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Building high-quality assay libraries for targeted analysis of SWATH MS data.
Schubert OT, Gillet LC, Collins BC, Navarro P, Rosenberger G, Wolski WE, Lam H, Amodei D, Mallick P, MacLean B, Aebersold R. Schubert OT, et al. Among authors: maclean b. Nat Protoc. 2015 Mar;10(3):426-41. doi: 10.1038/nprot.2015.015. Epub 2015 Feb 12. Nat Protoc. 2015. PMID: 25675208
Hybrid Quadrupole Mass Filter - Radial Ejection Linear Ion Trap and Intelligent Data Acquisition Enable Highly Multiplex Targeted Proteomics.
Remes PM, Jacob CC, Heil LR, Shulman N, MacLean BX, MacCoss MJ. Remes PM, et al. Among authors: maclean bx. bioRxiv [Preprint]. 2024 Jun 1:2024.05.31.596848. doi: 10.1101/2024.05.31.596848. bioRxiv. 2024. Update in: J Proteome Res. 2024 Dec 6;23(12):5476-5486. doi: 10.1021/acs.jproteome.4c00599 PMID: 38854069 Free PMC article. Updated. Preprint.
NCI's Proteomic Data Commons: A Cloud-Based Proteomics Repository Empowering Comprehensive Cancer Analysis through Cross-Referencing with Genomic and Imaging Data.
Thangudu RR, Holck M, Singhal D, Pilozzi A, Edwards N, Rudnick PA, Domagalski MJ, Chilappagari P, Ma L, Xin Y, Le T, Nyce K, Chaudhary R, Ketchum KA, Maurais A, Connolly B, Riffle M, Chambers MC, MacLean B, MacCoss MJ, McGarvey PB, Basu A, Otridge J, Casas-Silva E, Venkatachari S, Rodriguez H, Zhang X. Thangudu RR, et al. Among authors: maclean b. Cancer Res Commun. 2024 Sep 1;4(9):2480-2488. doi: 10.1158/2767-9764.CRC-24-0243. Cancer Res Commun. 2024. PMID: 39225545 Free PMC article.
Koina: Democratizing machine learning for proteomics research.
Lautenbacher L, Yang KL, Kockmann T, Panse C, Chambers M, Kahl E, Yu F, Gabriel W, Bold D, Schmidt T, Li K, MacLean B, Nesvizhskii AI, Wilhelm M. Lautenbacher L, et al. Among authors: maclean b. bioRxiv [Preprint]. 2024 Jun 3:2024.06.01.596953. doi: 10.1101/2024.06.01.596953. bioRxiv. 2024. PMID: 38895358 Free PMC article. Preprint.
A framework for quality control in quantitative proteomics.
Tsantilas KA, Merrihew GE, Robbins JE, Johnson RS, Park J, Plubell DL, Canterbury JD, Huang E, Riffle M, Sharma V, MacLean BX, Eckels J, Wu CC, Bereman MS, Spencer SE, Hoofnagle AN, MacCoss MJ. Tsantilas KA, et al. bioRxiv [Preprint]. 2024 Aug 11:2024.04.12.589318. doi: 10.1101/2024.04.12.589318. bioRxiv. 2024. Update in: J Proteome Res. 2024 Oct 4;23(10):4392-4408. doi: 10.1021/acs.jproteome.4c00363 PMID: 38645098 Free PMC article. Updated. Preprint.
143 results