoperatively ascertain lymph node involvement complicates surgical planning. SOX4 gene was previously found to be highly associated with invasive metastasis in our work through scRNA-sequencing on 5 paired tumor/peritumor tissues...
February 29, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38431116/pathogenic-roles-for-rnaset2-in-clear-cell-renal-cell-carcinoma
#11
JOURNAL ARTICLE
Taylor Peak, Yijun Tian, Aman Patel, Tim Shaw, Alyssa Obermayer, Jose Laborde, Youngchul Kim, Joseph Johnson, Paul Stewart, Bin Fang, Jamie K Teer, John Koomen, Anders Berglund, Doug Marchion, Natasha Francis, Paola Ramos Echevarria, Jasreman Dhillon, Noel Clark, Andrew Chang, Wade Sexton, Logan Zemp, Jad Chahoud, Liang Wang, Brandon Manley
A specific splicing isoform of RNASET2 is associated with worse oncologic outcomes in clear cell renal cell carcinoma (ccRCC). However, the interplay between wild type RNASET2 and its splice variant and how this might contribute to the pathogenesis of ccRCC remains poorly understood. We sought to better understand the relationship of RNASET2 in the pathogenesis of ccRCC and the interplay with a pathogenic splicing isoform (RNASET2-SV) and the tumor immune microenvironment. Using data from The Cancer Genome Atlas (TCGA) and Clinical Proteomic Tumor Analysis Consortium (CPTAC), we correlated clinical variables to RNASET2 expression and the presence of a specific RNASET2-SV...
February 29, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38408704/proteomic-profiles-of-human-arterioles-isolated-from-fresh-adipose-tissue-or-following-overnight-storage
#12
JOURNAL ARTICLE
Rajan Pandey, Michelle L Roberts, Jingli Wang, Michaela Pereckas, David Jensen, Andrew S Greene, Michael E Widlansky, Mingyu Liang
Arterioles are key determinants of the total peripheral vascular resistance, which, in turn, is a key determinant of arterial blood pressure (BP). However, the amount of protein available from one isolated human arteriole may be less than 5μg, making proteomic analysis challenging. In addition, obtaining human arterioles requires manual dissection of unfrozen clinical specimens. This limits its feasibility, especially for powerful multi-center clinical studies in which clinical specimens need to be shipped overnight to a research lab for arteriole isolation...
February 24, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38382808/indolent-t-nk-cell-lymphomas-lymphoproliferative-disorders-of-the-gastrointestinal-tract-what-have-we-learned-in-the-last-decade
#13
REVIEW
Xin-Gen Wang, Wei-Hua Yin, Huan-You Wang
Primary gastrointestinal (GI) T- and NK- cell lymphomas / lymphoproliferative disorders (LPD) are uncommon and they are usually aggressive in nature. However, T- and NK-cell lymphoma / LPD of the GI tract with indolent clinical course have been reported over the past two decades. Indolent T-cell LPD was formally proposed a decade ago in 2013, and 4 years later recognized as a provisional entity by the revised 4th Edition of WHO Classification of Tumors of Haematopoietic and Lymphoid Tissue in 2017. Indolent T-cell LPD of the GI tract has been changed to indolent T-cell lymphoma of the GI tract (ITCL-GI) as a distinct entity by the 5th edition of WHO Haematolymphoid Tumors, but the International Consensus Classification (ICC) of mature lymphoid neoplasms prefers indolent clonal T-cell LPD of the GI tract instead...
February 19, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38311062/mediation-of-ferroptosis-suppressor-protein-1-expression-via-4-hydroxy-2-nonenal-accumulation-contributes-to-acquisition-of-resistance-to-apoptosis-and-ferroptosis-in-diffuse-large-b-cell-lymphoma
#14
JOURNAL ARTICLE
Genji Kawade, Morito Kurata, Yuko Matsuki, Sho Fukuda, Iichiroh Onishi, Yuko Kinowaki, Shiori Watabe, Sachiko Ishibashi, Masumi Ikeda, Masahide Yamamoto, Kenichi Ohashi, Masanobu Kitagawa, Kouhei Yamamoto
Diffuse large B-cell lymphoma (DLBCL) is the most common non-Hodgkin lymphoma. New therapeutic strategies are needed for the treatment of refractory DLBCL. 4-Hydroxy-2-nonenal (4-HNE) is a cytotoxic lipid peroxidation marker, which alters intracellular signaling and induces genetic mutations. Lipid peroxidation is associated with nonapoptotic cell death, called ferroptosis. However, the relationship between 4-HNE accumulation and feroptotic regulators in DLBCL has not been fully evaluated. Here, we aimed to evaluate the accumulation of lipid peroxide and the expression of ferroptosis suppressor protein 1 (FSP1) in DLBCL using immunohistochemistry...
February 3, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38307209/pi3k%C3%AE-mediates-fibrosis-by-patient-derived-vitreous
#15
JOURNAL ARTICLE
Dan Liu, Bin Yan, Yiwei Yin, Fang Chen, Cao Guo, Qin Li, Jia Liu, Li Pu, Wenyi Wu, Jing Luo
The epithelial-mesenchymal transition (EMT) is a fundamental process in developing fibrotic diseases, including forming epiretinal membranes (ERMs). ERMs can result in irreversible vision loss. Previous research has demonstrated that vitreous derived from patients with proliferative diabetic retinopathy can stimulate angiogenesis through the Axl/PI3K/Akt pathway. Building upon this knowledge, we aimed to explore the influence of vitreous from patients with macular membranes in ARPE-19 cells. Our findings reveal that patient-derived vitreous from individuals with macular membranes promotes EMT and PI3K δ expression in ARPE-19 cells...
January 31, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38290601/influence-of-growth-differentiation-factor-15-on-intraocular-pressure-in-mice
#16
JOURNAL ARTICLE
Rupalatha Maddala, Camelia Eldawy, Leona T Y Ho, Pratap Challa, Ponugoti Vasantha Rao
Growth differentiation factor-15 (GDF15), a stress sensitive cytokine, and a distant member of the TGF-β superfamily, has been shown to exhibit increased levels with aging, and in various age-related pathologies. Although GDF15 levels are elevated in the aqueous humor (AH) of glaucoma (optic nerve atrophy) patients, the possible role of this cytokine in modulation of intraocular pressure (IOP) or AH outflow is unknown. The current study addresses this question using transgenic mice expressing human GDF15 and GDF15 null mice, and by perfusing enucleated mouse eyes with recombinant human GDF15...
January 28, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38280634/reliability-and-variability-of-ki-67-digital-image-analysis-methods-for-clinical-diagnostics-in-breast-cancer
#17
JOURNAL ARTICLE
Melanie Dawe, Wei Shi, Tian Yu Liu, Katherine Lajkosz, Yukiko Shibahara, Nakita E K Gopal, Rokshana Geread, Seyed Mirjahanmardi, Carrie X Wei, Sehrish Butt, Moustafa Abdalla, Sabrina Manolescu, Sheng-Ben Liang, Dianne Chadwick, Michael H A Roehrl, Trevor D McKee, Adewunmi Adeoye, David McCready, April Khademi, Fei-Fei Liu, Anthony Fyles, Susan J Done
Ki-67 is a nuclear protein associated with proliferation, and a strong potential biomarker in breast cancer, but is not routinely measured in current clinical management due to a lack of standardization. Digital image analysis (DIA) is a promising technology that could allow high throughput analysis and standardization. There is a dearth of data on the clinical reliability as well as intra- and inter-algorithmic variability of different DIA methods. In this study, we scored and compared a set of breast cancer cases in which manually counted Ki-67 has already been demonstrated to have prognostic value (n=278) to five DIA methods; namely, Aperio ePathology, Definiens Tissue Studio, Qupath, an unsupervised IHC color histogram (IHCCH) algorithm and a deep learning pipeline piNET...
January 25, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38266922/bile-acid-receptor-agonist-reverses-tgf-%C3%AE-1-mediated-fibrogenesis-in-human-induced-pluripotent-stem-cells-ipsc-derived-kidney-organoids
#18
JOURNAL ARTICLE
Xiaoping Yang, Marco Delsante, Parnaz Daneshpajouhnejad, Paride Fenaroli, Kira Perzel Mandell, Xiaoxin Wang, Shogo Takahashi, Marc K Halushka, Jeffrey B Kopp, Moshe Levi, Avi Z Rosenberg
Chronic kidney disease (CKD) progresses through the replacement of functional tissue compartments with fibrosis, a maladaptive repair process. Shifting kidney repair towards a physiologically intact architecture, rather than fibrosis, is key to blocking CKD progression. Much research into the mechanisms of fibrosis is performed in rodent models with less attention to the human genetic context. Recently, human induced pluripotent stem cell (iPSC)-derived organoids have shown promise in overcoming the limitation...
January 22, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38266921/gasdermin-d-mediated-pyroptosis-promotes-the-development-of-atherosclerosis
#19
JOURNAL ARTICLE
Bangbang Huang, Zhenhuan Zou, Yinshuang Li, Hui Chen, Kunmei Lai, Ying Yuan, Yanfang Xu
Atherosclerosis is a chronic inflammatory cardiovascular disease with a high morbidity and mortality rate. An increasing number of studies have addressed the crucial contribution of Gasdermin D (GSDMD)-mediated pyroptosis, which is triggered by the inflammasomes to the development of atherosclerosis. However, the underlying mechanism is still unclear. This study aimed to uncover the detailed role of GSDMD in the development of atherosclerosis. An atherosclerotic model was established in Gsdmd-/- /Ldlr-/- mice and Gsdmd+/+ /Ldlr-/- mice fed with a high-fat diet...
January 22, 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://read.qxmd.com/read/38092180/diagnostic-utility-of-next-generation-sequencing-in-circulating-free-dna-and-a-comparison-with-matched-tissue-in-gallbladder-carcinoma
#20
JOURNAL ARTICLE
Sridhar Mishra, Pallavi Srivastava, Anshuman Pandey, Saumya Shukla, Akash Agarwal, Nuzhat Husain
Mutation detection for therapy monitoring in cell-free DNA (cfDNA) is used clinically for some malignancies. Gallbladder carcinoma (GBC) presents a diagnostic challenge and has limited late-stage treatment options. To our knowledge, this novel study examines, for the first time, genomic alterations in cfDNA from GBC to assess diagnostic accuracy and therapeutic options. The concordance of somatic genomic changes in cfDNA and DNA from paired tumor tissue was analyzed. Paired serum and tissue samples from 40 histologically proven GBC, 20 cholecystitis, and 4 normal (noninflamed gallbladder) controls were included...
February 2024: Laboratory Investigation; a Journal of Technical Methods and Pathology
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