Search: onr:"swepub:oai:DiVA.org:umu-188135" > A new pipeline for ...
Fältnamn | Indikatorer | Metadata |
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000 | 08715naa a2201129 4500 | |
001 | oai:DiVA.org:umu-188135 | |
003 | SwePub | |
008 | 211005s2021 | |||||||||||000 ||eng| | |
009 | oai:lup.lub.lu.se:13d41a4f-7812-4615-8ca3-76bee31b3125 | |
024 | 7 | a https://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-1881352 URI |
024 | 7 | a https://doi.org/10.3390/metabo110906312 DOI |
024 | 7 | a https://lup.lub.lu.se/record/13d41a4f-7812-4615-8ca3-76bee31b31252 URI |
040 | a (SwePub)umud (SwePub)lu | |
041 | a engb eng | |
042 | 9 SwePub | |
072 | 7 | a ref2 swepub-contenttype |
072 | 7 | a art2 swepub-publicationtype |
100 | 1 | a Viallon, Vivianu International Agency for Research on Cancer, World Health Organization4 aut |
245 | 1 0 | a A new pipeline for the normalization and pooling of metabolomics data |
264 | c 2021-09-17 | |
264 | 1 | b MDPI,c 2021 |
338 | a electronic2 rdacarrier | |
500 | a (This article belongs to the Special Issue Metabolomics Meets Epidemiology). | |
520 | a Pooling metabolomics data across studies is often desirable to increase the statistical power of the analysis. However, this can raise methodological challenges as several preanalytical and analytical factors could introduce differences in measured concentrations and variability between datasets. Specifically, different studies may use variable sample types (e.g., serum versus plasma) collected, treated, and stored according to different protocols, and assayed in different laboratories using different instruments. To address these issues, a new pipeline was developed to normalize and pool metabolomics data through a set of sequential steps: (i) exclusions of the least informative observations and metabolites and removal of outliers; imputation of missing data; (ii) identification of the main sources of variability through principal component partial R-square (PC-PR2) analysis; (iii) application of linear mixed models to remove unwanted variability, including samples’ originating study and batch, and preserve biological variations while accounting for potential differences in the residual variances across studies. This pipeline was applied to targeted metabolomics data acquired using Biocrates AbsoluteIDQ kits in eight case-control studies nested within the European Prospective Investigation into Cancer and Nutrition (EPIC) cohort. Comprehensive examination of metabolomics measurements indicated that the pipeline improved the comparability of data across the studies. Our pipeline can be adapted to normalize other molecular data, including biomarkers as well as proteomics data, and could be used for pooling molecular datasets, for example in international consortia, to limit biases introduced by inter-study variability. This versatility of the pipeline makes our work of potential interest to molecular epidemiologists. | |
650 | 7 | a MEDICIN OCH HÄLSOVETENSKAPx Klinisk medicinx Cancer och onkologi0 (SwePub)302032 hsv//swe |
650 | 7 | a MEDICAL AND HEALTH SCIENCESx Clinical Medicinex Cancer and Oncology0 (SwePub)302032 hsv//eng |
650 | 7 | a NATURVETENSKAPx Data- och informationsvetenskapx Bioinformatik0 (SwePub)102032 hsv//swe |
650 | 7 | a NATURAL SCIENCESx Computer and Information Sciencesx Bioinformatics0 (SwePub)102032 hsv//eng |
653 | a Cancer epidemiology | |
653 | a Metabolites | |
653 | a Metabolomics | |
653 | a Normalization | |
653 | a Pooling | |
653 | a Technical variability | |
653 | a onkologi | |
653 | a Oncology | |
653 | a Cancer epidemiology | |
653 | a Metabolites | |
653 | a Metabolomics | |
653 | a Normalization | |
653 | a Pooling | |
653 | a Technical variability | |
700 | 1 | a His, Mathildeu International Agency for Research on Cancer, World Health Organization4 aut |
700 | 1 | a Rinaldi, Sabinau International Agency for Research on Cancer, World Health Organization4 aut |
700 | 1 | a Breeur, Marieu International Agency for Research on Cancer, World Health Organization4 aut |
700 | 1 | a Gicquiau, Audreyu International Agency for Research on Cancer, World Health Organization4 aut |
700 | 1 | a Hemon, Bertrandu International Agency for Research on Cancer, World Health Organization4 aut |
700 | 1 | a Overvad, Kimu Aarhus University4 aut |
700 | 1 | a Tjønneland, Anneu Danish Cancer Society4 aut |
700 | 1 | a Rostgaard-Hansen, Agnetha Linnu Danish Cancer Society4 aut |
700 | 1 | a Rothwell, Joseph A.u Versailles Saint-Quentin-en-Yvelines University4 aut |
700 | 1 | a Lecuyer, Lucieu Versailles Saint-Quentin-en-Yvelines University4 aut |
700 | 1 | a Severi, Gianlucau University of Florence,Versailles Saint-Quentin-en-Yvelines University4 aut |
700 | 1 | a Kaaks, Rudolfu German Cancer Research Centre4 aut |
700 | 1 | a Johnson, Theronu German Cancer Research Centre4 aut |
700 | 1 | a Schulze, Matthias B.u German Institute of Human Nutrition,University of Potsdam4 aut |
700 | 1 | a Palli, Domenicou Institute for Cancer Research, Prevention and Clinical Network (ISPRO)4 aut |
700 | 1 | a Agnoli, Claudiau Istituto Nazionale dei Tumori4 aut |
700 | 1 | a Panico, Salvatoreu University of Naples Federico II4 aut |
700 | 1 | a Tumino, Rosariou Provincial Health Authority (ASP) Ragusa4 aut |
700 | 1 | a Ricceri, Fulviou University of Turin,Azienda Sanitaria Locale Torino 34 aut |
700 | 1 | a Monique Verschuren, W.M.u National Institute for Public Health and the Environment (RIVM),University Medical Center Utrecht4 aut |
700 | 1 | a Engelfriet, Peteru National Institute for Public Health and the Environment (RIVM)4 aut |
700 | 1 | a Onland-Moret, Charlotteu University Medical Center Utrecht4 aut |
700 | 1 | a Vermeulen, Roelu University Medical Center Utrecht,Utrecht University4 aut |
700 | 1 | a Nøst, Therese Haugdahlu UiT The Arctic University of Norway, Tromsø4 aut |
700 | 1 | a Urbarova, Ilonau UiT The Arctic University of Norway, Tromsø4 aut |
700 | 1 | a Zamora-Ros, Raulu Bellvitge Biomedical Research Institute4 aut |
700 | 1 | a Rodriguez-Barranco, Miguelu Andalusian School Of Public Health (EASP)4 aut |
700 | 1 | a Amiano, Pilaru Biodonostia Health Research Institute4 aut |
700 | 1 | a Huerta, José Mariau Murcia Regional Health Council4 aut |
700 | 1 | a Ardanaz, Evau Health Research Institute of Navarra (IDISNA)4 aut |
700 | 1 | a Melander, Olleu Lund University,Lunds universitet,Kardiovaskulär forskning - hypertoni,Forskargrupper vid Lunds universitet,Cardiovascular Research - Hypertension,Lund University Research Groups,Skåne University Hospital4 aut0 (Swepub:lu)endo-ome |
700 | 1 | a Ottoson, Filipu Lund University4 aut |
700 | 1 | a Vidman, Lindau Umeå University,Umeå universitet,Onkologi4 aut0 (Swepub:umu)livi0018 |
700 | 1 | a Rentoft, Matildau Umeå University,Umeå universitet,Onkologi4 aut0 (Swepub:umu)maaret01 |
700 | 1 | a Schmidt, Julie A.u University of Oxford4 aut |
700 | 1 | a Travis, Ruth C.u University of Oxford4 aut |
700 | 1 | a Weiderpass, Elisabeteu International Agency for Research on Cancer, World Health Organization4 aut |
700 | 1 | a Johansson, Mattiasu International Agency for Research on Cancer, World Health Organization4 aut |
700 | 1 | a Dossus, Laureu International Agency for Research on Cancer, World Health Organization4 aut |
700 | 1 | a Jenab, Mazdau International Agency for Research on Cancer, World Health Organization4 aut |
700 | 1 | a Gunter, Marc J.u International Agency for Research on Cancer, World Health Organization4 aut |
700 | 1 | a Bermejo, Justo Lorenzou Heidelberg University4 aut |
700 | 1 | a Scherer, Dominiqueu Heidelberg University4 aut |
700 | 1 | a Salek, Reza M.u International Agency for Research on Cancer, World Health Organization4 aut |
700 | 1 | a Keski-Rahkonen, Pekkau International Agency for Research on Cancer, World Health Organization4 aut |
700 | 1 | a Ferrari, Pietrou International Agency for Research on Cancer, World Health Organization4 aut |
710 | 2 | a International Agency for Research on Cancer, World Health Organizationb Aarhus University4 org |
773 | 0 | t Metabolitesd : MDPIg 11:9q 11:9x 2218-1989 |
856 | 4 | u https://doi.org/10.3390/metabo11090631y Fulltext |
856 | 4 | u https://umu.diva-portal.org/smash/get/diva2:1600717/FULLTEXT01.pdfx primaryx Raw objecty fulltext:print |
856 | 4 | u https://www.mdpi.com/2218-1989/11/9/631/pdf |
856 | 4 | u http://dx.doi.org/10.3390/metabo11090631x freey FULLTEXT |
856 | 4 8 | u https://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-188135 |
856 | 4 8 | u https://doi.org/10.3390/metabo11090631 |
856 | 4 8 | u https://lup.lub.lu.se/record/13d41a4f-7812-4615-8ca3-76bee31b3125 |
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