MassIVE MSV000094572

Partial Public PXD051595

Evaluating single cell proteomics as a tool for understanding hepatotoxicity

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Description

Bulk and single human primary hepatocytes were obtained from a commercial source from a single human donor. Cells were grown according to vendor protocols and treated with DMSO control or acetaminophen at the IC50 dose previously determined by R. Bruderer et al., 2015. Single cells were isolated using a Tecan UNO system using vendor protocols. 400 nanogram of bulk cell lysates from each condition were analyzed using diaPASEF using a TIMSTOF Flex system coupled to an EvoSep One system and using a 44 minute total gradient (30SPD). Single isolated cells were ran with a method with a compable run to run time and diaPASEF method using an EasyNLC 1200 system coupled to a TIMSTOF SCP system. In the case of the latter, cells were separated on a PepSep C-18 75 um column operating at 200 nL/min. Bulk cell lysates were used to create a library in SpectroNaut 18 from which was used for the analysis of all single cells. [doi:10.25345/C5H41JZ3J] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: Hepatotoxicity ; Single cell proteomics ; diaPASEF

Contact

Principal Investigators:
(in alphabetical order) 		Benjamin C Orsburn, Johns Hopkins, USA
Submitting User: ben_orsburn
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Originally identified proteins that were automatically remapped by MassIVE to proteins in the SwissProt human reference database.

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Number of distinct proteins quantified across all analyses (original submission and reanalyses) associated with this dataset.

Distinct protein accessions are counted across all files submitted in the "Statistical Analysis of Quantified Analytes" category having a "Protein" column in this dataset.

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Number of distinct proteins found to be differentially abundant in at least one comparison across all analyses (original submission and reanalyses) associated with this dataset.

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Distinct protein accessions are counted across all files submitted in the "Statistical Analysis of Quantified Analytes" category having a "Protein" column in this dataset.

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