Tools for analysis of the microbiome

J Galloway-Peña, B Hanson - Digestive diseases and sciences, 2020 - Springer
Over the past decade, it has become exceedingly clear that the microbiome is a critical factor
in human health and disease and thus should be investigated to develop innovative …

[HTML][HTML] The role of the gut microbiota in lipid and lipoprotein metabolism

Y Yu, F Raka, K Adeli - Journal of clinical medicine, 2019 - mdpi.com
Both environmental and genetic factors contribute to relative species abundance and
metabolic characteristics of the intestinal microbiota. The intestinal microbiota and …

[HTML][HTML] The what, how and why of archaeological coprolite analysis

LM Shillito, JC Blong, EJ Green, EN van Asperen - Earth-Science Reviews, 2020 - Elsevier
Coprolites are a highly informative but still underutilized proxy for understanding past
environments, palaeodiets, and ancient human health. Here we provide a critical review of …

Taxonomical and functional changes in COVID‐19 faecal microbiome could be related to SARS‐CoV‐2 faecal load

L Grenga, O Pible, G Miotello, K Culotta… - Environmental …, 2022 - Wiley Online Library
Since the beginning of the pandemic caused by the severe acute respiratory syndrome
coronavirus 2 (SARS‐CoV‐2) the gastrointestinal (GI) tract has emerged as an important …

[HTML][HTML] Modern metaproteomics: a unique tool to characterize the active microbiome in health and diseases, and pave the road towards new biomarkers—example of …

C Henry, A Bassignani, M Berland, O Langella, H Sokol… - Cells, 2022 - mdpi.com
Thanks to the latest developments in mass spectrometry, software and standards,
metaproteomics is emerging as the vital complement of metagenomics, to make headway in …

[HTML][HTML] Computational prediction of secreted proteins in gram-negative bacteria

X Hui, Z Chen, J Zhang, M Lu, X Cai, Y Deng… - Computational and …, 2021 - Elsevier
Gram-negative bacteria harness multiple protein secretion systems and secrete a large
proportion of the proteome. Proteins can be exported to periplasmic space, integrated into …

[HTML][HTML] Microbiota profiling in esophageal diseases: Novel insights into molecular staining and clinical outcomes

A Barchi, L Massimino, FV Mandarino, E Vespa… - Computational and …, 2023 - Elsevier
Gut microbiota is recognized nowadays as one of the key players in the development of
several gastro-intestinal diseases. The first studies focused mainly on healthy subjects with …

Gut microbiota in ALS: possible role in pathogenesis?

PA McCombe, RD Henderson, A Lee… - Expert Review of …, 2019 - Taylor & Francis
Introduction: The gut microbiota has important roles in maintaining human health. The
microbiota and its metabolic byproducts could play a role in the pathogenesis of …

Human microbiota and personalized cancer treatments: role of commensal microbes in treatment outcomes for cancer patients

S Gately - Precision Medicine in Cancer Therapy, 2019 - Springer
The human gut microbiota consists of about 3.8× 10 13 microorganisms that play an
essential role in health, metabolism, and immunomodulation. These gut microbes alter …

A sectioning and database enrichment approach for improved peptide spectrum matching in large, genome-guided protein sequence databases

P Kumar, JE Johnson, C Easterly, S Mehta… - Journal of proteome …, 2020 - ACS Publications
Multiomics approaches focused on mass spectrometry (MS)-based data, such as
metaproteomics, utilize genomic and/or transcriptomic sequencing data to generate a …