Article
Genetics & Heredity
Chen Huang, Chuqi Lei, Boyu Pan, Senbiao Fang, Yubao Chen, Wenfeng Cao, Liren Liu
Summary: MCM2/4/10 were significantly highly expressed in both LUAD and LUSC, and MCM2/4/6/7/8 expression levels were associated with advanced tumor stages. High expression levels of MCM1/2/3/4/5/6/7/8/10 were linked to worse OS, while high expression of MCM9 was associated with better OS in NSCLC patients. These results suggest that MCM2 and MCM4 may serve as potential prospective biomarkers for high-risk subgroups of NSCLC patients.
FRONTIERS IN GENETICS
(2021)
Review
Biotechnology & Applied Microbiology
Sameer Quazi
Summary: Cancer is the deadliest disease worldwide, claiming many lives each year. Early detection is crucial for the survival of cancer patients, and diagnosing cancer biomarkers at the cellular level is critical for this purpose. Biosensors have been invented as cost-effective and efficient devices for this task, providing a potential tool for early detection, disease monitoring, and cancer treatment.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2023)
Article
Biochemical Research Methods
Xiaoping Dong, Yujie Yan, Ping Chen, Chun Zhang, Li Ren, Yude Wang, Junting Wang, Yong Zeng, Shaojun Liu
Summary: This study explored the molecular basis of distant hybridization and individual differences between allotetraploids and their parents through quantitative proteomics profiling. Species and tissue specific analyses revealed a large number of causal proteins specifically regulated in gonad or liver tissues in allotetraploid and its parents. Integrative bioinformatics analyses identified key proteins involved in reproduction-related and metabolism-related pathways, shedding light on the molecular mechanisms underlying polyploidy breeding and individual differences in freshwater fishes.
JOURNAL OF PROTEOMICS
(2021)
Article
Plant Sciences
Stefanie Doell, Roxana Djalali Farahani-Kofoet, Rita Zrenner, Andrea Henze, Katja Witzel
Summary: The specific metabolic differences in asparagus root exudates, root outer tissues, and root inner tissues were investigated, revealing distinct patterns. Spatially, the proteomes of outer and inner root tissues showed significant differences, reflecting their diverse functions and structures. This study expands our understanding of tissue-specific plant cell functions through comprehensive analysis of metabolites and proteomes.
HORTICULTURE RESEARCH
(2021)
Article
Oncology
Zhenying Guo, Li Shen, Ningning Li, Xiaoxiao Wu, Canming Wang, Zheng Gu, Zhongjian Chen, Junping Liu, Weimin Mao, Yuchen Han
Summary: This study used bioinformatics to identify key genes in malignant mesothelioma, finding that Aurora-A could be an optimal diagnostic biomarker and a potential prognostic marker. Additionally, seven genes were identified as potential prognostic markers for MM.
FRONTIERS IN ONCOLOGY
(2021)
Article
Food Science & Technology
Jing Guo, Yaqiong Wu, Fangyun Guo, Guibin Wang
Summary: This study utilized quantitative proteomics and metabolomics to analyze different parts of Ginkgo biloba, revealing the relationships between leaf groups and the regulatory mechanisms of the flavonoid biosynthesis pathway. Key compounds related to the pathway showed differential expression in different tissues.
LWT-FOOD SCIENCE AND TECHNOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Ravi Pratap Singh, Neha Saini, Gaurav Sharma, R. Rahisuddin, Madhuri Patel, Abhishek Kaushik, S. Kumaran
Summary: The study develops an iterative sequence matching method to reveal the moonlighting biochemistry of cysteine synthase (CS) and validates the predictions through analytical and structural approaches. Experimental results show that five previously unknown CS-binding proteins involved in diverse metabolic processes interact with CS in a species-specific manner. Signature characteristics of protein-protein interactions highly match with known CS-Binder, indicating the potential for further investigation into protein-specific moonlighting properties of multifunctional proteins.
JOURNAL OF MOLECULAR BIOLOGY
(2021)
Article
Chemistry, Analytical
Britt S. R. Claes, Kasper K. Krestensen, Gargey Yagnik, Andrej Grgic, Christel Kuik, Mark J. Lim, Kenneth J. Rothschild, Michiel Vandenbosch, Ron M. A. Heeren
Summary: A novel technology called MALDIIHC was published, which combined MALDI-MSI and IHC to achieve targeted imaging of biomolecules in tissue. The utility of targeted MALDIIHC and its complementarity with untargeted on-tissue proteomics was explored using breast cancer tissue. MALDI-2 was also investigated and demonstrated to improve MALDI-IHC. The combination of multiplexed MALDI-IHC with image-guided proteomics showed great potential in studying diseases.
ANALYTICAL CHEMISTRY
(2023)
Article
Chemistry, Analytical
Britt S. R. Claes, Kasper K. Krestensen, Gargey Yagnik, Andrej Grgic, Christel Kuik, Mark J. Lim, Kenneth J. Rothschild, Michiel Vandenbosch, Ron M. A. Heeren
Summary: A novel technique called MALDIIHC was published recently, which combines MALDI-MSI and IHC to achieve targeted imaging of biomolecules in tissue. This study explored the utility of targeted MALDIIHC and its complementarity with untargeted spatial proteomics using breast cancer tissue. The combination of multiplexed MALDI-IHC with image-guided proteomics showed great potential for disease investigation. Additionally, the effect of MALDI-2 in improving MALDI-IHC was investigated.
ANALYTICAL CHEMISTRY
(2023)
Article
Oncology
Jun Wang, Na Sun, Thomas Kunzke, Jian Shen, Philipp Zens, Verena M. Prade, Annette Feuchtinger, Sabina Berezowska, Axel Walch
Summary: Molecular subtyping of lung squamous cell carcinoma (LUSC) has been performed, but stratification based on tissue metabolomics is lacking. In this study, different tumor and stroma subtypes with distinct metabolite patterns were identified in LUSC patients. The subtypes were associated with specific immunological features and metabolic pathways, and may contribute to personalized therapy.
NPJ PRECISION ONCOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Hayoung Choi, Jin Young Lee, Hongseok Yoo, Kyeongman Jeon
Summary: This study aimed to compare gene expression profiles between patients with sepsis and healthy volunteers to determine the accuracy of these profiles in diagnosing sepsis and predicting sepsis outcomes. Certain upregulated genes showed high accuracy in diagnosing sepsis and predicting in-hospital mortality, while downregulated genes showed high accuracy in predicting mortality of patients with sepsis.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Immunology
Ya-ru Liu, Jie-quan Wang, Xiao-feng Li, Hao Chen, Quan Xia, Jun Li
Summary: In this study, potential diagnostic and therapeutic biomarkers for rheumatoid arthritis (RA) were identified through integrated analysis of multiple genomic datasets. These biomarkers play important roles in the occurrence and development of RA, and may contribute to early diagnosis and treatment of the disease.
INTERNATIONAL IMMUNOPHARMACOLOGY
(2023)
Article
Genetics & Heredity
Bo Li, Xu Zhao, Wanrun Xie, Zhenzhen Hong, Yi Zhang
Summary: Diabetic nephropathy (DN) is a common complication of diabetes and a major cause of kidney disease. Although significant progress has been made in understanding the etiopathogenesis of DN, the genetic mechanisms underlying these effects remain unknown.
FRONTIERS IN GENETICS
(2023)
Article
Biotechnology & Applied Microbiology
Yun Yu, Liang Liu, Long-Long Hu, Ling-Ling Yu, Jun-Pei Li, Jing-an Rao, Ling-Juan Zhu, Qian Liang, Rong-Wei Zhang, Hui-Hui Bao, Xiao-Shu Cheng
Summary: Systemic lupus erythematosus (SLE) is a chronic autoimmune disease that affects multiple organs. This study used bioinformatics methods to identify potential therapeutic targets for SLE, revealing tissue-specific expression differences in hematological markers and increased expression of CCL2, MMP9, and RSAD2 in SLE samples. These key genes could serve as potential therapeutic targets for treating SLE.
Article
Multidisciplinary Sciences
Daphne P. C. Vergouwen, Amber J. J. Schotting, Tanja Endermann, Harmen J. G. van de Werken, Dwin G. B. Grashof, Sinthuja Arumugam, Rudy M. M. A. Nuijts, Josianne C. C. ten Berge, Aniki Rothova, Marco W. J. Schreurs, Marlies Gijs
Summary: Tear fluid collected via Schirmer strips has the potential for biomarker identification, but the lack of knowledge on strip processing complicates analysis and comparisons between studies. In this study, we compared two preprocessing methods and found that the punch method yielded higher protein detectability than the elution method. Protein expression levels were slightly higher in the head of the strip, but 3 out of 5 punches from the head failed quality control. Our study suggests the beneficial use of punches from any part of the strip except the head in future biomarker research.
SCIENTIFIC REPORTS
(2023)
Editorial Material
Medical Laboratory Technology
Eleftherios P. Diamandis, Karl J. Lackner, Mario Plebani
CLINICAL CHEMISTRY AND LABORATORY MEDICINE
(2022)
Editorial Material
Medicine, General & Internal
Panos Macheras, Caitlin Di Paolo, Yanna Pusica, Eleftherios P. Diamandis
Letter
Medical Laboratory Technology
Oscar D. Pons-Belda, Amaia Fernandez-Uriarte, Annie Ren, Eleftherios P. Diamandis
CLINICAL CHEMISTRY AND LABORATORY MEDICINE
(2022)
Editorial Material
Oncology
Amaia Fernandez-Uriarte, Oscar D. Pons-Belda, Eleftherios P. Diamandis
Summary: Cancer screening has been an important field of research. Traditional biomarkers are not suitable for population screening. Circulating tumor DNA has emerged as a promising new marker for cancer, but there are still challenges and the accuracy of new screening tests needs further definition.
CANCER EPIDEMIOLOGY BIOMARKERS & PREVENTION
(2022)
Article
Biochemical Research Methods
Stella K. Vasiliou, Panagiota S. Filippou, Sergi Clotet-Freixas, Antoninus Soosaipillai, Ihor Batruch, Foivos Viktor Tsianos, Ana Konvalinka, Eleftherios P. Diamandis
Summary: This study found that AR regulates the metabolism of BT-474 cells by affecting the expression of a large number of genes and proteins. Further pathway analysis suggests that the androgen receptor acts as a tumor suppressor in BT-474 cells.
CLINICAL PROTEOMICS
(2022)
Letter
Medicine, General & Internal
Eleftherios P. Diamandis, Sok-Ja Janket, Harry A. Conte
Letter
Medical Laboratory Technology
Eleftherios. P. P. Diamandis
CLINICAL CHEMISTRY AND LABORATORY MEDICINE
(2023)
Article
Medical Laboratory Technology
Ivan Pasic, Annie H. Ren, Ram Vasudevan Nampoothiri, Ioannis Prassas, Jeffrey H. Lipton, Jonas Mattsson, Eleftherios P. Diamandis, Fotios V. Michelis
Summary: Using a novel multiplex antibody-based proximity extension assay, researchers identified serum proteins, including SLAMF7, IL-1ra, BTN3A2, and DAB2, that may potentially serve as biomarkers for acute graft-vs.-host disease.
CLINICAL CHEMISTRY AND LABORATORY MEDICINE
(2023)
Article
Medical Laboratory Technology
Annie H. Ren, Panagiota S. Filippou, Antoninus Soosaipillai, Lampros Dimitrakopoulos, Dimitrios Korbakis, Felix Leung, Vathany Kulasingam, Marcus Q. Bernardini, Eleftherios P. Diamandis
Summary: This study explored the potential of using MUC13 as an ovarian cancer biomarker to complement CA125. The results showed that MUC13 could be used to detect non-serous ovarian carcinoma and early-stage disease, in addition to CA125.
CLINICAL CHEMISTRY AND LABORATORY MEDICINE
(2023)
Review
Biochemistry & Molecular Biology
Hannu Koistinen, Ruusu-Maaria Kovanen, Morley D. Hollenberg, Antoine Dufour, Evette S. Radisky, Ulf-Hakan Stenman, Jyotsna Batra, Judith Clements, John D. Hooper, Eleftherios Diamandis, Oliver Schilling, Antti Rannikko, Tuomas Mirtti
Summary: Since the proposition of the pro-invasive activity of proteolytic enzymes over 70 years ago, several roles for proteases in cancer progression have been established. About half of the 473 active human proteases are expressed in the prostate and many of the most well-characterized members of this enzyme family are regulated by androgens, hormones essential for development of prostate cancer. Most notably, several kallikrein-related peptidases, including KLK3 (prostate-specific antigen, PSA), the most well-known prostate cancer marker, and type II transmembrane serine proteases, such as TMPRSS2 and matriptase, have been extensively studied and found to promote prostate cancer progression. Recent findings also suggest a critical role for proteases in the development of advanced and aggressive castration-resistant prostate cancer (CRPC). Perhaps the most intriguing evidence for this role comes from studies showing that the protease-activated transmembrane proteins, Notch and CDCP1, are associated with the development of CRPC.
Letter
Medical Laboratory Technology
Eleftherios P. Diamandis
CLINICAL CHEMISTRY AND LABORATORY MEDICINE
(2023)
Article
Oncology
Timo-Pekka K. Lehto, Ruusu-Maaria Kovanen, Susanna Lintula, Adrian Malen, Carolin Sturenberg, Andrew Erickson, Olli-Pekka Pulkka, Ulf-Hakan Stenman, Eleftherios P. Diamandis, Antti Rannikko, Tuomas Mirtti, Hannu Koistinen
Summary: This study aimed to investigate the mRNA levels and prognostic impact of all 15 human kallikrein-related peptidases (KLKs) and their targets, proteinase-activated receptors (PARs), in surgically treated prostate cancer (PCa). The results showed that the expression of KLK2, KLK3, KLK4, and KLK15 was closely associated with tumor aggressiveness and prognosis, suggesting their potential as prognostic biomarkers for PCa.
INTERNATIONAL JOURNAL OF CANCER
(2023)
Letter
Medical Laboratory Technology
Eleftherios P. Diamandis
CLINICAL CHEMISTRY AND LABORATORY MEDICINE
(2023)
Letter
Medicine, General & Internal
Sok-Ja Janket, Jukka H. Meurman, Eleftherios P. Diamandis
Review
Medicine, General & Internal
Arsani Yousef, Lucianna Ghobrial, Eleftherios P. Diamandis
Summary: Tumors vary in location, tissue type, and histological subtype. This review highlights current classification schemes for tumor heterogeneity and discusses its clinical significance. New molecular techniques offer affordable assessment of tumor heterogeneity, potentially revolutionizing cancer diagnosis and treatment. Standardized and reproducible assessment methods are needed to fully realize the benefits of tumor heterogeneity.