Generation of a Deep Mouse Brain Spectral Library for Transmembrane Proteome Profiling in Mental Disease Models

DOI: 10.1016/j.mcpro.2024.100777 Published: 2024/6 Keywords: DIA analysis workflows; G protein-coupled rece… Authors: Shanshan Li Page Count: 1

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Generation Of A Deep Mouse Brain Spectral Library For …

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Transmembrane (TM) proteins constitute over 30% of the mammalian proteome and play essential roles in mediating cell-cell communication, synaptic transmission, and plasticity in the …

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Generation Of A Murine SWATH-MS Spectral Library To Quantify …

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Mar 26, 2020 · For the purpose of spectral library generation, the dataset composed of a large number of runs should be strictly filtered. We used MAYU software to filter the dataset at 1% …

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FAQs about Generation of a Deep Mouse Brain Spectral Library for Transmembrane Proteome Profiling in Mental Disease Models Coupon?

Are low-abundance transmembrane proteins identified in mouse brain?

A similarly low coverage of GPCR identification (ID) was reported in another global proteomic analysis of human cells (56 GPCRs among 14,237 identified proteins) ( 16 ). Here, we present a new proteomic approach for deep and accurate profiling of low-abundance transmembrane protein families in the region-resolved mouse brain. ...

What spectral libraries are available for Drosophila and zebrafish?

The comprehensive spectral libraries for organisms such as human 13, drosophila 14, and zebrafish 15 have been published. Because of its close genetic and physiological similarities to humans, the mouse has been the premier mammalian model system for genetic and biomedical research. ...

Who performed the deep learning model training and spectral library generation?

R.L. performed the deep learning model training, spectral library generation, and MS data processing assisted by S.L. and T.D. C.T., T.D., and Hui L. performed the immunostaining and PLA experiments with the help of Z.Z. and Yan L. C.P. and L.X. produced the FZD7 antibody, and L.X. also performed the qPCR analysis. ...

How many transmembrane proteins are in a DDA spectral library?

This DDA experiment–derived spectral library (DDA library for short) comprised a total of 134,560 peptide precursors mapped to 7995 protein groups, of which 2510 were transmembrane proteins (with at least one transmembrane domain). Mouse genome encodes 524 GPCRs, 316 ion channels, and 296 transporters (protein lists in table S1). ...

How many novel GPCR peptides are present in mouse brain tissue?

Moreover, of the 412 novel GPCR peptides exclusively identified with the DIA hybrid library strategy, 53.6% were validated as present in mouse brain tissues based on orthogonal experimental measurement. ...

Can we build a virtual spectral library based on a deep learning model?

Recent innovative work by Gessulat et al. (2019) and Tiwary et al. (2019) demonstrated the feasibility of building a virtual spectral library based on separate predictions of fragment ion intensities and peptide retention times from deep learning models. ...