Article
Gastroenterology & Hepatology
Soo Young Cho, Heeyoun Hwang, Yun-Hee Kim, Byong Chul Yoo, Nayoung Han, Sun-Young Kong, Min-Jeong Baek, Kyung-Hee Kim, Mi Rim Lee, Jae Gwang Park, Sung-Sik Han, Woo Jin Lee, Charny Park, Jong Bae Park, Jin Young Kim, Sang-Jae Park, Sang Myung Woo
Summary: Through comprehensive analysis of genomic, transcriptomic, proteomic, and phosphoproteomic data from 102 iCC patients, three clinically supported subtypes were identified (stem-like, poorly immunogenic, and metabolism), and an organoid model was constructed for therapeutic testing. The ALDH1A1 inhibitor NCT-501 showed synergy with nanoparticle albumin-bound-paclitaxel in the organoid model for the stem-like subtype. Dysregulations in oncometabolites were associated with different clinical outcomes in the stem-like and metabolism subtypes. The poorly immunogenic subtype exhibited non-T-cell tumor infiltration. Integrated multiomics analysis reproduced the 3 subtypes and revealed heterogeneity in iCC.
Review
Cardiac & Cardiovascular Systems
Lusha W. Liang, Yuichi J. Shimada
Summary: Endotyping classifies diseases into subtypes based on molecular mechanisms, with heart failure having multiple endotypes that respond differently to treatment. Molecular-level investigation using multi-omics approaches is essential for identifying distinct endotypes, with machine learning playing a crucial role in handling big data.
CIRCULATION JOURNAL
(2021)
Review
Biochemistry & Molecular Biology
Qiaolifan Aerqin, Zuo-Teng Wang, Kai-Min Wu, Xiao-Yu He, Qiang Dong, Jin-Tai Yu
Summary: This review summarizes the progress made in the discovery of reliable Alzheimer's disease (AD) biomarkers using genomics, transcriptomics, proteomics, and metabolomics. The importance of these biomarkers in the diagnosis and treatment of AD is discussed.
CELLULAR AND MOLECULAR LIFE SCIENCES
(2022)
Article
Medicine, Research & Experimental
Chang-Zhu Pei, Lan Jin, Kwang-Hyun Baek
Summary: PCOS is a common gynecological endocrine disease involving multiple genes and pathways, and cannot be explained by a single factor. Omics analysis plays a key role in studying the pathogenesis of PCOS, offering new perspectives for explaining new mechanisms and potential biomarkers discovery.
BIOMEDICINE & PHARMACOTHERAPY
(2021)
Article
Medicine, Research & Experimental
Yongjiang Qian, Lihua Li, Zhen Sun, Jia Liu, Wei Yuan, Zhongqun Wang
Summary: Vascular calcification is a high incidence and high mortality disease, strongly associated with poor outcomes in diabetes and chronic kidney disease. Despite numerous studies, the specific mechanism of the disease remains unclear. Omics has advantages over single pathway analysis in revealing the mechanisms of vascular calcification.
BIOMEDICINE & PHARMACOTHERAPY
(2021)
Review
Biochemistry & Molecular Biology
Patricia de Carvalho Ribeiro, Lucas Felipe Oliveira, Daniel Mendes Filho, Ricardo Cambraia Parreira, Mariana Sousa Vieira, Bruno Lemes Marques, Elis Marra da Madeira Freitas, Walison N. N. Silva, Helton da Costa Santiago, Alexander Birbrair, Henning Ulrich, Valdo Jose Dias da Silva, Rodrigo R. R. Resende
Summary: Systemic arterial hypertension is a major risk factor for cardiovascular and renal diseases, and early recognition is important for prevention. The study of biomarkers is an important approach for diagnosing and predicting hypertension and related conditions. This review discusses the use of biomarkers in hypertension and associated diseases such as ischemic stroke, intracerebral hemorrhage, transient ischemic attack, acute myocardial infarction, angina pectoris, and chronic kidney disease. Establishing a pool of potential biomarkers can improve diagnosis, prognosis, risk assessment, therapy management, and pharmacological responses to enhance patients' quality of life and prevent unfavorable outcomes.
CURRENT MEDICINAL CHEMISTRY
(2023)
Article
Biochemical Research Methods
Nathaniel Kwok, Zita Aretz, Sumiko Takao, Zheng Ser, Paolo Cifani, Alex Kentsis
Summary: Recent advances in nucleic acid sequencing and mass spectrometry proteomics have enabled genome-scale analysis of genetic variation and transcription as well as whole proteome-scale studies of protein expression. However, most proteomic studies are limited to canonical protein sequences. Here, we develop ProteomeGenerator2 (PG2), which integrates genome and transcriptome sequencing to incorporate protein variants and other non-canonical features caused by genomic and transcriptomic variation. PG2 has been benchmarked using synthetic data and analysis of human leukemia cells and can be used with current and emerging sequencing technologies, assemblers, variant callers, and mass spectral analysis algorithms. It is open-source and available at https://github.com/kentsisresearchgroup/ProteomeGenerator2.
JOURNAL OF PROTEOME RESEARCH
(2023)
Article
Cardiac & Cardiovascular Systems
Keqiang Yan, Zhanlong Mei, Jingjing Zhao, Md Aminul Islam Prodhan, Detlef Obal, Kartik Katragadda, Benjamin Doelling, David Hoetker, Dheeraj Kumar Posa, Liqing He, Xinmin Yin, Jasmit Shah, Jianmin Pan, Shesh Rai, Pawel Konrad Lorkiewicz, Xiang Zhang, Siqi Liu, Aruni Bhatnagar, Shahid P. Baba
Summary: This study reveals the central role of histidyl dipeptides in coordinated regulation of myocardial structure, function, and energetics through integrated triomics approach. Higher levels of histidyl dipeptides in the heart were associated with extensive changes in microRNAs targeting contractile proteins, beta-fatty acid oxidation, and citric acid cycle enzymes. The overexpression of carnosine synthesizing enzyme in mice led to enrichment in the expression of contractile proteins, beta-fatty acid oxidation enzymes, and the TCA in the heart. Integration of multiple data sets suggested that beta-fatty acid oxidation and TCA pathways exhibit correlative changes in the Carns transgenic hearts.
JOURNAL OF THE AMERICAN HEART ASSOCIATION
(2022)
Review
Oncology
Zijian Zou, Wei Sun, Yu Xu, Wanlin Liu, Jingqin Zhong, Xinyi Lin, Yong Chen
Summary: Sarcomas are rare mesenchymal neoplasms with unique genetic characteristics, and their diagnosis relies heavily on pathological examination. Advanced treatments and multi-omics approaches have shown promise in improving outcomes and understanding sarcomas, but further research is needed to optimize their clinical application.
FRONTIERS IN ONCOLOGY
(2022)
Review
Biotechnology & Applied Microbiology
Alexander Arsov, Kaloyan Petrov, Penka Petrova
Summary: This article discusses the potential of microbial production of butanol as a new fuel and the challenge of butanol toxicity to microbes. Modern omics approaches have made significant progress in addressing the issue of low butanol tolerance, but a strain capable of both synthesis and tolerance at commercializable concentrations has yet to be discovered or produced.
BIOTECHNOLOGY ADVANCES
(2021)
Review
Hematology
Natalia Eberhardt, Chiara Giannarelli
Summary: The development of innovative single-cell technologies has allowed for in-depth analysis of the transcriptomic and proteomic profiling of individual blood and tissue cells. Recent single-cell studies have revealed the cellular heterogeneity of atherosclerotic plaque tissue and provided a better understanding of the immune functional states in the context of atherosclerosis.
ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY
(2022)
Review
Food Science & Technology
Karolinny Cristiny de Oliveira Vieira, Hevelin Regiane Augusto da Silva, Isabela Poletto Masselli Rocha, Emmanuel Barboza, Lizziane Kretli Winkelstroter Eller
Summary: Outbreaks and deaths related to Foodborne Diseases (FBD) are constantly occurring worldwide, largely due to consumption of contaminated foodstuffs with pathogens. This review discusses the main omic techniques applied in foodborne pathogens and their potential in ensuring food safety. Omics have been shown to integrate variables that contribute to food safety and improve consumer health, costs, and product quality.
CRITICAL REVIEWS IN FOOD SCIENCE AND NUTRITION
(2022)
Article
Cell Biology
Linyan Chen, Hao Zeng, Yu Xiang, Yeqian Huang, Yuling Luo, Xuelei Ma
Summary: In this study, machine learning models based on histopathological image features successfully predicted genetic aberrations, transcriptional subtypes, and survival outcomes of LUAD patients. The combination of histopathological image features with single omics data improved the prognostic power for LUAD patients.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Review
Cell Biology
Jia-Chen Liu, Shan-Shan Dong, Hui Shen, Dan-Yue Yang, Bin-Bin Chen, Xue-Ying Ma, Yi-Ran Peng, Hong-Mei Xiao, Hong-Wen Deng
Summary: Sarcopenia is a systemic disease characterized by muscle dysfunction, with its genetic architecture and molecular mechanisms still largely unclear. Recent advancements in multi-omics studies offer new insights into the pathogenesis of sarcopenia and may lead to new clinical applications.
AGEING RESEARCH REVIEWS
(2022)
Review
Biochemistry & Molecular Biology
Huan Li, Muhammad Tahir ul Qamar, Li Yang, Junchao Liang, Jun You, Linhai Wang
Summary: Sesame is an important traditional oil crop with high economic and nutritional value. Advances in high throughput sequencing techniques and bioinformatical methods have led to rapid developments in genomics, methylomics, transcriptomics, proteomics, and metabonomics studies of sesame.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Genetics & Heredity
Andrea M. Murad, Hannah L. Hill, Yu Wang, Michael Ghannam, Min-Lee Yang, Norma L. Pugh, Federico M. Asch, Whitney Hornsby, Anisa Driscoll, Jennifer McNamara, Cristen J. Willer, Ellen S. Regalado, Dianna M. Milewicz, Kim A. Eagle, Santhi K. Ganesh
Summary: Spontaneous coronary artery dissection (SCAD) is a potential cause of myocardial infarction and sudden death, and it is related to genetic vascular and connective tissue disorders (TAD). The prevalence of SCAD is low in TAD patients, but the identified pathogenic gene variants are consistent with prior clinical reports on SCAD.
AMERICAN JOURNAL OF MEDICAL GENETICS PART A
(2022)
Article
Pathology
Alessandro Vanoli, Camilla Guerini, Federica Grillo, Catherine Klersy, Matteo Fassan, Giovanni Arpa, Giuseppe Neri, Ombretta Luinetti, Marco V. Lenti, Paola Ulivi, Gianluca Tedaldi, Daniela Furlan, Erica Quaquarini, Sandro Ardizzone, Gianluca Sampietro, Livia Biancone, Giovanni Monteleone, Enrico Solcia, Fausto Sessa, Marco Paulli, Nazmi V. Adsay, Antonio Di Sabatino
Summary: This study compares the clinicopathologic and immunophenotypical features of poorly cohesive carcinomas (PCCs) in the small bowel, and suggests that they should be considered a distinctive subtype separate from small bowel adenocarcinomas not otherwise specified (SBAs-NOS). The study also highlights the worse cancer-specific survival of patients with SB-PCCs and mixed-poorly-cohesive-glandular-SBAs compared to SBAs-NOS cases.
AMERICAN JOURNAL OF SURGICAL PATHOLOGY
(2022)
Article
Gastroenterology & Hepatology
Marco Vincenzo Lenti, Emanuela Miceli, Alessandro Vanoli, Catherine Klersy, Gino Roberto Corazza, Antonio Di Sabatino
Summary: Approximately half of potential autoimmune gastritis patients will progress to overt autoimmune gastritis within two years, especially those with concurrent autoimmune disorders.
DIGESTIVE AND LIVER DISEASE
(2022)
Review
Cardiac & Cardiovascular Systems
Eloisa Arbustini, Elijah R. Behr, Lucie Carrier, Cornelia van Duijn, Paul Evans, Valentina Favalli, Pim van der Harst, Kristina Hermann Haugaa, Guillaume Jondeau, Stefan Kaab, Juan Pablo Kaski, Maryam Kavousi, Bart Loeys, Antonis Pantazis, Yigal Pinto, Heribert Schunkert, Alessandro Di Toro, Thomas Thum, Mario Urtis, Johannes Waltenberger, Perry Elliott
Summary: This article describes the importance of clinical criteria in interpreting genetic variants, using heritable Mendelian cardiomyopathies as an example. By conducting clinical family screening, clinicians can establish the relationship between genetic variants and phenotypes, thereby addressing the limitations of genetic testing. Collaboration between clinicians and patients plays a crucial role in resolving uncertainties and providing reliable and clinically useful information.
EUROPEAN HEART JOURNAL
(2022)
Article
Cardiac & Cardiovascular Systems
Laura Gatto, Fernando Alfonso, Giulia Paoletti, Francesco Burzotta, Alessio La Manna, Simone Budassi, Flavio Giuseppe Biccire, Massimo Fineschi, Valeria Marco, Franco Fabbiocchi, Rocco Vergallo, Alberto Boi, Giovanni Ruscica, Francesco Versaci, Nevio Taglieri, Giuseppe Calligaris, Mario Albertucci, Enrico Romagnoli, Vito Ramazzotti, Corrado Tamburino, Filippo Crea, Yukio Ozaki, Eloisa Arbustini, Francesco Prati
Summary: The post-hoc analysis of the CLIMA study showed that the circumferential extension and location of macrophages defined by OCT are associated with a composite endpoint of cardiac death, myocardial infarction, and/or target vessel revascularization.
INTERNATIONAL JOURNAL OF CARDIOLOGY
(2022)
Letter
Dermatology
S. M. A. Ahmed, M. Volonte, E. Isoletta, C. Vassallo, C. F. Tomasini, D. Lilleri, P. Zelini, V. Musella, C. Klersy, V. Brazzelli
JOURNAL OF THE EUROPEAN ACADEMY OF DERMATOLOGY AND VENEREOLOGY
(2022)
Article
Cardiac & Cardiovascular Systems
Luis R. Lopes, Maria-Angela Losi, Nabeel Sheikh, Cecile Laroche, Philippe Charron, Juan Gimeno, Juan P. Kaski, Aldo P. Maggioni, Luigi Tavazzi, Eloisa Arbustini, Dulce Brito, Jelena Celutkiene, Albert Hagege, Ales Linhart, Jens Mogensen, Jose Manuel Garcia-Pinilla, Tomas Ripoll-Vera, Hubert Seggewiss, Eduardo Villacorta, Alida Caforio, Perry M. Elliott
Summary: Common cardiovascular risk factors are associated with a more severe form of hypertrophic cardiomyopathy, suggesting the need for proactive management. There is an interaction between genotype and cardiovascular risk factors in certain traits.
EUROPEAN HEART JOURNAL-QUALITY OF CARE AND CLINICAL OUTCOMES
(2023)
Review
Respiratory System
Ugo Corra, Andrea Giordano, Marco Gnemmi, Fabiana Isabella Gambarin, Claudio Marcassa, Massimo Pistono
Summary: As more adults are living into old age, the demand for cardiac rehabilitation is increasing. This study aimed to identify predictors of length of stay in different age groups of cardiovascular disease patients admitted to residential cardiac rehabilitation. The results showed that factors such as physical condition, cardiac function, and non-cardiac conditions have different effects on the length of stay for patients in different age groups.
MONALDI ARCHIVES FOR CHEST DISEASE
(2022)
Article
Biochemistry & Molecular Biology
Mrakic-Sposta Simona, Vezzoli Alessandra, Cova Emanuela, Ticcozzelli Elena, Montorsi Michela, Greco Fulvia, Sepe Vincenzo, Benzoni Ilaria, Meloni Federica, Arbustini Eloisa, Abelli Massimo, Gussoni Maristella
Summary: This study presents a NMR and EPR spectroscopy approach to assess kidney viability and metabolism. The metabolism and oxidative damage of porcine kidney models were examined during organ retrieval, preservation, and transplantation. The results showed higher ROS production and concentration of metabolites in the ex vivo machine perfusion (HMP) group compared to the static cold storage (SCS) group. The HMP group also exhibited better functional recovery after transplantation.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Editorial Material
Cardiac & Cardiovascular Systems
Fabiana Isabella Gambarin, Massimo Pistono, Ugo Corra
EUROPEAN JOURNAL OF PREVENTIVE CARDIOLOGY
(2023)
Article
Cardiac & Cardiovascular Systems
Francesca Romana Gentile, Enrico Baldi, Catherine Klersy, Sebastian Schnaubelt, Maria Luce Caputo, Christian Clodi, Jolie Bruno, Sara Compagnoni, Alessandro Fasolino, Claudio Benvenuti, Hans Domanovits, Roman Burkart, Roberto Primi, Gerhard Ruzicka, Michael Holzer, Angelo Auricchio, Simone Savastano
Summary: A study found that ECG features can predict the 30-day survival rate of patients after out-of-hospital cardiac arrest. Age >62 years, female sex, QRS wider than 120 ms, the presence of a Brugada pattern, and ST-segment elevation in >1 segment were independently associated with 30-day mortality. By dividing the population into three risk classes based on a score, significant differences in survival rates at 30 days were observed.
JOURNAL OF THE AMERICAN HEART ASSOCIATION
(2023)
Article
Cardiac & Cardiovascular Systems
Francesca Toto, Laura Leo, Catherine Klersy, Tiziano Torre, Thomas Theologou, Alberto Pozzoli, Elena Caporali, Stefanos Demertzis, Enrico Ferrari
Summary: The study evaluated the clinical outcomes and hemodynamic performance of two standard aortic bioprostheses. The results showed that the postoperative outcomes and mid-term follow-up were similar between the Trifecta and Perimount bioprostheses. Although the Trifecta valve showed better hemodynamic performance in the early postoperative period, this advantage did not persist over time. There was no difference in the reoperation rate for structural valve degeneration between the two valves.
JOURNAL OF CARDIOVASCULAR DEVELOPMENT AND DISEASE
(2023)
Article
Cardiac & Cardiovascular Systems
Elena Arbelo, Alexandros Protonotarios, Juan R. Gimeno, Eloisa Arbustini, Roberto Barriales-Villa, Cristina Basso, Connie R. Bezzina, Elena Biagini, Nico A. Blom, Rudolf A. de Boer, Tim De Winter, Perry M. Elliott, Marcus Flather, Pablo Garcia-Pavia, Kristina H. Haugaa, Jodie Ingles, Ruxandra Oana Jurcut, Sabine Klaassen, Giuseppe Limongelli, Bart Loeys, Jens Mogensen, Iacopo Olivotto, Antonis Pantazis, Sanjay Sharma, J. Peter Van Tintelen, James S. Ware, Juan Pablo Kaski
EUROPEAN HEART JOURNAL
(2023)
Article
Medicine, General & Internal
Andreas Haeberlin, Fabian Noti, Alexander Breitenstein, Angelo Auricchio, Tobias Reichlin, Giulio Conte, Catherine Klersy, Moreno Curti, Etienne Pruvot, Giulia Domenichini, Beat Schaer, Michael Kuehne, Michal Gruszczynski, Haran Burri, Richard Kobza, Christian Grebmer, Francois D. Regoli, Francesco Pelliccia
Summary: This study analyzed the procedural outcomes of transvenous lead extraction (TLE) during device upgrade, and found that TLE is effective and does not pose a disproportionate risk to the upgrade procedure.
JOURNAL OF CLINICAL MEDICINE
(2023)