{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,12]],"date-time":"2026-02-12T10:43:42Z","timestamp":1770893022241,"version":"3.50.1"},"reference-count":9,"publisher":"Oxford University Press (OUP)","issue":"24","license":[{"start":{"date-parts":[[2019,7,27]],"date-time":"2019-07-27T00:00:00Z","timestamp":1564185600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Medical Research Council and National Institute for Health Research","award":["MC_PC_12025"],"award-info":[{"award-number":["MC_PC_12025"]}]},{"name":"MRC-NIHR National Phenome Centre"},{"DOI":"10.13039\/501100013342","name":"NIHR Imperial Biomedical Research Centre","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100013342","id-type":"DOI","asserted-by":"publisher"}]},{"name":"PhenoMeNal"},{"DOI":"10.13039\/501100000780","name":"European Commission","doi-asserted-by":"publisher","award":["654241"],"award-info":[{"award-number":["654241"]}],"id":[{"id":"10.13039\/501100000780","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,12,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>As large-scale metabolic phenotyping studies become increasingly common, the need for systemic methods for pre-processing and quality control (QC) of analytical data prior to statistical analysis has become increasingly important, both within a study, and to allow meaningful inter-study comparisons. The nPYc-Toolbox provides software for the import, pre-processing, QC and visualization of metabolic phenotyping datasets, either interactively, or in automated pipelines.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>The nPYc-Toolbox is implemented in Python, and is freely available from the Python package index https:\/\/pypi.org\/project\/nPYc\/, source is available at https:\/\/github.com\/phenomecentre\/nPYc-Toolbox. Full documentation can be found at http:\/\/npyc-toolbox.readthedocs.io\/ and exemplar datasets and tutorials at https:\/\/github.com\/phenomecentre\/nPYc-toolbox-tutorials.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btz566","type":"journal-article","created":{"date-parts":[[2019,7,24]],"date-time":"2019-07-24T11:27:00Z","timestamp":1563967620000},"page":"5359-5360","source":"Crossref","is-referenced-by-count":38,"title":["The nPYc-Toolbox, a Python module for the pre-processing, quality-control and analysis of metabolic profiling datasets"],"prefix":"10.1093","volume":"35","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-3749-7941","authenticated-orcid":false,"given":"Caroline J","family":"Sands","sequence":"first","affiliation":[{"name":"National Phenome Centre and Imperial Clinical Phenotyping Centre, Department of Surgery & Cancer , Imperial College London, London, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5856-3218","authenticated-orcid":false,"given":"Arnaud M","family":"Wolfer","sequence":"additional","affiliation":[{"name":"National Phenome Centre and Imperial Clinical Phenotyping Centre, Department of Surgery & Cancer , Imperial College London, London, UK"}]},{"given":"Gon\u00e7alo D S","family":"Correia","sequence":"additional","affiliation":[{"name":"National Phenome Centre and Imperial Clinical Phenotyping Centre, Department of Surgery & Cancer , Imperial College London, London, UK"}]},{"given":"Noureddin","family":"Sadawi","sequence":"additional","affiliation":[{"name":"Division of Integrative Systems Medicine and Digestive Diseases , Department of Surgery & Cancer, Imperial College London, South Kensington, London, UK"}]},{"given":"Arfan","family":"Ahmed","sequence":"additional","affiliation":[{"name":"National Phenome Centre and Imperial Clinical Phenotyping Centre, Department of Surgery & Cancer , Imperial College London, London, UK"}]},{"given":"Beatriz","family":"Jim\u00e9nez","sequence":"additional","affiliation":[{"name":"National Phenome Centre and Imperial Clinical Phenotyping Centre, Department of Surgery & Cancer , Imperial College London, London, UK"},{"name":"Division of Integrative Systems Medicine and Digestive Diseases , Department of Surgery & Cancer, Imperial College London, South Kensington, London, UK"}]},{"given":"Matthew R","family":"Lewis","sequence":"additional","affiliation":[{"name":"National Phenome Centre and Imperial Clinical Phenotyping Centre, Department of Surgery & Cancer , Imperial College London, London, UK"},{"name":"Division of Integrative Systems Medicine and Digestive Diseases , Department of Surgery & Cancer, Imperial College London, South Kensington, London, UK"}]},{"given":"Robert C","family":"Glen","sequence":"additional","affiliation":[{"name":"Division of Integrative Systems Medicine and Digestive Diseases , Department of Surgery & Cancer, Imperial College London, South Kensington, London, UK"}]},{"given":"Jeremy K","family":"Nicholson","sequence":"additional","affiliation":[{"name":"National Phenome Centre and Imperial Clinical Phenotyping Centre, Department of Surgery & Cancer , Imperial College London, London, UK"},{"name":"Division of Integrative Systems Medicine and Digestive Diseases , Department of Surgery & Cancer, Imperial College London, South Kensington, London, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4637-3171","authenticated-orcid":false,"given":"Jake T M","family":"Pearce","sequence":"additional","affiliation":[{"name":"National Phenome Centre and Imperial Clinical Phenotyping Centre, Department of Surgery & Cancer , Imperial College London, London, UK"},{"name":"Division of Integrative Systems Medicine and Digestive Diseases , Department of Surgery & Cancer, Imperial College London, South Kensington, London, UK"}]}],"member":"286","published-online":{"date-parts":[[2019,7,27]]},"reference":[{"key":"2023013108405517900_btz566-B1","doi-asserted-by":"crossref","first-page":"72.","DOI":"10.1007\/s11306-018-1367-3","article-title":"Guidelines and considerations for the use of system suitability and quality control samples in mass spectrometry assays applied in untargeted clinical metabolomic studies","volume":"14","author":"Broadhurst","year":"2018","journal-title":"Metabolomics"},{"key":"2023013108405517900_btz566-B2","doi-asserted-by":"crossref","first-page":"9887","DOI":"10.1021\/ac5025039","article-title":"Precision high-throughput proton NMR spectroscopy of human urine, serum, and plasma for large-scale metabolic phenotyping","volume":"86","author":"Dona","year":"2014","journal-title":"Anal. 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