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Protocol for high-throughput semi-automated label-free- or TMT-based phosphoproteome profiling
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| dc.contributor.author |
Koenig, C
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| dc.contributor.author |
Martinez-Val, A
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| dc.contributor.author |
Naicker, Previn
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| dc.contributor.author |
Stoychev, S
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| dc.contributor.author |
Jordaan, J
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| dc.contributor.author |
Olsen, JV
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| dc.date.accessioned | 2023-12-11T08:11:43Z | |
| dc.date.available | 2023-12-11T08:11:43Z | |
| dc.date.issued | 2023-09 | |
| dc.identifier.citation | Koenig, C., Martinez-Val, A., Naicker, P., Stoychev, S., Jordaan, J. & Olsen, J. 2023. Protocol for high-throughput semi-automated label-free- or TMT-based phosphoproteome profiling. <i>Star Protocols, 4(3).</i> http://hdl.handle.net/10204/13384 | en_ZA |
| dc.identifier.issn | 2666-1667 | |
| dc.identifier.uri | https://doi.org/10.1016/j.xpro.2023.102536 | |
| dc.identifier.uri | http://hdl.handle.net/10204/13384 | |
| dc.description.abstract | Tandem mass tags data-dependent acquisition (TMT-DDA) as well as data-independent acquisition-based label-free quantification (LFQ-DIA) have become the leading workflows to achieve deep proteome and phosphoproteome profiles. We present a modular pipeline for TMT-DDA and LFQ-DIA that integrates steps to perform scalable phosphoproteome profiling, including protein lysate extraction, clean-up, digestion, phosphopeptide enrichment, and TMT-labeling. We also detail peptide and/or phosphopeptide fractionation and pre-mass spectrometry desalting and provide researchers guidance on choosing the best workflow based on sample number and input. | en_US |
| dc.format | Fulltext | en_US |
| dc.language.iso | en | en_US |
| dc.relation.uri | https://www.sciencedirect.com/science/article/pii/S2666166723005038?via%3Dihub | en_US |
| dc.source | Star Protocols, 4(3) | en_US |
| dc.subject | Protein Biochemistry | en_US |
| dc.subject | Proteomics | en_US |
| dc.subject | Mass spectrometry | en_US |
| dc.title | Protocol for high-throughput semi-automated label-free- or TMT-based phosphoproteome profiling | en_US |
| dc.type | Article | en_US |
| dc.description.pages | 30 | en_US |
| dc.description.note | This is an open access article under the CC BY-NC-ND license | en_US |
| dc.description.cluster | Next Generation Health | en_US |
| dc.description.impactarea | Human Molecular Diagnostics | en_US |
| dc.identifier.apacitation | Koenig, C., Martinez-Val, A., Naicker, P., Stoychev, S., Jordaan, J., & Olsen, J. (2023). Protocol for high-throughput semi-automated label-free- or TMT-based phosphoproteome profiling. <i>Star Protocols, 4(3)</i>, http://hdl.handle.net/10204/13384 | en_ZA |
| dc.identifier.chicagocitation | Koenig, C, A Martinez-Val, Previn Naicker, S Stoychev, J Jordaan, and JV Olsen "Protocol for high-throughput semi-automated label-free- or TMT-based phosphoproteome profiling." <i>Star Protocols, 4(3)</i> (2023) http://hdl.handle.net/10204/13384 | en_ZA |
| dc.identifier.vancouvercitation | Koenig C, Martinez-Val A, Naicker P, Stoychev S, Jordaan J, Olsen J. Protocol for high-throughput semi-automated label-free- or TMT-based phosphoproteome profiling. Star Protocols, 4(3). 2023; http://hdl.handle.net/10204/13384. | en_ZA |
| dc.identifier.ris | TY - Article AU - Koenig, C AU - Martinez-Val, A AU - Naicker, Previn AU - Stoychev, S AU - Jordaan, J AU - Olsen, JV AB - Tandem mass tags data-dependent acquisition (TMT-DDA) as well as data-independent acquisition-based label-free quantification (LFQ-DIA) have become the leading workflows to achieve deep proteome and phosphoproteome profiles. We present a modular pipeline for TMT-DDA and LFQ-DIA that integrates steps to perform scalable phosphoproteome profiling, including protein lysate extraction, clean-up, digestion, phosphopeptide enrichment, and TMT-labeling. We also detail peptide and/or phosphopeptide fractionation and pre-mass spectrometry desalting and provide researchers guidance on choosing the best workflow based on sample number and input. DA - 2023-09 DB - ResearchSpace DP - CSIR J1 - Star Protocols, 4(3) KW - Protein Biochemistry KW - Proteomics KW - Mass spectrometry LK - https://researchspace.csir.co.za PY - 2023 SM - 2666-1667 T1 - Protocol for high-throughput semi-automated label-free- or TMT-based phosphoproteome profiling TI - Protocol for high-throughput semi-automated label-free- or TMT-based phosphoproteome profiling UR - http://hdl.handle.net/10204/13384 ER - | en_ZA |
| dc.identifier.worklist | 27093 | en_US |
