RT Journal Article
SR Electronic
T1 A comprehensive plasma metabolomics dataset for a cohort of mouse knockouts within the international mouse phenotyping consortium
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 624437
DO 10.1101/624437
A1 Dinesh K Barupal
A1 Ying Zhang
A1 Tong Shen
A1 Sili Fan
A1 Bryan S Roberts
A1 Patrick Fitzgerald
A1 Benjamin Wancewicz
A1 Luis Valdiviez
A1 Gert Wohlgemuth
A1 Gregory Byram
A1 YingYng Choy
A1 Bennett Haffner
A1 Megan R. Showalter
A1 Arpana Vaniya
A1 Clayton S Bloszies
A1 Jacob S Folz
A1 Tobias Kind
A1 Oliver Fiehn
YR 2019
UL http://biorxiv.org/content/early/2019/05/02/624437.abstract
AB Mouse knockouts allow studying gene functions. Often, multiple phenotypes are impacted when a gene is inactivated. The International Mouse Phenotyping Consortium (IPMC) has generated thousands of mouse knockouts and catalogued their phenotype data. We have acquired metabolomics data from 220 plasma samples of 30 mouse gene knockouts and corresponding wildtype mice from IMPC. To acquire comprehensive metabolomics data, we have used liquid chromatography (LC) combined with mass spectrometry (MS) for detecting polar and lipophilic compounds in an untargeted approach. We have also used targeted methods to measure bile acids, steroids and oxylipins. In addition, we have used gas chromatography GC-TOFMS for measuring primary metabolites. The metabolomics dataset reports 832 unique structurally identified metabolites from 124 chemical classes as determined by ChemRICH software. The GCMS and LCMS raw data files, intermediate and finalized data matrices, R-Scripts, annotation databases and extracted ion chromatograms are provided in this data descriptor. The dataset can be used for subsequent studies to link genetic variants with molecular mechanisms and phenotypes.Data Set The dataset is available at the MetabolomicsWorkbench repository (accession ID: ST001154)Data Set License license under which the data set is made available (CC0).