☆ 4.1 Review

Clinical applications of plasma proteomics and peptidomics: Towards precision medicine

PROTEOMICS CLINICAL APPLICATIONS (2022)

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Article Biochemical Research Methods

The status of proteomics as we enter the 2020s: Towards personalised/precision medicine

Edouard C. Nice

Summary: The field of proteomics has made significant progress in the past decade, with the development of a comprehensive toolbox and the integration of proteomics with other omics platforms. These advancements have provided important insights into the molecular changes leading to diseases and have the potential to identify biomarkers and drug targets. The translation of discovery-based findings to clinical applications has also supported the implementation of precision/personalized medicine. However, challenges in Big Data analysis still need to be addressed.

ANALYTICAL BIOCHEMISTRY (2022)

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Article Engineering, Environmental

Electrochemical sensors for the detection of SARS-CoV-2 virus

Neeraj Kumar et al.

Summary: This review covers various methods for detecting COVID-19, including rapid antigen tests, RT-PCR, and electrochemical sensors, focusing on the development and application of electrochemical sensors for rapid monitoring and detection of SARS-CoV-2. It also compares and assesses their detection limits, sensitivities, and specificities for the identification and monitoring of COVID-19.

CHEMICAL ENGINEERING JOURNAL (2022)

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Article Medicine, Research & Experimental

Inhibition of NPC1L1 disrupts adaptive responses of drug-tolerant persister cells to chemotherapy

Zhe Zhang et al.

Summary: The study identified a drug-tolerant persister (DTP) state in multidrug-resistant (MDR) cancer cells as a tolerance response to combination treatment, partially preventing chemotherapy-induced oxidative stress by promoting vitamin E uptake. The NRF2 transcriptionally regulated NPC1L1 by binding to its promoter, and decreased DNA methylation was also related to this process. Triple-combination therapy with chemotherapeutic agents, verapamil, and ezetimibe demonstrated significant anti-tumor effects and prevented tumor recurrence in mice.

EMBO MOLECULAR MEDICINE (2022)

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Review Biochemical Research Methods

Insights and prospects for ion mobility-mass spectrometry in clinical chemistry

David C. Koomen et al.

Summary: Ion mobility-mass spectrometry has many prospects in the field of isomer identification, molecular imaging, and intraoperative tumor margin delineation in clinical settings. These advantages are maintained while providing fast analysis times and high throughput. High resolving power ion mobility will enhance these advantages further, particularly for analyses requiring high confidence isobaric selectivity and detection.

EXPERT REVIEW OF PROTEOMICS (2022)

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Article Public, Environmental & Occupational Health

Circulating proteins and risk of pancreatic cancer: a case-subcohort study among Chinese adults

Christiana Kartsonaki et al.

Summary: Several plasma proteins were found to be associated with the risk of subsequent diagnosis of pancreatic cancer, potentially serving as biomarkers for early detection and prediction. While there was only a small increase in discrimination for long-term risk, the clinical utility of these proteins warrants further investigation.

INTERNATIONAL JOURNAL OF EPIDEMIOLOGY (2022)

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Article Infectious Diseases

Interpretations of SARS-CoV-2 IgM and IgG antibody titers in the seroepidemiological study of asymptomatic healthy volunteers*

Akihisa Mitani et al.

Summary: This study investigated the significance of IgM and IgG antibody titers against SARSCoV-2 in the serum of asymptomatic healthy subjects. The results suggest that the interpretation of YHLO IgM and IgG results in asymptomatic individuals should be cautious, and the combined use of YHLO IgG and Roche total Ig might be more reliable.

JOURNAL OF INFECTION AND CHEMOTHERAPY (2022)

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Article Cell Biology

Proteomic and metabolomic profiling of urine uncovers immune responses in patients with COVID-19

Xiaojie Bi et al.

Summary: This study analyzes the urinary and serum proteome and metabolome of COVID-19 patients and healthy controls. It finds that urinary proteins can effectively classify COVID-19 severity and identifies correlations between urinary proteins and active SARS-CoV-2 replication, as well as blood lymphocyte counts in severe cases. The study suggests that COVID-19 triggers innate immune activation and inflammation that lead to renal injuries. The modulation of the urinary proteome provides unique insights into the pathogenesis of COVID-19.

CELL REPORTS (2022)

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Article Engineering, Biomedical

Exosomes: Small vesicles with big roles in cancer, vaccine development, and therapeutics

Abhimanyu Thakur et al.

Summary: Exosomes are tiny extracellular vesicles that carry various components, such as proteins, lipids, and nucleic acids, and play a crucial role in the malignant progression of cancer. Due to their ability to transport drugs and molecular information, exosomes have been considered as a novel tool for cancer therapeutics.

BIOACTIVE MATERIALS (2022)

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Review Pharmacology & Pharmacy

Immune Checkpoint Inhibitors in the Treatment of Cancer

Wissam Zam et al.

Summary: Immune checkpoint inhibitors (ICIs) are drugs that work by blocking checkpoint proteins. CTLA-4 and PD-1 are the two main targeted pathways in clinical practice. This review provides an updated comprehensive analysis of the use of ICIs in various types of cancer, highlighting their efficacy and adverse effects.

CURRENT REVIEWS IN CLINICAL AND EXPERIMENTAL PHARMACOLOGY (2022)

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Review Medicine, Research & Experimental

Redox signaling at the crossroads of human health and disease

Jing Zuo et al.

Summary: Redox biology is crucial in life sciences, as redox processes are closely associated with biological activities. Redox homeostasis is essential for human health, where nonradical reactive oxygen species (ROS) function as key second messengers in modulating physiological redox signaling. However, excessive ROS accumulation, termed oxidative stress (OS), leads to biomolecule damage and the development of various diseases. Understanding the roles of redox signaling networks under physiological and pathological conditions is important for the development of redox medicine and treatment of redox-relevant diseases.

MEDCOMM (2022)

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Review Biotechnology & Applied Microbiology

Mass Spectrometry-Based Proteomics Research to Fight COVID-19: An Expert Review on Hopes and Challenges

Nasrin Amiri-Dashatan et al.

Summary: This expert review critically analyzes the prospects and challenges of mass spectrometry-based proteomics approaches in COVID-19 research, discussing how proteomics can aid in the diagnosis and treatment of SARS-CoV-2 infection as well as the potential challenges for global health systems and services.

OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY (2022)

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Article Biophysics

COVID-19 diagnosis - A review of current methods

Meral Yuce et al.

Summary: A fast and accurate self-testing tool for COVID-19 diagnosis is crucial for understanding the global situation and taking appropriate actions. The diagnosis tools available mainly rely on viral gene detection, human antibody detection, and viral antigen detection, with RT-PCR being the most reliable technique.

BIOSENSORS & BIOELECTRONICS (2021)

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Article Biochemical Research Methods

Proteomic Approaches to Study SARS-CoV-2 Biology and COVID-19 Pathology

Paige Haas et al.

Summary: The article discusses how proteomic research can investigate four key areas of SARS-CoV-2 biology through technologies, including solving structural issues through mass spectrometry, identifying virus-host protein-protein interactions, analyzing changes in signaling pathways during infection, and using proteomic technologies for biomarker identification and drug development.

JOURNAL OF PROTEOME RESEARCH (2021)

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Article Biochemical Research Methods

Multiplatform Approach for Plasma Proteomics: Complementarity of Olink Proximity Extension Assay Technology to Mass Spectrometry-Based Protein Profiling

Agnese Petrera et al.

Summary: The plasma proteome is a valuable resource for biomarker discovery, and can be analyzed using tools like LC-MS/MS and PEA. By combining different platforms, researchers can gain deeper insights into the complexity of the plasma proteome and discover changes in pathophysiological status. This approach shows promise for future biomarker and mechanistic studies.

JOURNAL OF PROTEOME RESEARCH (2021)

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Review Medicine, Research & Experimental

COVID-19 Transmission, Current Treatment, and Future Therapeutic Strategies

Vrishali S. Salian et al.

Summary: COVID-19, a zoonotic disease discovered in Wuhan, China in 2020, shares similarities with other zoonotic diseases like SARS and MERS. Understanding the transmission and host invasion mechanisms of the virus has provided opportunities for treating COVID-19 patients.

MOLECULAR PHARMACEUTICS (2021)

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Review Pharmacology & Pharmacy

COVID-19 vaccines: The status and perspectives in delivery points of view

Jee Young Chung et al.

Summary: The COVID-19 pandemic, caused by SARS-CoV-2, has highlighted the urgent need for efficient and safe vaccines to prevent the spread of the virus and restore social and economic activities through mass immunization. Various vaccine candidates and alternative therapies are under development to combat the challenges presented by the disease.

ADVANCED DRUG DELIVERY REVIEWS (2021)

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Review Oncology

Exosome-based liquid biopsies in cancer: opportunities and challenges

W. Yu et al.

Summary: Liquid biopsy in cancer research has seen significant progress, with efforts focused on utilizing circulating tumor cells, circulating tumor DNA, and extracellular vesicles like exosomes. Exosomes, as part of the intercellular communication system, carry tumor-derived materials and can serve as stable biomarkers for early detection and monitoring of cancer.

ANNALS OF ONCOLOGY (2021)

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Review Biochemical Research Methods

Advances and Utility of the Human Plasma Proteome

Eric W. Deutsch et al.

Summary: The study of proteins circulating in blood presents significant opportunities for diagnosing, stratifying, or preventing diseases. Recent technological advancements have made the proteomic analysis of blood-derived serum and plasma increasingly important in understanding human biology and pathophysiology. By utilizing mass-spectrometry (MS) or affinity-based methods, valuable insights into SARS-CoV-2 infections, aging, and hemostasis have been gained, along with the potential to combine proteomics with genetic data for further insights. The ongoing challenges include translating plasma proteomics into precision medicine, with recent advances in the field providing impactful applications.

JOURNAL OF PROTEOME RESEARCH (2021)

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Article Biochemical Research Methods

Progress Identifying and Analyzing the Human Proteome: 2021 Metrics from the HUPO Human Proteome Project

Gilbert S. Omenn et al.

Summary: The 2021 Metrics of the HUPO Human Proteome Project (HPP) reveal significant progress in detecting protein expression in the human genome. The number of missing proteins has decreased, and the utilization of proteomics in biological and clinical research continues to expand and integrate effectively with other omics platforms. This represents a promising advancement in understanding the human proteome and its potential applications in healthcare.

JOURNAL OF PROTEOME RESEARCH (2021)

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Article Oncology

Global cancer statistics 2020: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries

Hyuna Sung et al.

Summary: The global cancer burden in 2020 saw an estimated 19.3 million new cancer cases and almost 10.0 million cancer deaths. Female breast cancer surpassed lung cancer as the most commonly diagnosed cancer, while lung cancer remained the leading cause of cancer death. These trends are expected to rise in 2040, with transitioning countries experiencing a larger increase compared to transitioned countries due to demographic changes and risk factors associated with globalization and a growing economy. Efforts to improve cancer prevention measures and provision of cancer care in transitioning countries will be crucial for global cancer control.

CA-A CANCER JOURNAL FOR CLINICIANS (2021)

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Review Biochemistry & Molecular Biology

Immuno-Metabolism: The Role of Cancer Niche in Immune Checkpoint Inhibitor Resistance

Chao-Yuan Weng et al.

Summary: The use of immune checkpoint inhibitors has revolutionized cancer treatment by reactivating immune responses, but only a subset of patients benefit while others remain unresponsive or develop resistance. Metabolic machinery in the tumor microenvironment plays a role in the development of ICI resistance, suggesting that targeting metabolic pathways of immune cells may strengthen the efficacy of ICIs.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2021)

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Article Virology

Plasma Proteome Fingerprints Reveal Distinctiveness and Clinical Outcome of SARS-CoV-2 Infection

Wolfgang Bauer et al.

Summary: By analyzing plasma samples, specific proteins associated with SARS-CoV-2 infection and subsequent hospitalization were identified, along with markers predictive of death. These protein markers may be valuable in guiding clinical management decisions.

VIRUSES-BASEL (2021)

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Editorial Material Oncology

Plasma Proteins and Cancer

Stefan Enroth

CANCERS (2021)

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Article Cell Biology

Proteomic profile of melanoma cell-derived small extracellular vesicles in patients' plasma: a potential correlate of melanoma progression

Monika Pietrowska et al.

Summary: This study demonstrates that molecular profiling of sEV isolated from plasma of cancer patients can distinguish tumor-derived sEV from non-malignant cell-derived sEV and identify potential prognostic biomarkers for melanoma.

JOURNAL OF EXTRACELLULAR VESICLES (2021)

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Review Neurosciences

Exosomes as Emerging Biomarker Tools in Neurodegenerative and Neuropsychiatric Disorders-A Proteomics Perspective

Boby Mathew et al.

Summary: Exosomes are synthesized by various cell types, containing proteins, lipids, metabolites, and RNA that can serve as disease biomarkers. Challenges in isolating exosomes stem from their diverse shapes and variable tissue origins, while analytical techniques for protein detection may struggle with low protein quantities. Despite these obstacles, advancements in proteomics are enhancing exosome research for disease-associated protein biomarkers.

BRAIN SCIENCES (2021)

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Review Health Care Sciences & Services

Precision Medicine and Public Health: New Challenges for Effective and Sustainable Health

Deborah Traversi et al.

Summary: The development of high-throughput omics technologies presents a valuable opportunity for evidence-based prevention of adverse health effects, although accessibility to multi-omics tests remains limited in Italy. The emerging field of public health genomics, including polygenic scores, epigenetic modulation, nutrigenomics, and microbiomes implications, has significant implications for disease prevention. The implementation of omics tools at a national level could lead to significant population health gains, especially if effectiveness is assessed in the medium to long term.

JOURNAL OF PERSONALIZED MEDICINE (2021)

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Article Oncology

Cancer statistics for the year 2020: An overview

Jacques Ferlay et al.

Summary: The study briefly reviews the methods and data sources used in compiling the IARC GLOBOCAN cancer statistics for 2020 and summarizes the main results. It estimated that there were nearly 19.3 million new cancer cases and almost 10 million cancer deaths worldwide in 2020, with the most commonly diagnosed cancers being female breast cancer and lung cancer, and the most common causes of cancer death being lung cancer and liver cancer.

INTERNATIONAL JOURNAL OF CANCER (2021)

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Review Biochemistry & Molecular Biology

The Urokinase Receptor: A Multifunctional Receptor in Cancer Cell Biology. Therapeutic Implications

Anna Li Santi et al.

Summary: Proteolysis is crucial in biological processes, but must be tightly controlled to prevent adverse effects. The plasminogen activation (PA) system plays a key role in cancer, with uPAR involved in cancer cell biology.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2021)

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Review Oncology

Current Technologies for RNA-Directed Liquid Diagnostics

Maria Victoria Martinez-Dominguez et al.

Summary: The rapid development of methods for isolating, characterizing, and validating nucleic acids in blood has led to the exploration of miRNAs as promising biomarkers for detecting solid tumors in cancer patients' body fluids. This review provides an overview of current techniques for isolating and quantifying circulating free and exosomal miRNAs, along with discussing the clinical relevance and market value of RNA-based liquid biopsy in the field of precision medicine. Despite the potential of liquid nucleic acid-based diagnostics, existing controversies and societal awareness during the COVID-19 pandemic have raised concerns about their readiness for routine use, particularly in oncology. This review benchmarks the technical background, applicability, readiness level, economic aspects, and potential for future success in the biotechnology investment sector, providing a valuable reference for readers interested in the rapidly developing field of precision medicine.

CANCERS (2021)

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Review Oncology

Long Non-Coding RNA (lncRNA) in Oral Squamous Cell Carcinoma: Biological Function and Clinical Application

Jianfei Tang et al.

Summary: Oral squamous cell carcinoma (OSCC) is a highly lethal malignancy worldwide, with long non-coding RNAs (lncRNAs) playing crucial regulatory roles in OSCC by influencing tumor initiation and progression. This review discusses the functions, molecular mechanisms, and interactions with the tumor microenvironment of lncRNAs in OSCC, highlighting their potential as diagnostic, prognostic, and therapeutic targets. Furthermore, it explores lncRNA-targeted therapeutic techniques such as CRISPR-Cas9 and immune checkpoint therapies to target lncRNAs and the PD-1/PD-L1 axis, presenting future perspectives in OSCC therapy that require further research for clinical applications.

CANCERS (2021)

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Article Oncology

Identification of Potential Prognostic and Predictive Immunological Biomarkers in Patients with Stage I and Stage III Non-Small Cell Lung Cancer (NSCLC): A Prospective Exploratory Study

Rianne D. W. Vaes et al.

Summary: The study aimed to identify immunogenic proteins correlated with progression-free survival in NSCLC patients, providing a starting point for future immune profiling analyses in clinical trials.

CANCERS (2021)

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Review Cell Biology

The Emerging Role of Exosomes in Cancer Chemoresistance

Jing Li et al.

Summary: Exosomes play critical roles in promoting chemoresistance in cancer through various mechanisms. Due to their stability, specificity, and sensitivity, exosomes can serve as biomarkers in liquid biopsies to monitor the current status and progression of cancer chemoresistance.

FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY (2021)

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Review Biochemistry & Molecular Biology

Discovery, Optimization, and Clinical Application of Natural Antimicrobial Peptides

Armando A. Rodriguez et al.

Summary: Antimicrobial peptides (AMPs) are structurally diverse molecules produced by multicellular organisms as a first line of defense against pathogens. AMPs, also known as host defense peptides in higher eukaryotic organisms, display immunomodulatory and anticancer activities. Challenges such as proteolytic digestion and cytotoxicity have prompted the development of strategies to improve the properties of AMPs for effective therapeutic use.

BIOMEDICINES (2021)

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Article Biology

Proteomic Profiling of Plasma-Derived Biomarkers in Patients with Bladder Cancer: A Step towards Clinical Translation

Taoufik Nedjadi et al.

Summary: Bladder cancer is a life-threatening disease with challenges in clinical management associated with recurrence and disease progression. This study identified potential non-invasive plasma-derived biomarker proteins for early detection of the muscle-invasive phenotype, with apolipoprotein A1 showing high specificity and sensitivity. Ingenuity pathway analysis revealed IFN-gamma and TNF-alpha as main signaling hubs for the differentially regulated proteins.

LIFE-BASEL (2021)

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Review Cell Biology

Advances in Aptamer-Based Biomarker Discovery

Jie Huang et al.

Summary: The discovery and identification of biomarkers are crucial for the advancement of medical diagnosis and therapeutics. Aptamers, as a potential technology for biomarker discovery, offer many advantages such as flexible design and easy synthesis, and have been successfully applied in CELL-SELEX and SOMAScan technologies.

FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY (2021)

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Review Biology

Extracellular Vesicles as Biomarkers and Therapeutic Tools: From Pre-Clinical to Clinical Applications

Maria Chiara Ciferri et al.

Summary: Extracellular vesicles (EVs) are membrane-bound vesicles released by all cell types, playing a crucial role in intercellular communication and serving as biomarkers for various diseases. EVs isolated from stem/progenitor cells exhibit innate immunosuppressive and anti-inflammatory properties, making them potential vehicles for drug delivery.

BIOLOGY-BASEL (2021)

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Article Oncology

Plasma proteomics identifies leukemia inhibitory factor (LIF) as a novel predictive biomarker of immune-checkpoint blockade resistance

Y. Loriot et al.

Summary: This study analyzed the proteome of cancer patients treated with ICB and found that elevated baseline levels of leukemia inhibitory factor (LIF) were associated with poor clinical outcomes. The study also revealed that the circulating level of LIF was inversely correlated with tertiary lymphoid structures in the tumor microenvironment. Targeting LIF or its pathway may represent a promising approach to improve efficacy of cancer immunotherapy in combination with ICB.

ANNALS OF ONCOLOGY (2021)

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Article Oncology

Intermittent fasting in the prevention and treatment of cancer

Katherine K. Clifton et al.

Summary: Intermittent fasting (IF) has gained popularity as a potential anticarcinogenic strategy, but its effects on cancer patients remain unclear without high-quality randomized clinical trials. More research is needed to determine the risks and benefits of IF for cancer patients before it can be recommended outside of clinical trials.

CA-A CANCER JOURNAL FOR CLINICIANS (2021)

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Article Medicine, Research & Experimental

High-resolution serum proteome trajectories in COVID-19 reveal patient-specific seroconversion

Philipp E. Geyer et al.

Summary: The study utilized proteomics to analyze serum proteomes of COVID-19 patients and controls, finding significant changes in 26% of proteins in COVID-19 patients, including proteins related to the immune system and coagulation mechanisms. The research also revealed correlations between SARS-CoV-2 antibodies and immunoglobulin regions through mass spectrometry-based proteomics, showing potential pathophysiological relevance.

EMBO MOLECULAR MEDICINE (2021)

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Editorial Material Medicine, Research & Experimental

Individual COVID-19 disease trajectories revealed by plasma proteomics

Danish Memon et al.

Summary: The COVID-19 pandemic has spurred an unprecedented surge in global scientific and medical research efforts. A recent study analyzed proteomes from COVID-19 patients, providing a comprehensive characterization of plasma proteome changes during infection.

EMBO MOLECULAR MEDICINE (2021)

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Review Biochemical Research Methods

Peptidomics and proteogenomics: background, challenges and future needs

Rui Vitorino et al.

Summary: With the availability of genomic data and advancements in high-throughput sequencing technologies, peptidomics and proteogenomics have become important tools for studying peptides and proteins associated with gene mutations or genome remodeling. This article provides an overview of techniques for analyzing peptidomics and proteogenomics, as well as bioinformatics workflows for understanding differentially expressed peptides/proteins in disease pathogenesis. Additionally, it highlights the role of these technologies in deciphering disease pathways, cancer research, and biomarker discovery using biofluids, while discussing the challenges and future requirements for their clinical use.

EXPERT REVIEW OF PROTEOMICS (2021)

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Article Biochemical Research Methods

Mass Spectrometric Analysis of Urine from COVID-19 Patients for Detection of SARS-CoV-2 Viral Antigen and to Study Host Response

Sandip Chavan et al.

Summary: This study utilized mass spectrometry to detect SARS-CoV-2 nucleocapsid protein directly from urine of COVID-19 patients, revealing decreased levels of renal proteins associated with normal kidney function in the urine of COVID-19 patients. These findings provide insights into the pathogenesis of COVID-19.

JOURNAL OF PROTEOME RESEARCH (2021)

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Review Biochemical Research Methods

Discovery Proteomics for COVID-19: Where We Are Now

Angela McArdle et al.

Summary: The study summarizes proteomic research on hallmark proteins associated with COVID-19, as well as the highly variable humoral response and increased risk of autoimmunity in the disease.

JOURNAL OF PROTEOME RESEARCH (2021)

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Review Biochemical Research Methods

Peptidomics: A Review of Clinical Applications and Methodologies

Rachel E. Foreman et al.

Summary: Improvements in LC and MS instrumentation have enhanced proteomic and metabolomic analysis, but there has been less focus on detecting and quantifying small bioactive peptides. It is important to preserve the structure of processed peptide products to prevent misidentification and consider the stability of peptides in biological matrices when developing methods to study them. Bioinformatic analysis of peptidomics data sets should include specific post-translational modifications critical for the function of bioactive peptides.

JOURNAL OF PROTEOME RESEARCH (2021)

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Review Biochemical Research Methods

Blood-based protein biomarkers in bladder urothelial tumors

Ruben Lopez-Cortes et al.

Summary: Bladder cancer is classified into non-muscle invasive and muscle invasive types, with the former having a better prognosis but a risk of recurrence and progression to the latter. Diagnosis is typically confirmed through cystoscopy and transurethral resection of the bladder. Urine cytology, although the mainstay of bladder cancer diagnosis, has limitations, prompting the search for more sensitive biomarkers.

JOURNAL OF PROTEOMICS (2021)

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Article Biochemistry & Molecular Biology

Artificial intelligence for proteomics and biomarker discovery

Matthias Mann et al.

Summary: The rapid growth of biomedical data generation and computational capabilities has led to advancements in utilizing machine learning and deep learning in proteomics for predictive modeling and biomarker discovery. These technologies are essential for improving analytical workflows and integrating multi-omics data, while also raising concerns about model transparency, explainability, and data privacy when deploying MS-based biomarkers in clinical settings.

CELL SYSTEMS (2021)

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Review Oncology

Proteomics, Personalized Medicine and Cancer

Miao Su et al.

Summary: Cancer is a major global public health issue and personalized/precision medicine plays a crucial role in its diagnosis and treatment. Research focuses on cancer biomarkers, the impact of the microbiome, the application of emerging omics technologies, and future prospects.

CANCERS (2021)

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Article Medicine, Research & Experimental

Multi-omic profiling of plasma reveals molecular alterations in children with COVID-19

Chong Wang et al.

Summary: The study identified specific alterations in plasma proteomic and metabolomic profiles of children with COVID-19, showing a distinct molecular response compared to adults. This suggests potential differences in pathogenesis and immune response mechanisms between children and adults.

THERANOSTICS (2021)

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Article Medicine, General & Internal

A urinary peptidomic profile predicts outcome in SARS-CoV-2-infected patients

Ralph Wendt et al.

Summary: This study demonstrates that urinary proteomic profiling can provide biomarkers indicating adverse outcomes of COVID-19, even at early stages of the disease. Evaluation of COV50 showed predictive capabilities for death and worsening WHO scores, validated in the validation cohort.

ECLINICALMEDICINE (2021)

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Review Chemistry, Multidisciplinary

Nano-Bio Interactions in Cancer: From Therapeutics Delivery to Early Detection

Yuan Liu et al.

Summary: Understanding the interactions between nanomaterials and biological systems is crucial for improving the efficacy of nanomedicine and advancing disease diagnosis. The nanoparticle-protein corona has a decisive effect on the in vivo fate of nanomedicine and can be used to enrich low-abundance proteins for biomarker discovery.

ACCOUNTS OF CHEMICAL RESEARCH (2021)

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Article Health Care Sciences & Services

Improving the Understanding of the Immunopathogenesis of Lymphopenia as a Correlate of SARS-CoV-2 Infection Risk and Disease Progression in African Patients: Protocol for a Cross-sectional Study

Bamidele Abiodun Iwalokun et al.

Summary: This study aims to investigate the immunopathogenesis of lymphopenia among African people infected with SARS-CoV-2 by exploring the role of vitamin D status, vasculopathy, apoptotic pathways, and VDR gene polymorphisms. Data analyses will be conducted to validate the associations and potentially discover new biomarkers.

JMIR RESEARCH PROTOCOLS (2021)

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Article Gastroenterology & Hepatology

SOMAscan Proteomics Identifies Serum Biomarkers Associated With Liver Fibrosis in Patients With NASH

Yi Luo et al.

Summary: NASH is a major cause of liver-related morbidity and mortality, with liver fibrosis stage linked to mortality risk. Current noninvasive diagnostics are unable to differentiate fibrosis stages in NASH patients, highlighting the need for noninvasive biomarkers to identify high-risk individuals. An exploratory classifier based on proteomics showed promising results in distinguishing advanced fibrosis in NASH patients, performing similarly or better than other existing models.

HEPATOLOGY COMMUNICATIONS (2021)

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Review Oncology

Extracellular Vesicles in Cancer Detection: Hopes and Hypes

Tony Hu et al.

Summary: Early cancer diagnosis is crucial for improving patient survival rates, but current imaging tests have limitations. Liquid biopsies have the potential to overcome these limitations, but face challenges in clinical applications.

TRENDS IN CANCER (2021)

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Review Biochemical Research Methods

Proteomics-Based Insights Into the SARS-CoV-2-Mediated COVID-19 Pandemic: A Review of the First Year of Research

Jeremy L. Praissman et al.

Summary: The outbreak of the coronavirus in 2019 led to a rapid and robust response from the global scientific and medical communities, resulting in a large number of published studies. Proteomic research provides quantitative information on the course of viral infection, identifies sites and microheterogeneity of post-translational modifications, and reveals protein-protein interactions.

MOLECULAR & CELLULAR PROTEOMICS (2021)

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Article Medical Laboratory Technology

Plasma proteomics-based identification of novel biomarkers in early gastric cancer

Bin Zhou et al.

CLINICAL BIOCHEMISTRY (2020)

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Article Biochemistry & Molecular Biology

Exosomes: New insights into cancer mechanisms

Reza Sahebi et al.

JOURNAL OF CELLULAR BIOCHEMISTRY (2020)

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Article Oncology

Proteins in stool as biomarkers for non-invasive detection of colorectal adenomas with high risk of progression

Malgorzata A. Komor et al.

JOURNAL OF PATHOLOGY (2020)

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Review Ophthalmology

Spatiotemporal changes in the human lens proteome: Critical insights into long-lived proteins

Kevin L. Schey et al.

PROGRESS IN RETINAL AND EYE RESEARCH (2020)

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Review Oncology

Liquid biopsy in ovarian cancer using circulating tumor DNA and cells: Ready for prime time?

Du-Bois Asante et al.

CANCER LETTERS (2020)

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Article Oncology

Multiplex quantitation of 270 plasma protein markers to identify a signature for early detection of colorectal cancer

Megha Bhardwaj et al.

EUROPEAN JOURNAL OF CANCER (2020)

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Review Biochemistry & Molecular Biology

Urinary Peptidomic Biomarkers in Kidney Diseases

Vittorio Sirolli et al.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2020)

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Article Biochemistry & Molecular Biology

Genetic Variants Detected Using Cell-Free DNA from Blood and Tumor Samples in Patients with Inflammatory Breast Cancer

Jennifer S. Winn et al.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2020)

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Review Computer Science, Information Systems

A tutorial on calibration measurements and calibration models for clinical prediction models

Yingxiang Huang et al.

JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION (2020)

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Review Cell Biology

Phenotypic analysis of extracellular vesicles: a review on the applications of fluorescence

Maria S. Panagopoulou et al.

JOURNAL OF EXTRACELLULAR VESICLES (2020)

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Mass Spectrometry-Based Plasma Proteomics: Considerations from Sample Collection to Achieving Translational Data

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Digging Deep into Peptidomics Applied to Body Fluids

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Alterations of the Plasma Peptidome Profiling in Colorectal Cancer Progression

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Proteomics analysis of vesicles isolated from plasma and urine of prostate cancer patients using a multiplex, aptamer-based protein array

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Peptidomics of Urine and Other Biofluids for Cancer Diagnostics

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Immunoproteomics Using Polyclonal Antibodies and Stable Isotope-labeled Affinity-purified Recombinant Proteins

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Application of Proteomics and Peptidomics to COPD

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Exosome in Tumour Microenvironment: Overview of the Crosstalk between Normal and Cancer Cells

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Fetal Urinary Peptides to Predict Postnatal Outcome of Renal Disease in Fetuses with Posterior Urethral Valves (PUV)

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Advances in human proteomics at high scale with the SOMAscan proteomics platform

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Solid-phase hexapeptide ligand libraries open up new perspectives in the discovery of biomarkers in human plasma

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Use of multiple reaction monitoring for multiplex analysis of colorectal cancer-associated proteins in human feces

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New Approaches for Biomarker Discovery: The Search for Liver Fibrosis Markers in Hepatitis C Patients

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Baseline Plasma Proteomic Analysis to Identify Biomarkers that Predict Radiation-Induced Lung Toxicity in Patients Receiving Radiation for Non-small Cell Lung Cancer

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MASS SPECTROMETRY OF PEPTIDES AND PROTEINS FROM HUMAN BLOOD

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MASS SPECTROMETRY REVIEWS (2011)

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Clinical Usefulness of CEA, CA19-9, and CYFRA 21-1 as Tumor Markers for Urothelial Bladder Carcinoma

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Nutrigenomics and Personalized Diets: What Will They Mean for Food?

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ANNUAL REVIEW OF FOOD SCIENCE AND TECHNOLOGY, VOL 2 (2011)

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The Clinical Plasma Proteome: A Survey of Clinical Assays for Proteins in Plasma and Serum

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