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Yang N, Zhao C, Kong L, Zhang B, Han C, Zhang Y, Qian X, Qin W. Absolute Quantification of Dynamic Cellular Uptake of Small Extracellular Vesicles via Lanthanide Element Labeling and ICP-MS. Anal Chem 2023; 95:11934-11942. [PMID: 37527423 DOI: 10.1021/acs.analchem.3c01421] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/03/2023]
Abstract
Small extracellular vesicles (sEVs) are increasingly reported to play important roles in numerous physiological and pathological processes. Cellular uptake of sEVs is of great significance for functional regulation in recipient cells. Although various sEV quantification, labeling, and tracking methods have been reported, it is still highly challenging to quantify the absolute amount of cellular uptake of sEVs and correlate this information with phenotypic variations in the recipient cell. Therefore, we developed a novel strategy using lanthanide element labeling and inductively coupled plasma-mass spectrometry (ICP-MS) for the absolute and sensitive quantification of sEVs. This strategy utilizes the chelation interaction between Eu3+ and the phosphate groups on the sEV membrane for specific labeling. sEVs internalized by cells can then be quantified by ICP-MS using a previously established linear relationship between the europium content and the particle numbers. High Eu labeling efficiency and stability were demonstrated by various evaluations, and no structural or functional alterations in the sEVs were discovered after Eu labeling. Application of this method revealed that 4020 ± 171 sEV particles/cell were internalized by HeLa cells at 37 °C and 61% uptake inhibition at 4 °C. Further investigation led to the quantitative differential analysis of sEV cellular uptake under the treatment of several chemical endocytosis inhibitors. A 23% strong inhibition indicated that HeLa cells uptake sEVs mainly through the macropinocytosis pathway. This facile labeling and absolute quantification strategy of sEVs with ppb-level high sensitivity is expected to become a potential tool for studying the functions of sEVs in intracellular communication and cargo transportation.
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Affiliation(s)
- Ningli Yang
- National Center for Protein Sciences Beijing, State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Lifeomics, Beijing 102206, P. R. China
| | - Chuanping Zhao
- College of Chemistry and Materials Science, Hebei University, Baoding 071002, P. R. China
| | - Linlin Kong
- National Center for Protein Sciences Beijing, State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Lifeomics, Beijing 102206, P. R. China
| | - Baoying Zhang
- National Center for Protein Sciences Beijing, State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Lifeomics, Beijing 102206, P. R. China
| | - Chunguang Han
- National Center for Protein Sciences Beijing, State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Lifeomics, Beijing 102206, P. R. China
| | - Yangjun Zhang
- National Center for Protein Sciences Beijing, State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Lifeomics, Beijing 102206, P. R. China
| | - Xiaohong Qian
- National Center for Protein Sciences Beijing, State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Lifeomics, Beijing 102206, P. R. China
| | - Weijie Qin
- National Center for Protein Sciences Beijing, State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Lifeomics, Beijing 102206, P. R. China
- College of Chemistry and Materials Science, Hebei University, Baoding 071002, P. R. China
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Zhang J, Chen L, Chen L, Chen L, Zhang Y, Chen C, Chai Z, Wang S. A rare potassium-rich zirconium fluorophosphonate with high Eu 3+ adsorption capacities from acidic solutions. Dalton Trans 2022; 51:14842-14846. [DOI: 10.1039/d2dt01291j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A novel 3D potassium-containing zirconium fluorophosphonate K2Zr[CH2(PO3)2]F2 (SZ-8) was successfully synthesized as single crystals via a solvothermal method using the mixture of nitric acid and potassium nitrate as mineralizers. SZ-8...
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Villagra D, Fuentealba P, Spodine E, Vega A, Costa de Santana R, Verdejo R, Lopez-Manchado MA, Aguilar-Bolados H. Effect of terbium(III) species on the structure and physical properties of polyurethane (TPU). POLYMER 2021. [DOI: 10.1016/j.polymer.2021.124209] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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Low TY, Mohtar MA, Lee PY, Omar N, Zhou H, Ye M. WIDENING THE BOTTLENECK OF PHOSPHOPROTEOMICS: EVOLVING STRATEGIES FOR PHOSPHOPEPTIDE ENRICHMENT. MASS SPECTROMETRY REVIEWS 2021; 40:309-333. [PMID: 32491218 DOI: 10.1002/mas.21636] [Citation(s) in RCA: 55] [Impact Index Per Article: 18.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/03/2020] [Revised: 05/11/2020] [Accepted: 05/12/2020] [Indexed: 06/11/2023]
Abstract
Phosphorylation is a form of protein posttranslational modification (PTM) that regulates many biological processes. Whereas phosphoproteomics is a scientific discipline that identifies and quantifies the phosphorylated proteome using mass spectrometry (MS). This task is extremely challenging as ~30% of the human proteome is phosphorylated; and each phosphoprotein may exist as multiple phospho-isoforms that are present in low abundance and stoichiometry. Hence, phosphopeptide enrichment techniques are indispensable to (phospho)proteomics laboratories. These enrichment methods encompass widely-adopted techniques such as (i) affinity-based chromatography; (ii) ion exchange and mixed-mode chromatography (iii) enrichment with phospho-specific antibodies and protein domains, and (iv) functionalized polymers and other less common but emerging technologies such as hydroxyapatite chromatography and precipitation with inorganic ions. Here, we review these techniques, their history, continuous development and evaluation. Besides, we outline associating challenges of phosphoproteomics that are linked to experimental design, sample preparation, and proteolytic digestion. In addition, we also discuss about the future outlooks in phosphoproteomics, focusing on elucidating the noncanonical phosphoproteome and deciphering the "dark phosphoproteome". © 2020 John Wiley & Sons Ltd.
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Affiliation(s)
- Teck Yew Low
- UKM Medical Molecular Biology Institute (UMBI), Universiti Kebangsaan Malaysia, 56000, Kuala Lumpur, Malaysia
| | - M Aiman Mohtar
- UKM Medical Molecular Biology Institute (UMBI), Universiti Kebangsaan Malaysia, 56000, Kuala Lumpur, Malaysia
| | - Pey Yee Lee
- UKM Medical Molecular Biology Institute (UMBI), Universiti Kebangsaan Malaysia, 56000, Kuala Lumpur, Malaysia
| | - Nursyazwani Omar
- UKM Medical Molecular Biology Institute (UMBI), Universiti Kebangsaan Malaysia, 56000, Kuala Lumpur, Malaysia
| | - Houjiang Zhou
- Medical Research Council (MRC) Protein Phosphorylation and Ubiquitylation Unit, School of Life Sciences, University of Dundee, Dow Street, Dundee, DD1 5EH, United Kingdom
| | - Mingliang Ye
- CAS Key Laboratory of Separation Sciences for Analytical Chemistry, National Chromatographic R&A Centre, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, 116023, China
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Cho U, Chen JK. Lanthanide-Based Optical Probes of Biological Systems. Cell Chem Biol 2020; 27:921-936. [PMID: 32735780 DOI: 10.1016/j.chembiol.2020.07.009] [Citation(s) in RCA: 31] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2020] [Revised: 06/28/2020] [Accepted: 07/10/2020] [Indexed: 02/06/2023]
Abstract
The unique photophysical properties of lanthanides, such as europium, terbium, and ytterbium, make them versatile molecular probes of biological systems. In particular, their long-lived photoluminescence, narrow bandwidth emissions, and large Stokes shifts enable experiments that are infeasible with organic fluorophores and fluorescent proteins. The ability of these metal ions to undergo luminescence resonance energy transfer, and photon upconversion further expands the capabilities of lanthanide probes. In this review, we describe recent advances in the design of lanthanide luminophores and their application in biological research. We also summarize the latest detection systems that have been developed to fully exploit the optical properties of lanthanide luminophores. We conclude with a discussion of remaining challenges and new frontiers in lanthanide technologies. The unprecedented levels of sensitivity and multiplexing afforded by rare-earth elements illustrate how chemistry can enable new approaches in biology.
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Affiliation(s)
- Ukrae Cho
- Department of Chemical and Systems Biology, Stanford University, Stanford, CA 94305, USA.
| | - James K Chen
- Department of Chemical and Systems Biology, Stanford University, Stanford, CA 94305, USA; Department of Developmental Biology, Stanford University, Stanford, CA 94305, USA; Department of Chemistry, Stanford University, Stanford, CA 94305, USA.
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Wu C, Cai Y, Xu L, Xie J, Liu Z, Yang S, Wang S. Macroscopic and spectral exploration on the removal performance of pristine and phytic acid-decorated titanate nanotubes towards Eu(III). J Mol Liq 2018. [DOI: 10.1016/j.molliq.2018.02.110] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
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Bio-recycling of metals: Recycling of technical products using biological applications. Biotechnol Adv 2018; 36:1048-1062. [PMID: 29555455 DOI: 10.1016/j.biotechadv.2018.03.006] [Citation(s) in RCA: 46] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2017] [Revised: 03/05/2018] [Accepted: 03/11/2018] [Indexed: 11/21/2022]
Abstract
The increasing demand of different essential metals as a consequence of the development of new technologies, especially in the so called "low carbon technologies" require the development of innovative technologies that enable an economic and environmentally friendly metal recovery from primary and secondary resources. There is serious concern that the demand of some critical elements might exceed the present supply within a few years, thus necessitating the development of novel strategies and technologies to meet the requirements of industry and society. Besides an improvement of exploitation and processing of ores, the more urgent issue of recycling of strategic metals has to be enforced. However, current recycling rates are very low due to the increasing complexity of products and the low content of certain critical elements, thus hindering an economic metal recovery. On the other hand, increasing environmental consciousness as well as limitations of classical methods require innovative recycling methodologies in order to enable a circular economy. Modern biotechnologies can contribute to solve some of the problems related to metal recycling. These approaches use natural properties of organisms, bio-compounds, and biomolecules to interact with minerals, materials, metals, or metal ions such as surface attachment, mineral dissolution, transformation, and metal complexation. Further, modern genetic approaches, e.g. realized by synthetic biology, enable the smart design of new chemicals. The article presents some recent developments in the fields of bioleaching, biosorption, bioreduction, and bioflotation, and their use for metal recovery from different waste materials. Currently only few of these developments are commercialized. Major limitations are high costs in comparison to conventional methods and low element selectivity. The article discusses future trends to overcome these barriers. Especially interdisciplinary approaches, the combination of different technologies, the inclusion of modern genetic methods, as well as the consideration of existing, yet unexplored natural resources will push innovations in these fields.
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Li XS, Yuan BF, Feng YQ. Recent advances in phosphopeptide enrichment: Strategies and techniques. Trends Analyt Chem 2016. [DOI: 10.1016/j.trac.2015.11.001] [Citation(s) in RCA: 76] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Enrichment of phosphorylated peptides and proteins by selective precipitation methods. Bioanalysis 2015; 7:243-52. [PMID: 25587840 DOI: 10.4155/bio.14.281] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
Protein phosphorylation is one of the most prominent post-translational modifications involved in the regulation of cellular processes. Fundamental understanding of biological processes requires appropriate bioanalytical methods for selectively enriching phosphorylated peptides and proteins. Most of the commonly applied enrichment approaches include chromatographic materials including Fe(3+)-immobilized metal-ion affinity chromatography or metal oxides. In the last years, the introduction of several non-chromatographic isolation technologies has increasingly attracted the interest of many scientists. Such approaches are based on the selective precipitation of phosphorylated peptides and proteins by applying various metal cations. The excellent performance of precipitation-based enrichment methods can be explained by the absence of any stationary phase, resin or sorbent, which usually leads to unspecific binding. This review provides an overview of recently published methods for the selective precipitation of phosphorylated peptides and proteins.
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Güzel Y, Rainer M, Messner CB, Hussain S, Meischl F, Sasse M, Tessadri R, Bonn GK. Development of erbium phosphate doped poly(glycidyl methacrylate/ethylene dimethacrylate) spin columns for selective enrichment of phosphopeptides. J Sep Sci 2015; 38:1334-43. [DOI: 10.1002/jssc.201401409] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2014] [Revised: 01/15/2015] [Accepted: 01/15/2015] [Indexed: 12/29/2022]
Affiliation(s)
- Yüksel Güzel
- Institute of Analytical Chemistry and Radiochemistry; Leopold-Franzens University of Innsbruck; Innsbruck Austria
- ADSI-Austrian Drug Screening Institute; Innsbruck Austria
| | - Matthias Rainer
- Institute of Analytical Chemistry and Radiochemistry; Leopold-Franzens University of Innsbruck; Innsbruck Austria
| | - Christoph B. Messner
- Institute of Analytical Chemistry and Radiochemistry; Leopold-Franzens University of Innsbruck; Innsbruck Austria
| | - Shah Hussain
- Institute of Analytical Chemistry and Radiochemistry; Leopold-Franzens University of Innsbruck; Innsbruck Austria
| | - Florian Meischl
- Institute of Analytical Chemistry and Radiochemistry; Leopold-Franzens University of Innsbruck; Innsbruck Austria
| | - Michael Sasse
- Institute of Analytical Chemistry and Radiochemistry; Leopold-Franzens University of Innsbruck; Innsbruck Austria
| | - Richard Tessadri
- Institute of Mineralogy and Petrography; Leopold-Franzens University; Innsbruck Austria
| | - Günther K. Bonn
- Institute of Analytical Chemistry and Radiochemistry; Leopold-Franzens University of Innsbruck; Innsbruck Austria
- ADSI-Austrian Drug Screening Institute; Innsbruck Austria
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Messner CB, Bonn GK, Hofer TS. QM/MM MD simulations of La(iii)–phosphopeptide complexes. MOLECULAR BIOSYSTEMS 2015; 11:232-8. [DOI: 10.1039/c4mb00424h] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Hybrid quantum mechanical/molecular mechanical simulations have been used to study the structural and dynamical properties of a La(iii)–phosphopeptide complex.
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Affiliation(s)
- Christoph B. Messner
- Institute of Analytical Chemistry and Radiochemistry
- Leopold-Franzens University
- 6020 Innsbruck
- Austria
| | - Günther K. Bonn
- Institute of Analytical Chemistry and Radiochemistry
- Leopold-Franzens University
- 6020 Innsbruck
- Austria
| | - Thomas S. Hofer
- Theoretical Chemistry Division
- Institute of General
- Inorganic and Theoretical Chemistry
- Leopold-Franzens University
- 6020 Innsbruck
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12
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Hussain S, Güzel Y, Pezzei C, Rainer M, Huck CW, Bonn GK. Solid-phase extraction of plant thionins employing aluminum silicate based extraction columns. J Sep Sci 2014; 37:2200-7. [PMID: 24913248 DOI: 10.1002/jssc.201400385] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2014] [Revised: 05/30/2014] [Accepted: 05/31/2014] [Indexed: 11/09/2022]
Abstract
Thionins belong to a family of cysteine-rich, low-molecular-weight (∼5 KDa) biologically active proteins in the plant kingdom. They display a broad cellular toxicity against a wide range of organisms and eukaryotic cell lines. Thionins protect plants against different pathogens, including bacteria and fungi. A highly selective solid-phase extraction method for plant thionins is reported deploying aluminum silicate (3:2 mullite) powder as a sorbent in extraction columns. Mullite was shown to considerably improve selectivity compared to a previously described zirconium silicate embedded poly(styrene-co-divinylbenzene) monolithic polymer. Due to the presence of aluminum(III), mullite offers electrostatic interactions for the selective isolation of cysteine-rich proteins. In comparison to zirconium(IV) silicate, aluminum(III) silicate showed reduced interactions towards proteins which resulted into superior washings of unspecific compounds while still retaining cysteine-rich thionins. In the presented study, European mistletoe, wheat and barley samples were subjected to solid-phase extraction analysis for isolation of viscotoxins, purothionins and hordothionins, respectively. Matrix-assisted laser desorption/ionization time of flight mass spectroscopy was used for determining the selectivity of the sorbent toward thionins. The selectively retained thionins were quantified by colorimetric detection using the bicinchoninic acid assay. For peptide mass-fingerprint analysis tryptic digests of eluates were examined.
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Affiliation(s)
- Shah Hussain
- Institute of Analytical Chemistry and Radiochemistry, CCB-Center for Chemistry and Biomedicine, Leopold-Franzens University, Innrain, Innsbruck, Austria
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13
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Canaval LR, Sakwarathorn T, Rode BM, Messner CB, Lutz OMD, Bonn GK. Erbium(III) in aqueous solution: an ab initio molecular dynamics study. J Phys Chem B 2013; 117:15151-6. [PMID: 24251538 DOI: 10.1021/jp410284z] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Structural and dynamical properties of the erbium(III) ion in water have been obtained by means of ab initio quantum mechanical charge field molecular dynamics (QMCF-MD) simulations for the ground state and an excited state. The quality of the simulations has been monitored by recording UV/vis and Raman spectra of dilute solutions of ErCl3 and Er(NO3)3 in water and by comparison with EXAFS data from literature. Slight deviations between these data can be mainly attributed to relativistic effects, which are not sufficiently considered by the methodological framework. In both simulations, a mixture of coordination numbers eight and nine and a ligand exchange on the picosecond range are observed. The strength of the Er-ligand bond is considerably lower than that of trivalent transition metal ions but higher than that for La(III) and Ce(III) in aqueous solution. The main difference between ground state and excited state is the ligand exchange rate of the first shell. The second hydration shell is stable in both cases but with significantly different properties.
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Affiliation(s)
- Lorenz R Canaval
- Theoretical Chemistry Division Institute of General, Inorganic and Theoretical Chemistry, University of Innsbruck , Innrain 80-82, A-6020 Innsbruck, Austria
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Hitzenberger M, Hofer TS, Weiss AKH. Solvation properties and behaviour of lutetium(III) in aqueous solution—A quantum mechanical charge field (QMCF) study. J Chem Phys 2013; 139:114306. [DOI: 10.1063/1.4820879] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023] Open
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15
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Solid-phase extraction method for the isolation of plant thionins from European mistletoe, wheat and barley using zirconium silicate embedded in poly(styrene-co-divinylbenzene) hollow-monoliths. Anal Bioanal Chem 2013; 405:7509-21. [DOI: 10.1007/s00216-013-7202-9] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2013] [Revised: 06/24/2013] [Accepted: 07/01/2013] [Indexed: 10/26/2022]
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16
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Mirza MR, Rainer M, Messner CB, Güzel Y, Schemeth D, Stasyk T, Choudhary MI, Huber LA, Rode BM, Bonn GK. A new type of metal chelate affinity chromatography using trivalent lanthanide ions for phosphopeptide enrichment. Analyst 2013; 138:2995-3004. [DOI: 10.1039/c3an36853j] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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Güzel Y, Rainer M, Mirza MR, Messner CB, Bonn GK. Highly selective recovery of phosphopeptides using trypsin-assisted digestion of precipitated lanthanide–phosphoprotein complexes. Analyst 2013; 138:2897-905. [DOI: 10.1039/c3an00066d] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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A novel strategy for phosphopeptide enrichment using lanthanide phosphate co-precipitation. Anal Bioanal Chem 2012; 404:853-62. [DOI: 10.1007/s00216-012-6215-0] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2012] [Revised: 06/18/2012] [Accepted: 06/19/2012] [Indexed: 10/28/2022]
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