Metabolomic analysis of serum and hippocampal tissues

A total of 50 μL of serum and approximately 10mg of hippocampal tissues (wet weight) were used for sample preparation following previously reported methods (51 (link), 52 (link)). Samples were analyzed using an Agilent 6550 iFunnel Q-TOF LC/MS system (Agilent) with an Acquity UPLC HSS T3 column (53 (link)). Raw data were converted to mzXML format by ProteoWizard 3.0 package and uploaded to XCMS online (54 (link)). Metabolites were identified against METLIN (55 (link)) and Human Metabolome Database (56 (link)). Multivariate analysis was performed with SIMCA 13.0 (Umetrics). VIP scores were assessed. Discriminated metabolites were defined with a VIP > 1.0 by partial least squares-discriminant analysis (PLS-DA), P < 0.01, FDR-adjusted P < 0.05. Pathway enrichment analysis were analyzed using Metaboanalyst 4.0 (57 (link)).

Free full text: Click here

Mu C., Nikpoor N., Tompkins T.A., Choudhary A., Wang M., Marks W.N., Rho J.M., Scantlebury M.H, & Shearer J. (2022). Targeted gut microbiota manipulation attenuates seizures in a model of infantile spasms syndrome. JCI Insight, 7(12), e158521.

Publication 2022

Agilent 6550 iFunnel Q-TOF LC/MS system UPLC HSS T3 column SIMCA 13.0

Human Metabolome Serum Tissues

Corresponding Organization : University of Calgary

Other organizations : Lallemand (Canada), Alberta Children's Hospital, Rady Children's Hospital-San Diego, University of California, San Diego

Top 5 similar protocols

Protocol cited in 1 other protocol

Variable analysis

independent variables

Serum sample preparation
Hippocampal tissue sample preparation

dependent variables

Metabolite profiles identified using Agilent 6550 iFunnel Q-TOF LC/MS system
Metabolite identification against METLIN and Human Metabolome Database
Multivariate analysis using SIMCA 13.0
VIP scores from partial least squares-discriminant analysis (PLS-DA)
Pathway enrichment analysis using Metaboanalyst 4.0

control variables

Previously reported methods for sample preparation (references 51 and 52)
Acquity UPLC HSS T3 column for LC/MS analysis (reference 53)
ProteoWizard 3.0 package for converting raw data to mzXML format
XCMS online for data processing

controls

No positive or negative controls were explicitly mentioned in the provided information.

Annotations

Based on most similar protocols

Etiam vel ipsum. Morbi facilisis vestibulum nisl. Praesent cursus laoreet felis. Integer adipiscing pretium orci. Nulla facilisi. Quisque posuere bibendum purus. Nulla quam mauris, cursus eget, convallis ac, molestie non, enim. Aliquam congue. Quisque sagittis nonummy sapien. Proin molestie sem vitae urna. Maecenas lorem.

As authors may omit details in methods from publication, our AI will look for missing critical information across the 5 most similar protocols.

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Revolutionizing how scientists
search and build protocols!