2021
Myall, A. C., Perkins, S., Rushton, D., David, J., Spencer, P., Jones, A. R., & Antczak, P. (2021). An OMICs-based meta-analysis to support infection state stratification. BIOINFORMATICS, 37(16), 2347-2355. doi:10.1093/bioinformatics/btab089DOI: 10.1093/bioinformatics/btab089
Carlsson, E., Midgley, A., Perkins, S., Caamano-Gutierrez, E., Gritzfeld, J. F., Beresford, M. W., & Hedrich, C. M. (2021). Serum protein signatures differentiate paediatric autoimmune/ inflammatory disorders. CLINICAL IMMUNOLOGY, 229. doi:10.1016/j.clim.2021.108790DOI: 10.1016/j.clim.2021.108790
Campbell, A. E., Franco, C. F., Ling-I, S., Corbin, E. K., Perkins, S., Kalyuzhnyy, A., . . . Eyers, C. E. (2021). Temporal modulation of the NF-kappa B ReIA network in response to different types of DNA damage. Biochemical Journal, 478(3), 533-551. doi:10.1042/BCJ20200627DOI: 10.1042/BCJ20200627
2020
Use of the Polo-like kinase 4 (PLK4) inhibitor centrinone to investigate intracellular signalling networks using SILAC-based phosphoproteomics (Journal article)
Byrne, D. P., Clarke, C. J., Brownridge, P. J., Kalyuzhnyy, A., Perkins, S., Campbell, A., . . . Eyers, C. E. (2020). Use of the Polo-like kinase 4 (PLK4) inhibitor centrinone to investigate intracellular signalling networks using SILAC-based phosphoproteomics. The Biochemical journal, 477(13), 2451-2475. doi:10.1042/bcj20200309DOI: 10.1042/bcj20200309
2019
Hardman, G., Perkins, S., Brownridge, P., Clarke, C., Byrne, D., Campbell, A., . . . Eyers, C. (2019). Strong anion exchange-mediated phosphoproteomics reveals extensive human non-canonical phosphorylation. The EMBO Journal, 38(21). doi:10.15252/embj.2018100847DOI: 10.15252/embj.2018100847
2018
Scanning Quadrupole Data-Independent Acquisition, Part A: Qualitative and Quantitative Characterization (Journal article)
Moseley, M. A., Hughes, C. J., Juvvadi, P. R., Soderblom, E. J., Lennon, S., Perkins, S. R., . . . Vissers, J. P. C. (2018). Scanning Quadrupole Data-Independent Acquisition, Part A: Qualitative and Quantitative Characterization. JOURNAL OF PROTEOME RESEARCH, 17(2), 770-779. doi:10.1021/acs.jproteome.7b00464DOI: 10.1021/acs.jproteome.7b00464
Scanning Quadrupole Data-Independent Acquisition, Part B: Application to the Analysis of the Calcineurin-Interacting Proteins during Treatment of <i>Aspergillus fumigatus</i> with Azole and Echinocandin Antifungal Drugs (Journal article)
Juvvadi, P. R., Moseley, M. A., Hughes, C. J., Soderblom, E. J., Lennon, S., Perkins, S. R., . . . Steinbach, W. J. (2018). Scanning Quadrupole Data-Independent Acquisition, Part B: Application to the Analysis of the Calcineurin-Interacting Proteins during Treatment of <i>Aspergillus fumigatus</i> with Azole and Echinocandin Antifungal Drugs. JOURNAL OF PROTEOME RESEARCH, 17(2), 780-793. doi:10.1021/acs.jproteome.7b00499DOI: 10.1021/acs.jproteome.7b00499
2017
Ferries., Perkins, S., Brownridge., Campbell, A., Eyers, P., Jones, A., & Eyers, C. E. (2017). Evaluation of Parameters for Confident Phosphorylation Site Localization using an Orbitrap Fusion Tribrid Mass Spectrometer. Journal of Proteome Research, 16(9), 3448-3459. doi:10.1021/acs.jproteome.7b00337DOI: 10.1021/acs.jproteome.7b00337
Vizcaino, J. A., Mayer, G., Perkins, S., Barsnes, H., Vaudel, M., Perez-Riverol, Y., . . . Jones, A. R. (2017). The mzIdentML Data Standard Version 1.2, Supporting Advances in Proteome Informatics. MOLECULAR & CELLULAR PROTEOMICS, 16(7), 1275-1285. doi:10.1074/mcp.M117.068429DOI: 10.1074/mcp.M117.068429
2016
Data Formats of the Proteomics Standards Initiative (Chapter)
Vizcaíno, J. A., Perkins, S., Jones, A. R., & Deutsch, E. W. (2016). Data Formats of the Proteomics Standards Initiative. In Proteome Informatics (pp. 229-258). The Royal Society of Chemistry. doi:10.1039/9781782626732-00229DOI: 10.1039/9781782626732-00229
2015
Qi, D., Zhang, H., Fan, J., Perkins, S., Pisconti, A., Simpson, D. M., . . . Jones, A. R. (2015). The mzqLibrary - An open source Java library supporting the HUPO-PSI quantitative proteomics standard. PROTEOMICS, 15(18), 3152-3162. doi:10.1002/pmic.201400535DOI: 10.1002/pmic.201400535
2014
ProteoAnnotator – Open source proteogenomics annotation software supporting PSI standards (Journal article)
Ghali, F., Krishna, R., Perkins, S., Collins, A., Xia, D., Wastling, J., & Jones, A. R. (2014). ProteoAnnotator – Open source proteogenomics annotation software supporting PSI standards. Proteomics, 14(23-24), 2731-2741. doi:10.1002/pmic.201400265DOI: 10.1002/pmic.201400265
Numerical Compression Schemes for Proteomics Mass Spectrometry Data (Journal article)
Teleman, J., Dowsey, A. W., Gonzalez-Galarza, F. F., Perkins, S., Pratt, B., Röst, H. L., . . . Levander, F. (2014). Numerical Compression Schemes for Proteomics Mass Spectrometry Data. Molecular & Cellular Proteomics, 13(6), 1537-1542. doi:10.1074/mcp.o114.037879DOI: 10.1074/mcp.o114.037879
Numerical Compression Schemes for Proteomics Mass Spectrometry Data (Journal article)
Teleman, J., Dowsey, A. W., Gonzalez-Galarza, F. F., Perkins, S., Pratt, B., Roest, H. L., . . . Levander, F. (2014). Numerical Compression Schemes for Proteomics Mass Spectrometry Data. MOLECULAR & CELLULAR PROTEOMICS, 13(6), 1537-1542. doi:10.1074/mcp.O114.037879DOI: 10.1074/mcp.O114.037879