Review
Biochemistry & Molecular Biology
Sergey Leonov, Olumide Inyang, Konstantin Achkasov, Elizaveta Bogdan, Elizaveta Kontareva, Yongheng Chen, Ying Fu, Andreyan N. N. Osipov, Margarita Pustovalova, Yulia Merkher
Summary: Metastasis is the leading cause of cancer-related deaths, and predicting its occurrence is crucial for improving survival rates. Current prediction methods, such as lymph-node status and genetic testing, have limitations and may take weeks to obtain results. New mechanobiology-related techniques based on the mechanical invasiveness of cancer cells have shown promise in detecting metastasis propensity. However, they are still complex and require further exploration. Investigating novel markers related to the mechanobiological properties of tumor cells may significantly impact the prognosis of metastasis.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Oncology
Zhiyu Wang, Bing Sheng, Zichao Wei, Yi Li, Zhihua Liu
Summary: IFI16 is identified as a key ESCC metastasis-related protein, promoting ESCC metastasis by upregulating FGF proteins expression.
Article
Biochemistry & Molecular Biology
Sini Li, Yan Qu, Lihui Liu, Xue Zhang, Yan He, Chao Wang, Yufeng Guo, Li Yuan, Zixiao Ma, Hua Bai, Jie Wang
Summary: This study investigated the plasma exosomes' proteomic profiles in patients with lung cancer (LC) who had liver metastasis (LM) or brain metastasis (BM). Differentially expressed exosome-based proteins (DEEPs) were identified in LM and BM, and they were found to be involved in proteomic triggering cascade, ECM-receptor interaction, and the collagen-containing extracellular matrix. Potential biomarkers for the diagnosis of LM and BM were also suggested.
CELL AND BIOSCIENCE
(2023)
Article
Biochemical Research Methods
Zi Gao, Preston Williams, Lin Li, Yinsheng Wang
Summary: DNA sequences with high G content have the potential to form G quadruplex structures, which can interact with specific proteins. Through quantitative proteomic experiments, a number of candidate G4-interacting proteins were identified, some of them being discovered for the first time. These findings highlight the complexity and importance of understanding the G4-interaction proteome in biology.
JOURNAL OF PROTEOME RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Luca Bini, Domitille Schvartz, Chiara Carnemolla, Roberta Besio, Nadia Garibaldi, Jean-Charles Sanchez, Antonella Forlino, Laura Bianchi
Summary: Osteogenesis imperfecta is a heritable disorder affecting the skeleton, mainly caused by mutations in the COL1A1 and COL1A2 genes. Research has identified significant differences in 17 proteins between OI patients with lethal and non-lethal phenotypes, which play key roles in matrix structure, cell signaling, and tissue development. Some ECM proteins and cytoskeleton-modulating proteins directly correlate with disease severity and may impact the balance of mutant collagen-related aberrations in patients.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Martha Paluschinski, Sven Loosen, Claus Kordes, Verena Keitel, Anne Kuebart, Timo Brandenburger, David Schoeler, Marianne Wammers, Ulf P. Neumann, Tom Luedde, Mirco Castoldi
Summary: Liver diseases require reliable biomarkers for early detection, prognosis, and therapeutic monitoring. Extracellular vesicles (EVs) have emerged as promising candidates for liver disease biomarkers due to their unique cargo composition, stability, and accessibility in various biological fluids. This study presents an optimized workflow for identifying EVs-based biomarkers in liver disease, including EVs isolation, characterization, cargo analysis, and biomarker validation. It was found that specific microRNAs and cytokines differed in EVs isolated from patients with different liver diseases. Implementation of this workflow can enhance liver disease diagnosis, prognosis, and personalized treatment strategies.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Chemistry, Applied
Jessie Bong, Martin Middleditch, Kerry M. Loomes, Jonathan M. Stephens
Summary: This study utilized proteomics to analyze the protein components of ma?nuka honey, identifying 50 bee-derived proteins with major royal jelly proteins as the predominant ones. Unique nectar-derived proteins in ma?nuka honey were also discovered, along with the presence of plant proteins and proteins related to drought tolerance. Authentication markers were proposed based on the uniqueness of certain peptides, showcasing peptide profiling as a novel approach for ma?nuka honey authentication.
Article
Pharmacology & Pharmacy
Marja Driessen, Suzanne van der Plas-Duivesteijn, Anne S. Kienhuis, Evert-Jan van den Brandhof, Marianne Roodbergen, Bob van de Water, Herman P. Spaink, Magnus Palmblad, Leo T. M. van der Ven, Jeroen L. A. Pennings
Summary: The zebrafish embryo is a promising model for studying hepatotoxicity and could potentially reduce the use of rodents in such assessments. Proteomics analysis identified a set of potential protein markers for detecting adverse liver responses.
Article
Biochemistry & Molecular Biology
Indu Sinha, Rachel L. Fogle, Gizem Gulfidan, Anne E. Stanley, Vonn Walter, Christopher S. Hollenbeak, Kazim Y. Arga, Raghu Sinha
Summary: Breast cancer is a leading cause of death in women in the US, and current diagnostic methods have high false positivity rates. This study aimed to identify protein markers in saliva and serum for early breast cancer detection. Through rigorous analysis using iTRAQ technique, a total of 591 and 371 differentially expressed proteins were identified in saliva and serum samples, respectively. These proteins were mainly related to exocytosis, secretion, immune response, and signaling pathways. A network biology approach was used to evaluate potential biomarkers for breast cancer diagnosis and prognosis. The findings suggest that saliva and serum samples from the same women can provide a feasible platform for studying responsive proteomic profiles in benign and malignant breast disease.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Julia Carrasco-Zanini, Maik Pietzner, Joni Lindbohm, Eleanor Wheeler, Erin Oerton, Nicola Kerrison, Missy Simpson, Matthew Westacott, Dan Drolet, Mika Kivimaki, Rachel Ostroff, Stephen A. Williams, Nicholas J. Wareham, Claudia Langenberg
Summary: This study combines large-scale proteomics and machine learning to identify proteins that can be used to identify individuals with isolated impaired glucose tolerance. By adding only three proteins, the discrimination of impaired glucose tolerance improved significantly.
Article
Oncology
Ming-ming He, Zhe Fang, Dong Hang, Feng Wang, Georgios Polychronidis, Liang Wang, Chun-Han Lo, Kai Wang, Rong Zhong, Markus D. Knudsen, Scott G. Smith, Rui-Hua Xu, Mingyang Song
Summary: In a large cohort from the UK Biobank, higher circulating levels of liver function markers, including ALT, AST, TBIL, GGT, TP, and ALB, within the normal range, were associated with a lower risk of colorectal cancer. These findings suggest a potential link between liver function and colorectal cancer, warranting further research on the gut-microbiota-liver axis.
INTERNATIONAL JOURNAL OF CANCER
(2021)
Article
Neurosciences
Fan Liu, Yun Bao, Binghui Qiu, Jian Mao, Xixian Liao, Haorun Huang, An Zhang, Guozhong Zhang, Songtao Qi, Fen Mei
Summary: In this study, we identified and validated five cerebrospinal fluid (CSF) biomarkers for cognitive impairment in patients with aneurysmal subarachnoid hemorrhage (aSAH). These biomarkers have important predictive and discriminative potential for cognitive impairment in aSAH and could be potential targets for early disease intervention.
FRONTIERS IN CELLULAR NEUROSCIENCE
(2022)
Article
Multidisciplinary Sciences
Yayoi Kimura, Yusuke Nakai, Jihye Shin, Miyui Hara, Yuriko Takeda, Sousuke Kubo, Sundararaj Stanleyraj Jeremiah, Yoko Ino, Tomoko Akiyama, Kayano Moriyama, Kazuya Sakai, Ryo Saji, Mototsugu Nishii, Hideya Kitamura, Kota Murohashi, Kouji Yamamoto, Takeshi Kaneko, Ichiro Takeuchi, Eri Hagiwara, Takashi Ogura, Hideki Hasegawa, Tomohiko Tamura, Takeharu Yamanaka, Akihide Ryo
Summary: The COVID-19 pandemic poses a significant threat to global health, and accurately predicting disease progression is crucial for determining the best treatment options. Using proteomic approaches, researchers have identified potential serum proteins associated with COVID-19 prognosis. The findings suggest that CHI3L1 and IGFALS could serve as highly sensitive prognostic markers, aiding in the diagnosis and treatment of severe COVID-19 cases.
SCIENTIFIC REPORTS
(2021)
Article
Surgery
Wei Liu, Yong Cui, Xiao-Gang Wu, Feng-Lin Chen, Kun Wang, Ying-Shi Sun, Bao-Cai Xing
Summary: This study aimed to clarify the outcomes of R1 surgery in patients with colorectal liver metastases attached to major intrahepatic vessels. The results showed that R1 surgery attached to major intrahepatic vessels had higher survival rates compared to R1 parenchymal margin. Therefore, non-anatomic liver resection may be considered for CRLM attached to intrahepatic vessels to increase patient resectability after preoperative chemotherapy.
Article
Oncology
Eduardo Sommella, Valeria Capaci, Michelangelo Aloisio, Emanuela Salviati, Pietro Campiglia, Giuseppe Molinario, Danilo Licastro, Giovanni Di Lorenzo, Federico Romano, Giuseppe Ricci, Lorenzo Monasta, Blendi Ura
Summary: Endometrial cancers are mainly adenocarcinomas originating from the inner part of the uterus. Serum biomarkers, identified through exosome serum proteins, can aid in early diagnosis. A statistical model based on specific proteins shows promise in detecting and diagnosing EC, particularly at an early stage.
Article
Oncology
Riccardo Corbellari, Lisa Nadal, Alessandra Villa, Dario Neri, Roberto De Luca
Article
Biochemistry & Molecular Biology
Gabriele Bassi, Nicholas Favalli, Sebastian Oehler, Adriano Martinelli, Marco Catalano, Jorg Scheuermann, Dario Neri
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2020)
Article
Radiology, Nuclear Medicine & Medical Imaging
Oana C. Kulterer, Sarah Pfaff, Wolfgang Wadsak, Nathalie Garstka, Mesut Remzi, Chrysoula Vraka, Lukas Nics, Markus Mitterhauser, Franziska Bootz, Samuele Cazzamalli, Nikolaus Krall, Dario Neri, Alexander R. Haug
Summary: Tc-99m-PHC-102 demonstrates good tolerability and targeting performance in patients with ccRCC, with the potential to serve as a companion diagnostic agent for future CAIX-targeting therapeutics.
JOURNAL OF NUCLEAR MEDICINE
(2021)
Article
Clinical Neurology
Enrique Gomez-Figueroa, Guillermo Noriega-Morales, Adriana Casallas-Vanegas, Indhira Zabala-Angeles, Christian Garcia-Estrada, Daniel Neri, Adib Jorge-de Sarachaga, Veronica Rivas-Alonso, Teresa Corona-Vazquez, Jose Flores-Rivera
CLINICAL NEUROLOGY AND NEUROSURGERY
(2020)
Article
Biotechnology & Applied Microbiology
Luigi Iannetti, Maria Schirone, Diana Neri, Pierina Visciano, Vicdalia Aniela Acciari, Gabriella Centorotola, Maria Silvia Mangieri, Marina Torresi, Gino Angelo Santarelli, Violeta Di Marzio, Cristina Marfoglia, Giacomo Migliorati, Francesco Pomilio
Article
Oncology
Davor Bajic, Kerry Chester, Dario Neri
MOLECULAR CANCER THERAPEUTICS
(2020)
Article
Biochemistry & Molecular Biology
Franziska Walser, Monique P. C. Mulder, Benoit Bragantini, Sibylle Burger, Tatiana Gubser, Marco Gatti, Maria Victoria Botuyan, Alessandra Villa, Matthias Altmeyer, Dario Neri, Huib Ovaa, Georges Mer, Lorenza Penengo
Article
Cell Biology
Tobias Weiss, Emanuele Puca, Manuela Silginer, Teresa Hemmerle, Shila Pazahr, Andrea Bink, Michael Weller, Dario Neri, Patrick Roth
SCIENCE TRANSLATIONAL MEDICINE
(2020)
Article
Chemistry, Multidisciplinary
Gabriele Bassi, Nicholas Favalli, Miriam Vuk, Marco Catalano, Adriano Martinelli, Anika Trenner, Antonio Porro, Su Yang, Chuin Lean Tham, Mustafa Moroglu, Wyatt W. Yue, Stuart J. Conway, Peter K. Vogt, Alessandro A. Sartori, Joerg Scheuermann, Dario Neri
Article
Oncology
Giorgio Aquila, Andrea David Re Cecconi, Mara Forti, Roberta Frapolli, Ezia Bello, Deborah Novelli, Ilaria Russo, Simonetta Andrea Licandro, Lidia Staszewsky, Giulia Benedetta Martinelli, Laura Talamini, Laura Pasetto, Andrea Resovi, Raffaella Giavazzi, Eugenio Scanziani, Giorgia Careccia, Emilie Venereau, Serge Masson, Roberto Latini, Maurizio D'Incalci, Rosanna Piccirillo
Article
Oncology
Federica Guffanti, Maria Francesca Alvisi, Elisa Caiola, Francesca Ricci, Marcella De Maglie, Sabina Soldati, Monica Ganzinelli, Alessandra Decio, Raffaella Giavazzi, Eliana Rulli, Giovanna Damia
Article
Chemistry, Multidisciplinary
Baptiste Gouyou, Jacopo Millul, Alessandra Villa, Samuele Cazzamalli, Dario Neri, Mattia Matasci
Article
Oncology
Emanuele Puca, Caroline Schmitt-Koopmann, Marius Furter, Patrizia Murer, Philipp Probst, Manuel Dihr, Davor Bajic, Dario Neri
JOURNAL OF GASTROINTESTINAL ONCOLOGY
(2020)
Article
Medicine, Research & Experimental
Marco Stringhini, Jacqueline Mock, Vanessa Fontana, Patrizia Murer, Dario Neri
Summary: LIGHT, a member of the tumor necrosis factor superfamily, has shown anti-tumor activity in immunocompetent mice with transgenic LIGHT-expressing tumors. Fusion protein F8-LIGHT, targeting a conserved tumor-associated antigen, exhibited stability and tumor-specific accumulation, effectively reducing tumor-cell growth by expanding natural killer cells rather than CD8+ T cells.
Article
Biochemical Research Methods
Juan L. Trincado, Marina Reixachs-Sole, Judith Perez-Granado, Tim Fugmann, Ferran Sanz, Jun Yokota, Eduardo Eyras, Florian Markowetz, Dmitriy Sonkin, Florian Markowetz, Dmitriy Sonkin, Florian Markowetz, Dmitriy Sonkin, Florian Markowetz, Dmitriy Sonkin
Summary: The study introduces a computational pipeline, ISOTOPE, for the comprehensive identification of tumor-specific splicing-derived epitopes. Results suggest that splicing alterations may impact the production of self-epitopes and generate more candidate neoepitopes than somatic mutations. While there was no difference in the number of splicing-derived neoepitopes between responders and non-responders to immune therapy, higher MHC-I binding affinity was associated with a positive response.
PLOS COMPUTATIONAL BIOLOGY
(2021)