Expert Review of Proteomics最新文献_第8页

A proteome-level view of brain tumors for a better understanding of novel diagnosis, prognosis, and therapy. 脑肿瘤的蛋白质组水平的观点，以更好地了解新的诊断，预后和治疗。

IF 3.4 3区生物学

Expert Review of Proteomics Pub Date : 2023-07-01 Epub Date: 2023-12-30 DOI: 10.1080/14789450.2023.2283498

Medha Gayathri J Pai, Deeptarup Biswas, Ayushi Verma, Sanjeeva Srivastava

{"title":"A proteome-level view of brain tumors for a better understanding of novel diagnosis, prognosis, and therapy.","authors":"Medha Gayathri J Pai, Deeptarup Biswas, Ayushi Verma, Sanjeeva Srivastava","doi":"10.1080/14789450.2023.2283498","DOIUrl":"10.1080/14789450.2023.2283498","url":null,"abstract":"Introduction: Brain tumors are complex and heterogeneous malignancies with significant challenges in diagnosis, prognosis, and therapy. Proteomics, the large-scale study of proteins and their functions, has emerged as a powerful tool to comprehensively investigate the molecular mechanisms underlying brain tumor regulation.Areas covered: This review explores brain tumors from a proteomic standpoint, highlighting recent progress and insights gained through proteomic methods. It delves into the proteomic techniques employed and underscores potential biomarkers for early detection, prognosis, and treatment planning. Recent PubMed Central proteomic studies (2017-present) are discussed, summarizing findings on altered protein expression, post-translational changes, and protein interactions. This sheds light on brain tumor signaling pathways and their significance in innovative therapeutic approaches.Expert opinion: Proteomics offers immense potential for revolutionizing brain tumor diagnosis and therapy. To unlock its full benefits, further translational research is crucial. Combining proteomics with other omics data enhances our grasp of brain tumors. Validating and translating proteomic biomarkers are vital for better patient results. Challenges include tumor complexity, lack of curated proteomic databases, and the need for collaboration between researchers and clinicians. Overcoming these challenges requires investment in technology, data sharing, and translational research.","PeriodicalId":50463,"journal":{"name":"Expert Review of Proteomics","volume":" ","pages":"381-395"},"PeriodicalIF":3.4,"publicationDate":"2023-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"134650412","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Metabolomics in diabetes mellitus: clinical insight. 糖尿病的代谢组学：临床见解。

IF 3.4 3区生物学

Expert Review of Proteomics Pub Date : 2023-07-01 Epub Date: 2023-12-30 DOI: 10.1080/14789450.2023.2295866

Shereen M Aleidi, Hiba Al Fahmawi, Afshan Masoud, Anas Abdel Rahman

{"title":"Metabolomics in diabetes mellitus: clinical insight.","authors":"Shereen M Aleidi, Hiba Al Fahmawi, Afshan Masoud, Anas Abdel Rahman","doi":"10.1080/14789450.2023.2295866","DOIUrl":"10.1080/14789450.2023.2295866","url":null,"abstract":"Introduction: Diabetes Mellitus (DM) is a chronic heterogeneous metabolic disorder characterized by hyperglycemia due to the destruction of insulin-producing pancreatic β cells and/or insulin resistance. It is now considered a global epidemic disease associated with serious threats to a patient's life. Understanding the metabolic pathways involved in disease pathogenesis and progression is important and would improve prevention and management strategies. Metabolomics is an emerging field of research that offers valuable insights into the metabolic perturbation associated with metabolic diseases, including DM.Area covered: Herein, we discussed the metabolomics in type 1 and 2 DM research, including its contribution to understanding disease pathogenesis and identifying potential novel biomarkers clinically useful for disease screening, monitoring, and prognosis. In addition, we highlighted the metabolic changes associated with treatment effects, including insulin and different anti-diabetic medications.Expert opinion: By analyzing the metabolome, the metabolic disturbances involved in T1DM and T2DM can be explored, enhancing our understanding of the disease progression and potentially leading to novel clinical diagnostic and effective new therapeutic approaches. In addition, identifying specific metabolites would be potential clinical biomarkers for predicting the disease and thus preventing and managing hyperglycemia and its complications.","PeriodicalId":50463,"journal":{"name":"Expert Review of Proteomics","volume":" ","pages":"451-467"},"PeriodicalIF":3.4,"publicationDate":"2023-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138812702","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

How can proteomics help solve the lack of biomarkers to aid in the early diagnosis of motor neuron disease (MND)? 蛋白质组学如何帮助解决运动神经元疾病（MND）早期诊断缺乏生物标志物的问题？

IF 3.4 3区生物学

Expert Review of Proteomics Pub Date : 2023-07-01 Epub Date: 2023-07-24 DOI: 10.1080/14789450.2023.2240513

Hannah Jane Suddull, Livia Rosa-Fernandes, Albert Lee

引用次数: 0

Next-generation proteomics technologies in Alzheimer's disease: from clinical research to routine diagnostics. 阿尔茨海默病的下一代蛋白质组学技术：从临床研究到常规诊断。

IF 3.4 3区生物学

Expert Review of Proteomics Pub Date : 2023-07-01 Epub Date: 2023-09-13 DOI: 10.1080/14789450.2023.2255752

Sophia Weiner, Kaj Blennow, Henrik Zetterberg, Johan Gobom

{"title":"Next-generation proteomics technologies in Alzheimer's disease: from clinical research to routine diagnostics.","authors":"Sophia Weiner, Kaj Blennow, Henrik Zetterberg, Johan Gobom","doi":"10.1080/14789450.2023.2255752","DOIUrl":"10.1080/14789450.2023.2255752","url":null,"abstract":"Introduction: Clinical proteomics studies of Alzheimer's disease (AD) research aim to identify biomarkers useful for clinical research, diagnostics, and improve our understanding of the pathological processes involved in the disease. The rapidly increasing performance of proteomics technologies is likely to have great impact on AD research.Areas covered: We review recent proteomics approaches that have advanced the field of clinical AD research. Specifically, we discuss the application of targeted mass spectrometry (MS), labeling-based and label-free MS-based as well as affinity-based proteomics to AD biomarker development, underpinning their importance with the latest impactful clinical studies. We evaluate how proteomics technologies have been adapted to meet current challenges. Finally, we discuss the limitations and potential of proteomics techniques and whether their scope might extend beyond current research-based applications.Expert opinion: To date, proteomics technologies in the AD field have been largely limited to AD biomarker discovery. The recent development of the first successful disease-modifying treatments of AD will further increase the need for blood biomarkers for early, accurate diagnosis, and CSF biomarkers that reflect specific pathological processes. Proteomics has the potential to meet these requirements and to progress into clinical routine practice, provided that current limitations are overcome.","PeriodicalId":50463,"journal":{"name":"Expert Review of Proteomics","volume":" ","pages":"143-150"},"PeriodicalIF":3.4,"publicationDate":"2023-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10278636","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Positional proteomics: is the technology ready to study clinical cohorts? 位置蛋白质组学：这项技术准备好研究临床队列了吗？

IF 3.4 3区生物学

Expert Review of Proteomics Pub Date : 2023-07-01 Epub Date: 2023-12-30 DOI: 10.1080/14789450.2023.2272046

Philipp F Lange, Oliver Schilling, Pitter F Huesgen

{"title":"Positional proteomics: is the technology ready to study clinical cohorts?","authors":"Philipp F Lange, Oliver Schilling, Pitter F Huesgen","doi":"10.1080/14789450.2023.2272046","DOIUrl":"10.1080/14789450.2023.2272046","url":null,"abstract":"Introduction: Positional proteomics provides proteome-wide information on protein termini and their modifications, uniquely enabling unambiguous identification of site-specific, limited proteolysis. Such proteolytic cleavage irreversibly modifies protein sequences resulting in new proteoforms with distinct protease-generated neo-N and C-termini and altered localization and activity. Misregulated proteolysis is implicated in a wide variety of human diseases. Protein termini, therefore, constitute a huge, largely unexplored source of specific analytes that provides a deep view into the functional proteome and a treasure trove for biomarkers.Areas covered: We briefly review principal approaches to define protein termini and discuss recent advances in method development. We further highlight the potential of positional proteomics to identify and trace specific proteoforms, with a focus on proteolytic processes altered in disease. Lastly, we discuss current challenges and potential for applying positional proteomics in biomarker and pre-clinical research.Expert opinion: Recent developments in positional proteomics have provided significant advances in sensitivity and throughput. In-depth analysis of proteolytic processes in clinical cohorts thus appears feasible in the near future. We argue that this will provide insights into the functional state of the proteome and offer new opportunities to utilize proteolytic processes altered or targeted in disease as specific diagnostic, prognostic and companion biomarkers.","PeriodicalId":50463,"journal":{"name":"Expert Review of Proteomics","volume":" ","pages":"309-318"},"PeriodicalIF":3.4,"publicationDate":"2023-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49693534","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Proteomic profiling and network biology of colorectal cancer liver metastasis. 结直肠癌癌症肝转移的蛋白质组学分析和网络生物学。

IF 3.4 3区生物学

Expert Review of Proteomics Pub Date : 2023-07-01 Epub Date: 2023-12-30 DOI: 10.1080/14789450.2023.2275681

Rubén A Bartolomé, J Ignacio Casal

{"title":"Proteomic profiling and network biology of colorectal cancer liver metastasis.","authors":"Rubén A Bartolomé, J Ignacio Casal","doi":"10.1080/14789450.2023.2275681","DOIUrl":"10.1080/14789450.2023.2275681","url":null,"abstract":"Introduction: Tissue-based proteomic studies of colorectal cancer (CRC) metastasis have delivered fragmented results, with very few therapeutic targets and prognostic biomarkers moving beyond the discovery phase. This situation is likely due to the difficulties in obtaining and analyzing large numbers of patient-derived metastatic samples, the own heterogeneity of CRC, and technical limitations in proteomics discovery. As an alternative, metastatic CRC cell lines provide a flexible framework to investigate the underlying mechanisms and network biology of metastasis for target discovery.Areas covered: In this perspective, we comment on different in-depth proteomic studies of metastatic versus non-metastatic CRC cell lines. Identified metastasis-related proteins are introduced and discussed according to the spatial location in different cellular fractions, with special emphasis on membrane/adhesion proteins, secreted proteins, and nuclear factors, including miRNAs associated with liver metastasis. Moreover, we analyze the biological significance and potential therapeutic applications of the identified liver metastasis-related proteins.Expert opinion: The combination of protein discovery and functional analysis is the only way to accelerate the progress to clinical translation of the proteomic-derived findings in a relatively fast pace. Patient-derived organoids represent a promising alternative to patient tissues and cell lines, but further optimizations are still required for achieving solid and reproducible results.","PeriodicalId":50463,"journal":{"name":"Expert Review of Proteomics","volume":" ","pages":"357-370"},"PeriodicalIF":3.4,"publicationDate":"2023-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49693536","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Proteomics in the study of female fertility: an update. 女性生育能力研究中的蛋白质组学：最新进展。

IF 3.4 3区生物学

Expert Review of Proteomics Pub Date : 2023-07-01 Epub Date: 2023-12-30 DOI: 10.1080/14789450.2023.2275683

Vasiliki Kanaka, Petros Drakakis, Dimitrios Loutradis, George Th Tsangaris

{"title":"Proteomics in the study of female fertility: an update.","authors":"Vasiliki Kanaka, Petros Drakakis, Dimitrios Loutradis, George Th Tsangaris","doi":"10.1080/14789450.2023.2275683","DOIUrl":"10.1080/14789450.2023.2275683","url":null,"abstract":"Introduction: Female fertility has been a field of interest for the scientific community throughout the years. The contribution of proteomics in the study of female fertility as well as female infertility and in vitro fertilization (IVF) has been significant. Proteomics is a recently developed field, extensively applied to the identification and quantification of proteins, which could be used as potential biomarkers in a diagnostic, prognostic, or predictive manner in a variety of medical conditions.Areas covered: The present review focuses on proteomic studies of the oocyte and endometrial environment as well as on conditions related to infertility, such as polycystic ovarian syndrome, endometriosis, obesity, and unexplained infertility. Moreover, this review presents studies that have been done in an effort to search for fertility biomarkers in individuals following the IVF procedure.Expert opinion: The comprehension of the molecular pathways behind female fertility and infertility could contribute to the diagnosis, prognosis, and prediction of infertility. Moreover, the identification of proteomic biomarkers for IVF cycles could predict the possible outcome of an IVF cycle, prevent an unsuccessful IVF, and monitor the IVF cycle in a personalized manner, leading to increased success rates. [Figure: see text].","PeriodicalId":50463,"journal":{"name":"Expert Review of Proteomics","volume":" ","pages":"319-330"},"PeriodicalIF":3.4,"publicationDate":"2023-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49693537","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

How to maximize power for differential expression analysis in discovery omics through experimental design. 如何通过实验设计最大化发现组学中差异表达分析的能力。

IF 3.4 3区生物学

Expert Review of Proteomics Pub Date : 2023-07-01 Epub Date: 2023-12-30 DOI: 10.1080/14789450.2023.2287054

Brenden Dufault, Richard D LeDuc, René P Zahedi

引用次数: 0

Recent progress in quantitative phosphoproteomics. 定量磷酸蛋白组学的最新进展。

IF 3.4 3区生物学

Expert Review of Proteomics Pub Date : 2023-07-01 Epub Date: 2023-12-30 DOI: 10.1080/14789450.2023.2295872

Katharina Zittlau, Payal Nashier, Claudia Cavarischia-Rega, Boris Macek, Philipp Spät, Nicolas Nalpas

{"title":"Recent progress in quantitative phosphoproteomics.","authors":"Katharina Zittlau, Payal Nashier, Claudia Cavarischia-Rega, Boris Macek, Philipp Spät, Nicolas Nalpas","doi":"10.1080/14789450.2023.2295872","DOIUrl":"10.1080/14789450.2023.2295872","url":null,"abstract":"Introduction: Protein phosphorylation is a critical post-translational modification involved in the regulation of numerous cellular processes from signal transduction to modulation of enzyme activities. Knowledge of dynamic changes of phosphorylation levels during biological processes, under various treatments or between healthy and disease models is fundamental for understanding the role of each phosphorylation event. Thereby, LC-MS/MS based technologies in combination with quantitative proteomics strategies evolved as a powerful strategy to investigate the function of individual protein phosphorylation events.Areas covered: State-of-the-art labeling techniques including stable isotope and isobaric labeling provide precise and accurate quantification of phosphorylation events. Here, we review the strengths and limitations of recent quantification methods and provide examples based on current studies, how quantitative phosphoproteomics can be further optimized for enhanced analytic depth, dynamic range, site localization, and data integrity. Specifically, reducing the input material demands is key to a broader implementation of quantitative phosphoproteomics, not least for clinical samples.Expert opinion: Despite quantitative phosphoproteomics is one of the most thriving fields in the proteomics world, many challenges still have to be overcome to facilitate even deeper and more comprehensive analyses as required in the current research, especially at single cell levels and in clinical diagnostics.","PeriodicalId":50463,"journal":{"name":"Expert Review of Proteomics","volume":" ","pages":"469-482"},"PeriodicalIF":3.4,"publicationDate":"2023-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138812713","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Analyzing the glial proteome in Alzheimer's disease. 阿尔茨海默病的神经胶质蛋白质组分析。

IF 3.4 3区生物学

Expert Review of Proteomics Pub Date : 2023-07-01 Epub Date: 2023-10-27 DOI: 10.1080/14789450.2023.2260955

Jong-Heon Kim, Ruqayya Afridi, Won-Ha Lee, Kyoungho Suk

{"title":"Analyzing the glial proteome in Alzheimer's disease.","authors":"Jong-Heon Kim, Ruqayya Afridi, Won-Ha Lee, Kyoungho Suk","doi":"10.1080/14789450.2023.2260955","DOIUrl":"10.1080/14789450.2023.2260955","url":null,"abstract":"Introduction: Alzheimer's disease (AD) is a neurodegenerative disorder characterized by progressive cognitive decline, memory loss, and changes in behavior. Accumulating evidence indicates that dysfunction of glial cells, including astrocytes, microglia, and oligodendrocytes, may contribute to the development and progression of AD. Large-scale analysis of glial proteins sheds light on their roles in cellular processes and diseases. In AD, glial proteomics has been utilized to understand glia-based pathophysiology and identify potential biomarkers and therapeutic targets.Area covered: In this review, we provide an updated overview of proteomic analysis of glia in the context of AD. Additionally, we discuss current challenges in the field, involving glial complexity and heterogeneity, and describe some cutting-edge proteomic technologies to address them.Expert opinion: Unbiased comprehensive analysis of glial proteomes aids our understanding of the molecular and cellular mechanisms of AD pathogenesis. These investigations highlight the crucial role of glial cells and provide novel insights into the mechanisms of AD pathology. A deeper understanding of the AD-related glial proteome could offer a repertoire of potential biomarkers and therapeutics. Further technical advancement of glial proteomics will enable us to identify proteins within individual cells and specific cell types, thus significantly enhancing our comprehension of AD pathogenesis.","PeriodicalId":50463,"journal":{"name":"Expert Review of Proteomics","volume":" ","pages":"197-209"},"PeriodicalIF":3.4,"publicationDate":"2023-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10363643","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0