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 …
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 …
Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows
T Van Den Bossche, BJ Kunath, K Schallert… - Nature …, 2021 - nature.com
Metaproteomics has matured into a powerful tool to assess functional interactions in
microbial communities. While many metaproteomic workflows are available, the impact of …
microbial communities. While many metaproteomic workflows are available, the impact of …
Function is what counts: how microbial community complexity affects species, proteome and pathway coverage in metaproteomics
P Lohmann, SS Schäpe, SB Haange… - Expert review of …, 2020 - Taylor & Francis
Introduction: Metaproteomics is an established method to obtain a comprehensive
taxonomic and functional view of microbial communities. After more than a decade, we are …
taxonomic and functional view of microbial communities. After more than a decade, we are …
[PDF][PDF] 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 …
MAPLE: A microbiome analysis pipeline enabling optimal peptide search and comparative taxonomic and functional analysis
W Huang, MA Kane - Journal of Proteome Research, 2021 - ACS Publications
Metaproteomics by mass spectrometry (MS) is a powerful approach to profile a large number
of proteins expressed by all organisms in a highly complex biological or ecological sample …
of proteins expressed by all organisms in a highly complex biological or ecological sample …
pepFunk: a tool for peptide-centric functional analysis of metaproteomic human gut microbiome studies
Motivation Enzymatic digestion of proteins before mass spectrometry analysis is a key
process in metaproteomic workflows. Canonical metaproteomic data processing pipelines …
process in metaproteomic workflows. Canonical metaproteomic data processing pipelines …
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 …
A straightforward and efficient analytical pipeline for metaproteome characterization
A Tanca, A Palomba, S Pisanu, M Deligios… - Microbiome, 2014 - Springer
Background The massive characterization of host-associated and environmental microbial
communities has represented a real breakthrough in the life sciences in the last years. In this …
communities has represented a real breakthrough in the life sciences in the last years. In this …