Article
Biochemistry & Molecular Biology
Fieke W. Hoff, Ti'ara L. Griffen, Brandon D. Brown, Terzah M. Horton, Jan Burger, William Wierda, Stefan E. Hubner, Yihua Qiu, Steven M. Kornblau
Summary: DNA damage response (DNADR) recognition and repair (DDR) pathways play a role in carcinogenesis and therapy responsiveness in leukemia. In this study, we analyzed the protein expression levels of 16 DNADR and DDR proteins in acute myeloid leukemia (AML), T-cell acute lymphoblastic leukemia (T-ALL), and chronic lymphocytic leukemia (CLL) cases. Findings showed distinct protein expression clusters across the leukemias, with individual protein expression differing by disease and age. The clusters also had implications for survival and remission duration in both pediatric and adult populations.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemical Research Methods
Rebecca C. Poulos, Zhaoxiang Cai, Phillip J. Robinson, Roger R. Reddel, Qing Zhong
Summary: Proteomic data are valuable for drug response prediction and biomarker discovery due to the direct interaction between most drugs and proteins in target cells. This review highlights the opportunities of combining large-scale proteomic data with drug-related research, focusing on oncology. Successful applications of drug response prediction using molecular data are discussed, along with the technical advances in data-independent acquisition mass spectrometry (DIA-MS) for biomarker discovery. The potential of machine learning in pharmacoproteomics and the challenges of clinical validation are also explored.
Review
Biochemistry & Molecular Biology
Joohyun Ryu, Stefani N. Thomas
Summary: Ovarian cancer is a deadly gynecologic malignancy with the need for new and more effective treatment strategies, while early detection and protein biomarkers play crucial roles. Targeted proteomics methods, including mass spectrometry, offer robust solutions for the development of ovarian cancer biomarkers.
Review
Biochemistry & Molecular Biology
Vittorio Sirolli, Luca Piscitani, Mario Bonomini
Summary: Kidney transplantation is the best treatment option for end-stage renal disease patients and requires careful monitoring of graft function. Routine clinical monitoring has limitations and can only detect graft damage at a later stage. Noninvasive biomarker molecules are needed for continuous monitoring after kidney transplantation to enable early diagnosis of graft dysfunction and improve clinical outcomes. Proteomic technologies have revolutionized medical research and have been studied as potential molecular markers for predicting graft outcomes in kidney transplantation. This article reviews the latest findings on proteomic studies in renal transplantation to better understand the potential of this new diagnostic approach.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemical Research Methods
Terzah M. Horton, Fieke W. Hoff, Anneke van Dijk, Gaye N. Jenkins, Debra Morrison, Teena Bhatla, Laura Hogan, Eleny Romanos-Sirakis, Julia Meyer, William L. Carroll, Yihua Qiu, Tao Wang, Qianxing Mo, Steven M. Kornblau
Summary: Reverse phase protein arrays (RPPA) can accurately assess protein abundance and activation states in a large number of samples, making them ideal for use in multi-institution clinical trials. This study found that most shipped proteins can be accurately assessed using RPPA, with minimal effects from shipping, transit time, and temperature on protein concentration distributions. Managing preanalytical variables effectively could ensure the integrity of protein concentrations in peripheral blood and bone marrow samples in a multi-site clinical trial setting.
JOURNAL OF PROTEOMICS
(2021)
Article
Chemistry, Analytical
Yueting Xiong, Jun Yao, Yongtao Zheng, Fenglin Shen, Huanhuan Zhao, Jia Hu, Bing Leng, Pengyuan Yang, Xiaohui Liu
Summary: Protein biomarkers for intracranial aneurysm (IA) are crucial for early detection and diagnosis, and a comprehensive strategy involving tissue and serum analysis identified candidate biomarkers and established two diagnostic classifiers with high accuracy for IA and its rupture. The results suggest a valuable approach for biomarker discovery and patient stratification in IA.
Review
Microbiology
Ali A. Rabaan, Muhammed A. Bakhrebah, Ranjan K. Mohapatra, Ramadan Abdelmoez Farahat, Manish Dhawan, Sara Alwarthan, Mohammed Aljeldah, Basim R. Al Shammari, Amal H. Al-Najjar, Mona A. Alhusayyen, Ghadeer H. Al-Absi, Yahya Aldawood, Abdulmonem A. Alsaleh, Saleh A. Alshamrani, Souad A. Almuthree, Abdulsalam Alawfi, Amer Alshengeti, Ameen S. S. Alwashmi, Khalid Hajissa, Majed S. Nassar
Summary: Developing potential medications and vaccines to combat leishmaniasis, a challenging zoonotic disease, is crucial. The emergence of omics-based tools has accelerated target discovery and drug development. This review summarizes the current knowledge on the multi-omics approach in drug development against leishmaniasis.
Review
Biochemistry & Molecular Biology
Sarantos Kostidis, Elena Sanchez-Lopez, Martin Giera
Summary: Lipidomics, a new addition to the Omics landscape, is increasingly recognized as a valuable tool for identifying potential drug targets and biochemical markers. This review highlights recent advances in lipid analysis for drug discovery and development, including state-of-the-art technologies that continue to evolve for improved sensitivity and selectivity. The versatility of lipidomics analysis is demonstrated through important examples, and the integration of lipidomics with other Omics technologies, stem cell technologies, and metabolic flux analysis is expected to expand our understanding of pathophysiological mechanisms and lead to the discovery of novel targets and biomarkers.
CURRENT OPINION IN CHEMICAL BIOLOGY
(2023)
Article
Pharmacology & Pharmacy
Heleen Marynissen, Thomas Lodeweyckx, Didier Bielen, Jan de Hoon
Summary: The study found that Doppler ultrasound is a reliable method for measuring flow in the superior mesenteric artery in healthy volunteers, with high correlation between various flow parameters.
BRITISH JOURNAL OF CLINICAL PHARMACOLOGY
(2022)
Article
Rheumatology
Jean Escal, Tiphany Neel, Sophie Hodin, Karima Boussoualim, Adamah Amouzougan, Astrid Coassy, Herve Locrelle, Thierry Thomas, Xavier Delavenne, Hubert Marotte
Summary: This study aimed to identify a biomarker of MTX resistance (MTXR) by comparing differentially expressed blood proteins between patients with active RA and patients in remission after MTX treatment. Untargeted proteomics analysis revealed eight plasma proteins that were differentially expressed between the two groups, with triosephosphate isomerase (TPI-1) and glucose-6-phosphate isomerase (GPI) found down-regulated in the active group. This result was confirmed for TPI-1 in the targeted proteomics analysis.
Review
Pharmacology & Pharmacy
Andrzej Czyrski, Matylda Resztak, Pawel Swiderski, Jan Brylak, Franciszek K. Glowka
Summary: Second generation triazoles are widely used as first-line drugs for the treatment of invasive fungal infections, characterized by a broad range of activity, but individual drugs vary considerably in safety, tolerability, pharmacokinetics profiles, and interactions with concomitant medications. Caution should be exercised when using these drugs, with an understanding of their pharmacokinetics, safety, and drug-drug interactions to ensure effective antifungal therapy. The manuscript reviews significant drug interactions of azoles with other medications, as well as with food, and highlights possible interactions during experimental therapies for the treatment of COVID-19.
Article
Environmental Sciences
Stephanie Chaousis, Frederic D. L. Leusch, Colin J. Limpus, Amanda Nouwens, Liesbeth J. Weijs, Antonia Weltmeyer, Adrian Covaci, Jason P. van de Merwe
Summary: All seven species of sea turtle are facing increasing pressures from human activities that are impacting their health. Changes in blood proteins can indicate adverse health outcomes. This study examines the protein abundance in sea turtle plasma, compares protein expression between different populations, and investigates markers of contaminant exposure.
ENVIRONMENTAL RESEARCH
(2023)
Article
Oncology
A. D. van Dijk, F. W. Hoff, Y. H. Qiu, J. Chandra, E. Jabbour, E. S. J. M. de Bont, T. M. Horton, S. M. Kornblau
Summary: Proteomic profiling of epigenetic modifications in acute leukemia can provide clinical implications, suggesting that epigenetic patterns contribute to a more accurate picture of the leukemic state. A combination of histone methylation marks, cytogenetic aberrations, and mutations may offer more accurate outcome prediction and treatment stratification in selected subgroups. Histone methylation mark measurement at time of diagnosis might be a suitable method to improve patient outcome prediction.
CLINICAL EPIGENETICS
(2021)
Review
Oncology
Jitendra Gupta, Hussein Riyadh Abdul Kareem Al-Hetty, Murtadha Sh. Aswood, Abduladheem Turki Jalil, Maha Dhurgham Azeez, Zafar Aminov, Fahad Alsaikhan, Andres Alexis Ramirez-Coronel, Pushpamala Ramaiah, Bagher Farhood
Summary: Cancer is caused by defects in coding and non-coding RNAs. Duplicated biological pathways diminish the effectiveness of mono target cancer drugs. MiR-766 plays a crucial role in physiological processes and is overexpressed in diseases such as malignant tumors. It promotes therapeutic resistance pathways and has potential applications as a therapeutic target, diagnostic biomarker, and prognostic indicator in cancer treatment.
FRONTIERS IN ONCOLOGY
(2023)
Article
Medicine, General & Internal
Pamela Kell, Rohini Sidhu, Mingxing Qian, Sonali Mishra, Elena-Raluca Nicoli, Precilla D'Souza, Cynthia J. Tifft, Amanda L. Gross, Heather L. Gray-Edwards, Douglas R. Martin, Miguel Sena-Esteves, Dennis J. Dietzen, Manmilan Singh, Jingqin Luo, Jean E. Schaffer, Daniel S. Ory, Xuntian Jiang
Summary: Two pentasaccharide biomarkers, H3N2a and H3N2b, were identified to be elevated in plasma, cerebrospinal fluid (CSF), and urine of GM1 gangliosidosis patients. After AAV gene therapy, reduction of H3N2b was observed in samples from both animal models and patients, indicating the normalization of neuropathology and clinical improvement.