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In silico Proteome-wide Amino aCid and Elemental Composition (PACE) Analysis of Expression Proteomics Data Provides A Fingerprint of Dominant Metabolic Processes

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Genomics, Proteomics & Bioinformatics 2013年第4期11卷 219-229页

作者： David M. Good Anwer Mamdoh Harshavardhan Budamgunta Roman A. Zubarev Division of Physiological Chemistry I Department of Medical Biochemistry and Biophysics Karolinska InstituteSE17177 Stockholm Sweden Science for Life Laboratory SE17121 Solna Sweden

Proteome-wide Amino aCid and Elemental composition （PACE） analysis is a novel and informative way of interrogating the proteome. The PACE approach consists of in silico decompo- sition of proteins detected and quantified in a proteomics experiment into 20 amino acids and five elements （C, H, N, O and S）, with protein abundances converted to relative abundances of amino acids and elements. The method is robust and very sensitive; it provides statistically reliable differ- entiation between very similar proteomes. In addition, PACE provides novel insights into prote- ome-wide metabolic processes, occurring, e.g., during cell starvation. For instance, both Escherichia coli and Synechocystis down-regulate sulfur-rich proteins upon sulfur deprivation, but E. coli preferentially down-regulates cysteine-rich proteins while Synechocystis mainly down- regulates methionine-rich proteins. Due to its relative simplicity, flexibility, generality and wide applicability, PACE analysis has the potential of becoming a standard analytical tool in proteomics.

关键词： Shotgun proteomics Mass spectrometry LC-MS/MS Data reduction Cyanobacterium arginine deprivation

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Novel molecular targets in hepatocellular carcinoma

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World Journal of Clinical Oncology 2020年第8期11卷 589-605页

作者： Ariel Ka-Man Chow Simon Wing-Lung Yau Lui Ng School of Nursing and Health Studies The Open University of Hong KongHong KongChina Department of Surgery Li Ka Shing Faculty of MedicineThe University of Hong KongHong KongChina

Globally,hepatocellular carcinoma(HCC)is a leading cause of cancer and cancerrelated *** therapeutic efficacy of locoregional and systemic treatment in patients with advanced HCC remains low,which results in a poor *** development of sorafenib for the treatment of HCC has resulted in a new era of molecular targeted therapy for this ***,the median overall survival was reported to be barely higher in the sorafenib treatment group than in the control ***,in this review we describe the importance of developing more effective targeted therapies for the management of advanced *** investigations of molecular signaling pathways in several cancers have provided some insights into developing molecular therapies that target critical members of these signaling *** involved in the Hedgehog and Notch signaling pathways,Polo-like kinase 1,arginine,histone deacetylases and Glypican-3 can be potential targets in the treatment of *** has limited therapeutic efficacy due to the development of inhibitory feedback mechanisms and induction of ***,emphasis is now on the development of personalized and combination molecular targeted therapies that can serve as ideal therapeutic strategies for improved management of HCC.

关键词： Hepatocellular carcinoma Prognosis arginine deprivation Cancer stem cells Glypican-3 Hedgehog signaling pathway Histone deacetylases Personalized medicine Molecular targeted therapy Notch signaling pathway Polo-like kinase 1 Tumourassociated antigens

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