[HTML][HTML] Current concepts, advances, and challenges in deciphering the human microbiota with metatranscriptomics

T Ojala, AE Häkkinen, E Kankuri, M Kankainen - Trends in Genetics, 2023 - cell.com
Metatranscriptomics refers to the analysis of the collective microbial transcriptome of a
sample. Its increased utilization for the characterization of human-associated microbial …

[HTML][HTML] Understanding human health through metatranscriptomics

T Ojala, E Kankuri, M Kankainen - Trends in Molecular Medicine, 2023 - cell.com
Metatranscriptomics has revolutionized our ability to explore and understand transcriptional
programs in microbial communities. Moreover, it has enabled us to gain deeper and more …

Metatranscriptomics for the human microbiome and microbial community functional profiling

Y Zhang, KN Thompson, T Branck, Y Yan… - Annual Review of …, 2021 - annualreviews.org
Shotgun metatranscriptomics (MTX) is an increasingly practical way to survey microbial
community gene function and regulation at scale. This review begins by summarizing the …

Bioinformatics tools for quantitative and functional metagenome and metatranscriptome data analysis in microbes

SY Niu, J Yang, A McDermaid, J Zhao… - Briefings in …, 2018 - academic.oup.com
Metagenomic and metatranscriptomic sequencing approaches are more frequently being
used to link microbiota to important diseases and ecological changes. Many analyses have …

Determining microbial products and identifying molecular targets in the human microbiome

R Joice, K Yasuda, A Shafquat, XC Morgan… - Cell metabolism, 2014 - cell.com
Human-associated microbes are the source of many bioactive microbial products (proteins
and metabolites) that play key functions both in human host pathways and in microbe …

COMAN: a web server for comprehensive metatranscriptomics analysis

Y Ni, J Li, G Panagiotou - BMC genomics, 2016 - Springer
Background Microbiota-oriented studies based on metagenomic or metatranscriptomic
sequencing have revolutionised our understanding on microbial ecology and the roles of …

Use of metatranscriptomics in microbiome research

S Bashiardes… - … and biology insights, 2016 - journals.sagepub.com
The human intestinal microbiome is a microbial ecosystem that expresses as many as 100
times more genes than the human host, thereby constituting an important component of the …

Human microbiome acquisition and bioinformatic challenges in metagenomic studies

V D'Argenio - International journal of molecular sciences, 2018 - mdpi.com
The study of the human microbiome has become a very popular topic. Our microbial
counterpart, in fact, appears to play an important role in human physiology and health …

Genome-resolved metagenomics: a game changer for microbiome medicine

N Kim, J Ma, W Kim, J Kim, P Belenky… - Experimental & Molecular …, 2024 - nature.com
Recent substantial evidence implicating commensal bacteria in human diseases has given
rise to a new domain in biomedical research: microbiome medicine. This emerging field …

Relating the metatranscriptome and metagenome of the human gut

EA Franzosa, XC Morgan, N Segata… - Proceedings of the …, 2014 - National Acad Sciences
Although the composition of the human microbiome is now well-studied, the microbiota's> 8
million genes and their regulation remain largely uncharacterized. This knowledge gap is in …