NovoLign: metaproteomics by sequence alignment
H Kleikamp, R van der Zwaan, R van Valderen… - bioRxiv, 2024 - biorxiv.org
Tremendous advances in mass spectrometric and bioinformatic approaches have expanded
proteomics into the field of microbial ecology. The commonly used spectral annotation …
proteomics into the field of microbial ecology. The commonly used spectral annotation …
Database-independent de novo metaproteomics of complex microbial communities
HBC Kleikamp, M Pronk, C Tugui, LG da Silva… - Cell Systems, 2021 - cell.com
Metaproteomics has emerged as one of the most promising approaches for determining the
composition and metabolic functions of complete microbial communities. Conventional …
composition and metabolic functions of complete microbial communities. Conventional …
Quantitative profiling of microbial communities by de novo metaproteomics
HBC Kleikamp, M Pronk, C Tugui, LG da Silva… - bioRxiv, 2020 - biorxiv.org
Metaproteomics has emerged as one of the most promising approaches for determining the
composition and metabolic functions of complete microbial communities. Conventional …
composition and metabolic functions of complete microbial communities. Conventional …
MetaX: A peptide centric metaproteomic data analysis platform using Operational Taxa-Functions (OTF)
Metaproteomics analyzes the functional dynamics of microbial communities by identifying
peptides and mapping them to the most likely proteins and taxa. The challenge in this field …
peptides and mapping them to the most likely proteins and taxa. The challenge in this field …
mPies: a novel metaproteomics tool for the creation of relevant protein databases and automatized protein annotation
J Werner, A Géron, J Kerssemakers… - Biology Direct, 2019 - Springer
Metaproteomics allows to decipher the structure and functionality of microbial communities.
Despite its rapid development, crucial steps such as the creation of standardized protein …
Despite its rapid development, crucial steps such as the creation of standardized protein …
Metaproteomics: sample preparation and methodological considerations
Meta-omic techniques have progressed rapidly in the past decade and are frequently used
in microbial ecology to study microorganisms in their natural ecosystems independent from …
in microbial ecology to study microorganisms in their natural ecosystems independent from …
Improving the quality of genome, protein sequence, and taxonomy databases: A prerequisite for microbiome meta‐omics 2.0
O Pible, J Armengaud - Proteomics, 2015 - Wiley Online Library
High‐throughput shotgun metaproteomic approaches on environmental or medical
microbiomes are producing huge amounts of tandem mass spectrometry data. These can be …
microbiomes are producing huge amounts of tandem mass spectrometry data. These can be …
metaExpertPro: a computational workflow for metaproteomics spectral library construction and data-independent acquisition mass spectrometry data analysis
Y Sun, Z Xing, S Liang, Z Miao, L Zhuo, W Jiang… - bioRxiv, 2023 - biorxiv.org
Background: Analysis of mass spectrometry-based metaproteomic data, in particular large-
scale data-independent acquisition MS (DIA-MS) data, remains a computational challenge …
scale data-independent acquisition MS (DIA-MS) data, remains a computational challenge …
MetaProClust-MS1: A tool for clustering metaproteomes using rapid MS1 profiling
Metaproteomics is used to explore the composition, dynamics and function of microbial
communities. How-ever, acquiring data by tandem mass spectrometry is time consuming …
communities. How-ever, acquiring data by tandem mass spectrometry is time consuming …
metaQuantome: an integrated, quantitative metaproteomics approach reveals connections between taxonomy and protein function in complex microbiomes
Microbiome research offers promising insights into the impact of microorganisms on
biological systems. Metaproteomics, the study of microbial proteins at the community level …
biological systems. Metaproteomics, the study of microbial proteins at the community level …