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Qualitative and Quantitative Shotgun Proteomics Data Analysis from Data-Dependent Acquisition Mass Spectrometry

Methods in molecular biology (Clifton, N.J.), 2021, Vol.2259, p.297

Meyer, Jesse G

2021

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Positional SHAP (PoSHAP) for Interpretation of machine learning models trained from biological sequences

PLoS computational biology, 2022-01, Vol.18 (1), p.e1009736-e1009736

2022

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The Mitochondrial Acylome Emerges: Proteomics, Regulation by Sirtuins, and Metabolic and Disease Implications

Cell metabolism, 2018-03, Vol.27 (3), p.497-512

2018

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Clinical applications of quantitative proteomics using targeted and untargeted data-independent acquisition techniques

Expert review of proteomics, 2017-05, Vol.14 (5), p.419-429

2017

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Deep learning neural network tools for proteomics

Cell reports methods, 2021-06, Vol.1 (2), p.100003-100003, Article 100003

Meyer, Jesse G.

2021

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Regulation of UCP1 and Mitochondrial Metabolism in Brown Adipose Tissue by Reversible Succinylation

Molecular cell, 2019-05, Vol.74 (4), p.844-857.e7

2019

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Global detection of human variants and isoforms by deep proteome sequencing

Nature biotechnology, 2023-12, Vol.41 (12), p.1776-1786

2023

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Dietary Sugars Alter Hepatic Fatty Acid Oxidation via Transcriptional and Post-translational Modifications of Mitochondrial Proteins

Cell metabolism, 2019-10, Vol.30 (4), p.735-753.e4

2019

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Site-specific identification and quantitation of endogenous SUMO modifications under native conditions

Nature communications, 2017-10, Vol.8 (1), p.1171-11, Article 1171

2017

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Identification of Novel Protein Lysine Acetyltransferases in Escherichia coli

mBio, 2018-10, Vol.9 (5)

2018

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ChatGPT and large language models in academia: opportunities and challenges

BioData mining, 2023-07, Vol.16 (1), p.20-20, Article 20

2023

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Temporal dynamics of liver mitochondrial protein acetylation and succinylation and metabolites due to high fat diet and/or excess glucose or fructose

PloS one, 2018-12, Vol.13 (12), p.e0208973-e0208973

2018

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Simultaneous Quantification of the Acetylome and Succinylome by ‘One‐Pot’ Affinity Enrichment

Proteomics (Weinheim), 2018-09, Vol.18 (17), p.e1800123-n/a

2018

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Fast Proteome Identification and Quantification from Data-Dependent Acquisition-Tandem Mass Spectrometry (DDA MS/MS) Using Free Software Tools

Methods and protocols, 2019-03, Vol.2 (1), p.8

Meyer, Jesse G

2019

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A Complete Workflow for High Throughput Human Single Skeletal Muscle Fiber Proteomics

Journal of the American Society for Mass Spectrometry, 2023-09, Vol.34 (9), p.1858-1867

2023

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SUCLA2 mutations cause global protein succinylation contributing to the pathomechanism of a hereditary mitochondrial disease

Nature communications, 2020-11, Vol.11 (1), p.5927-5927, Article 5927

2020

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Protein Turnover in Aging and Longevity

Proteomics (Weinheim), 2018-03, Vol.18 (5-6), p.e1700108-n/a

2018

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Quantification of Site-specific Protein Lysine Acetylation and Succinylation Stoichiometry Using Data-independent Acquisition Mass Spectrometry

Journal of visualized experiments, 2018-04 (134)

2018

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Rapid Plasma Proteome Profiling via Nanoparticle Protein Corona and Direct Infusion Mass Spectrometry

Journal of proteome research, 2024-08, Vol.23 (8), p.3649-3658

2024

Volltextzugriff (PDF)

Phase variable acetylation of lipooligosaccharide modifies antibody production and opsonophagocytic killing of non-typeable Haemophilus influenzae

iScience, 2023-10, Vol.26 (10), p.107785, Article 107785

2023

Volltextzugriff (PDF)

Quantitative shotgun proteome analysis by direct infusion

Nature methods, 2020-12, Vol.17 (12), p.1222

2020

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Learning Drug Functions from Chemical Structures with Convolutional Neural Networks and Random Forests

Journal of chemical information and modeling, 2019-10, Vol.59 (10), p.4438-4449

2019

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Label-Free Quantification from Direct Infusion Shotgun Proteome Analysis (DISPA-LFQ) with CsoDIAq Software

Analytical chemistry (Washington), 2023-01, Vol.95 (2), p.677-685

2023

Volltextzugriff (PDF)

CsoDIAq Software for Direct Infusion Shotgun Proteome Analysis

Analytical chemistry (Washington), 2021-09, Vol.93 (36), p.12312-12319

2021

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Correction for Christensen et al., "Identification of Novel Protein Lysine Acetyltransferases in Escherichia coli"

mBio, 2019-04, Vol.10 (2)

2019

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Qualitative and Quantitative Shotgun Proteomics Data Analysis from Data-Dependent Acquisition Mass Spectrometry

Positional SHAP (PoSHAP) for Interpretation of machine learning models trained from biological sequences

The Mitochondrial Acylome Emerges: Proteomics, Regulation by Sirtuins, and Metabolic and Disease Implications

Clinical applications of quantitative proteomics using targeted and untargeted data-independent acquisition techniques

Deep learning neural network tools for proteomics

Regulation of UCP1 and Mitochondrial Metabolism in Brown Adipose Tissue by Reversible Succinylation

Global detection of human variants and isoforms by deep proteome sequencing

Dietary Sugars Alter Hepatic Fatty Acid Oxidation via Transcriptional and Post-translational Modifications of Mitochondrial Proteins

Site-specific identification and quantitation of endogenous SUMO modifications under native conditions

Identification of Novel Protein Lysine Acetyltransferases in Escherichia coli

ChatGPT and large language models in academia: opportunities and challenges

Temporal dynamics of liver mitochondrial protein acetylation and succinylation and metabolites due to high fat diet and/or excess glucose or fructose

Simultaneous Quantification of the Acetylome and Succinylome by ‘One‐Pot’ Affinity Enrichment

Fast Proteome Identification and Quantification from Data-Dependent Acquisition-Tandem Mass Spectrometry (DDA MS/MS) Using Free Software Tools

A Complete Workflow for High Throughput Human Single Skeletal Muscle Fiber Proteomics

SUCLA2 mutations cause global protein succinylation contributing to the pathomechanism of a hereditary mitochondrial disease

Protein Turnover in Aging and Longevity

Quantification of Site-specific Protein Lysine Acetylation and Succinylation Stoichiometry Using Data-independent Acquisition Mass Spectrometry

Rapid Plasma Proteome Profiling via Nanoparticle Protein Corona and Direct Infusion Mass Spectrometry

Phase variable acetylation of lipooligosaccharide modifies antibody production and opsonophagocytic killing of non-typeable Haemophilus influenzae

Quantitative shotgun proteome analysis by direct infusion

Learning Drug Functions from Chemical Structures with Convolutional Neural Networks and Random Forests

Label-Free Quantification from Direct Infusion Shotgun Proteome Analysis (DISPA-LFQ) with CsoDIAq Software

CsoDIAq Software for Direct Infusion Shotgun Proteome Analysis

Correction for Christensen et al., "Identification of Novel Protein Lysine Acetyltransferases in Escherichia coli"

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