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Keywords: proteomics
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Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2024) 52 (3): 1253–1263.
Published: 26 April 2024
...Zora Brough; Zhiyu Zhao; Franck Duong van Hoa Measuring the expression levels of membrane proteins (MPs) is crucial for understanding cell differentiation and tissue specificity, defining disease characteristics, identifying biomarkers, and developing therapeutics. While bottom-up proteomics...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2024) 52 (2): 627–637.
Published: 04 April 2024
... of this ubiquitination modification. Despite many biochemical or proteomic approaches available for ubiquitination detection, mass-spectrometry stood out to be the most efficient and transformative technology to read this complex modification script. Here in this review, we have discussed how different ubiquitin codes...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2023) 51 (3): 1071–1082.
Published: 12 May 2023
... domains of known function. Experimental techniques for the functionalization of these gene classes are therefore required. Approaches combining chemical labeling and quantitative proteomics have greatly advanced our ability to identify and characterize functional SEPs and alt-proteins in high throughput...
Articles
In Collection
Cell death and survival
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2022) 50 (1): 13–20.
Published: 15 February 2022
... efforts have been invested in unravelling and manipulating signalling mechanisms regulating these two different types of cell death. Here I discuss how modern proteomic approaches like phosphoproteomics and secretomics provide a novel perspective on this central cytokine and its effect on inflammation...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2021) 49 (5): 1905–1926.
Published: 10 August 2021
... understanding these organisms, and a substantial proportion of genes remain functionally unknown. Methodological advances, principally mass spectrometry (MS), are paving the way for parallel analysis of the proteome, metabolome and lipidome. Each provides a global, complementary assay, in addition to genomics...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2021) 49 (4): 1643–1662.
Published: 20 July 2021
...-inclusive Read & Publish pilot with Portland Press and the Biochemical Society under a transformative agreement with CAUL. glycobiology glycomics glycoproteomics mass spectrometry multi-omics proteomics Protein post-translational modifications (PTMs) enable the cell to produce...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2020) 48 (5): 1953–1966.
Published: 20 October 2020
... proteomics. Although once limited in throughput and sensitivity, proteomic studies have quickly grown in scope and scale over the last decade due to significant advances in instrumentation, computational approaches, and bio-sample preparation. Here, we review these latest developments in MS and highlight how...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2020) 48 (3): 1153–1165.
Published: 15 June 2020
... some specificity for substrate binding and ligation. Subtiligase specificity has been well characterized using a variety of techniques, including substrate phage [ 14 , 15 ], synthetic peptide libraries [ 17 , 18 ], and proteome-derived peptide libraries [ 19 ]. While subtiligase generally maintains...
Articles
In Collection
Protein structure and function
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2019) 47 (1): 317–327.
Published: 15 January 2019
... approaches, where MS is used alongside other techniques such as ion-mobility spectrometry. We also review how the emergence of a native top-down approach, which combines native MS with top-down proteomics into a single experiment, is the pièce de résistance of structural mass spectrometry's coming of age...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2017) 45 (5): 1137–1148.
Published: 22 September 2017
... of the Biochemical Society 2017 deubiquitylase mass spectrometry proteomics signalling SUMOylation ubiquitins One limitation of these bottom-up proteomic approaches using proteases is that the stoichiometry, order and length of the chains is lost, which makes the study of mixed linkage types...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2016) 44 (4): 994–1004.
Published: 15 August 2016
... 2016 © 2016 The Author(s). published by Portland Press Limited on behalf of the Biochemical Society 2016 cell biology protein–protein interactions proteomics signalling pathways Signalling proteins are essential cellular molecules with responsibility for almost every aspect...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2014) 42 (6): 1698–1703.
Published: 17 November 2014
...Robert J. Beynon; Dean Hammond; Victoria Harman; Yvonne Woolerton The increasing acceptance that proteins may exert multiple functions in the cell brings with it new analytical challenges that will have an impact on the field of proteomics. Many proteomics workflows begin by destroying information...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2013) 41 (4): 1089–1095.
Published: 18 July 2013
... by immobilized metal-affinity chromatography Mol. Cell. Proteomics 2003 2 1055 1067 46 Blagoev B. Ong S.E. Kratchmarova I. Mann M. Temporal analysis of phosphotyrosine-dependent signaling networks by quantitative proteomics Nat. Biotechnol. 2004 22 1139 1145 47...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2013) 41 (1): 43–49.
Published: 29 January 2013
...Brent R. Martin Protein palmitoylation is a critical post-translational modification important for membrane compartmentalization, trafficking and regulation of many key signalling proteins. Recent non-radioactive chemo-proteomic labelling methods have enabled a new focus on this emerging regulatory...
Articles
Silke Nissen, Xiaoxin Liu, Karuna Chourey, Robert L. Hettich, Darlene D. Wagner, Susan M. Pfiffner, Frank E. Löffler
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2012) 40 (6): 1204–1210.
Published: 21 November 2012
... is available. To investigate and compare c -type cytochrome expression in S. oneidensis strain MR-1 and Anaeromyxobacter dehalogenans strain 2CP-C more comprehensively, proteomic measurements were used to characterize lysates of cells grown with soluble Fe(III) (as ferric citrate) and insoluble Mn(IV) (as MnO...
Includes: Supplementary data
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2011) 39 (5): 1348–1352.
Published: 21 September 2011
...Xuan Liu; De-An Guo Systems biology is considered to be the possible technology that could bring breakthroughs in the study of TCM (traditional Chinese medicine). Proteomics, as one of the major components of systems biology, has been used in the mechanistic study of TCM, providing some interesting...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2010) 38 (1): 87–91.
Published: 19 January 2010
..., the proteomic methods currently used to identify new ubiquitinated proteins in response to DNA damage, including the advantages of using the UBD (ubiquitin-binding domain) beads to purify the ubiquitinated proteins, are considered. 1 To whom correspondence should be addressed (email [email protected]...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2009) 37 (4): 868–872.
Published: 22 July 2009
... the quantification and identification of novel biomarkers of chronic lung diseases using techniques such as proteomics. 1 To whom correspondence should be addressed (email [email protected] ). 4 3 2009 © The Authors Journal compilation © 2009 Biochemical Society 2009 Induced sputum...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2009) 37 (1): 1–6.
Published: 20 January 2009
... Journal compilation © 2009 Biochemical Society 2009 archaeon DNA replication Methanococcus maripaludis minichromosome maintenance (MCM) proteomics The initiation of DNA replication from specific sites (origins of replication) must be carefully controlled in order to ensure that DNA...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2008) 36 (5): 823–827.
Published: 19 September 2008
... © The Authors Journal compilation © 2008 Biochemical Society 2008 histidine tag proteomics purification ubiquitin-associated domain (UBA domain) ubiquitination ubiquitin-interacting motif (UIM) In order to detect, purify and characterize ubiquitinated proteins, preservation...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2008) 36 (5): 802–806.
Published: 19 September 2008
... targets for the pathway. Until recently, the cullin family of proteins was characterized as the only substrates for NEDDylation. However, through either direct biological approaches or the use of proteomics, it is now evident that the NEDD8 proteome is more diverse than thought previously. The present...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2007) 35 (3): 588–593.
Published: 22 May 2007
... proteomics and it is generally performed by two-dimensional gel electrophoresis and mass spectrometric methods. However, gel-based proteomics is methodologically restricted from the low mass region, which includes important endogenous peptides. The study of endogenous peptides, peptidomics, is complicated...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2006) 34 (6): 1246–1251.
Published: 25 October 2006
... chromatography–MS one-dimensional gel electrophoresis proteomics quantification tandem MS At present, there are more than 270 different CYP (cytochrome P450) gene families, with 18 recorded in mammals ( http://drnelson.utmem.edu/CytochromeP450.html ). In human, there are 57 CYP genes arranged...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2005) 33 (3): 503–506.
Published: 01 June 2005
... 10560 6 Nicholson J.K. Holmes E. Lindon J.C. Wilson I.D. Nat. Biotechnol. 2004 22 1268 1274 7 Pratt J.M. Petty J. Riba-Garcia I. Robertson D.H.L. Gaskell S.J. Oliver S.G. Beynon R.J. Mol. Cell. Proteomics 2002 1 579 591 8...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2005) 33 (3): 530–534.
Published: 01 June 2005
... that enables the proteomics community to build a reliable scaffold of the interactome in a fraction of the time compared with uncoordinated efforts. 1 To whom correspondence should be addressed (email [email protected] ). 19 1 2005 © 2005 The Biochemical Society 2005 algorithm...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2005) 33 (2): 409–412.
Published: 01 April 2005
...P.B. Maguire; M. Foy; D.J. Fitzgerald Proteomics has provided powerful new insights into the complex events of the anucleate platelet and has revealed many potential protein targets in the search for suitable agents for thrombotic disease. In the present study, we summarize recent proteomic...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2004) 32 (5): 851–855.
Published: 26 October 2004
...-protein-coupled receptors) are part of multiprotein networks organized around scaffolding proteins. These GIPs (GPCR-interacting proteins) are either transmembrane or cytosolic proteins. Proteomic approaches can be used to get global pictures of these ‘receptosomes’. This approach allowed us to identify...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2004) 32 (4): 601–605.
Published: 01 August 2004
.... Biochemical analysis has identified both general and specific mRNA-binding proteins as components of the regulation of chloroplast translation, and has revealed that chloroplast translation is related to bacterial translation but is more complex. Utilizing proteomic and bioinformatic analyses, we have...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2003) 31 (6): 1488–1490.
Published: 01 December 2003
... of cancer using tyrosine kinase inhibitors and the use of proteomic analysis to identify possible markers of activity of these new drugs. 1 To whom correspondence should be addressed (e-mail [email protected] ). Unravelling Nature's Networks a Biochemical Society Focused Meeting held at University...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2003) 31 (6): 1457–1461.
Published: 01 December 2003
... at University of Sheffield, 21 July 2003 19 September 2003 © 2003 Biochemical Society 2003 genomics mathematical modelling microarray modularity networks proteomics U nravelling N ature s N etw orks Biochem icalSociety Focused M eeting Unravelling Nature s Networks: From Microarray...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2002) 30 (4): 802–806.
Published: 01 August 2002
... biological screening, bioavailability and toxicity assessment market. Introduction The Bio-MEMS (biological-micro-electromech- anical machines) sector is experiencing an un- Key words cell screen, high throughput, proteomics Abbreviations used Bio-MEMS, biological micro-electrornech- anical machines, MST...
Articles
Journal:
Biochemical Society Transactions
Biochem Soc Trans (2002) 30 (2): 82–87.
Published: 01 April 2002
... The Proteinchip@ Biomarker System from Ciphergen Biosystems: a novel proteomics platform for rapid biomarker discovery and validation K. Chapman' Ciphergen Biosystems Ltd, Surrey Technology Centre, The Surrey Research Park, Guildford, Surrey GU2 7YG, U.K. Abstract Protein biochips are emerging in two distinct...
