Plichta, Damian R.

Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases

Lloyd-Price, J., Arze, C., Ananthakrishnan, A. N., Schirmer, M., Avila-Pacheco, J., Poon, T. W., Andrews, E., Ajami, N. J., Bonham, K. S., Brislawn, C. J., et al. (2019) · Nature

Gut microbiota and healthInflammatory Bowel Disease

Cited by 3,143

Human gut microbes impact host serum metabolome and insulin sensitivity

Pedersen, H. K., Gudmundsdottir, V., Nielsen, H. B., Hyotylainen, T., Nielsen, T., Jensen, B. A. H., Forslund, K., Hildebrand, F., Prifti, E., Falony, G., et al. (2016) · Nature

Gut microbiota and healthAdipokines, Inflammation, and Metabolic Diseases

Cited by 2,116

Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes

MetaHIT Consortium, Nielsen, H. B., Almeida, M., Juncker, A. S., Rasmussen, S., Li, J., Sunagawa, S., Plichta, D. R., Gautier, L., Pedersen, A. G., et al. (2014) · Nature Biotechnology

Genomics and Phylogenetic StudiesMicrobial Community Ecology and Physiology

Cited by 1,184

A defined commensal consortium elicits CD8 T cells and anti-cancer immunity

Tanoue, T., Morita, S., Plichta, D. R., Skelly, A. N., Suda, W., Sugiura, Y., Narushima, S., Vlamakis, H., Motoo, I., Sugita, K., et al. (2019) · Nature

Gut microbiota and healthT-cell and B-cell Immunology

Cited by 1,145

Novel bile acid biosynthetic pathways are enriched in the microbiome of centenarians

Sato, Y., Atarashi, K., Plichta, D. R., Arai, Y., Sasajima, S., Kearney, S. M., Suda, W., Takeshita, K., Sasaki, T., Okamoto, S., et al. (2021) · Nature

Gut microbiota and healthSteroid Chemistry and Biochemistry

Cited by 632

Akkermansia muciniphila induces intestinal adaptive immune responses during homeostasis

Ansaldo, E., Slayden, L. C., Ching, K. L., Koch, M. A., Wolf, N. K., Plichta, D. R., Brown, E. M., Graham, D. B., Xavier, R. J., Moon, J. J., et al. (2019) · Science

Gut microbiota and healthT-cell and B-cell Immunology

Cited by 566

Colonic transit time is related to bacterial metabolism and mucosal turnover in the gut

Roager, H. M., Hansen, L. B. S., Bahl, M. I., Frandsen, H. L., Carvalho, V., Gøbel, R. J., Dalgaard, M. D., Plichta, D. R., Sparholt, M. H., Vestergaard, H., et al. (2016) · Nature Microbiology

Gut microbiota and healthGastrointestinal motility and disorders

Cited by 449

A Synthesis-Based Reverse Metabolomics Approach for the Discovery of Chemical Structures from Humans and Animals.

Dorrestein, P., Gentry, E., Collins, S., Panitchpakdi, M., Belda-Ferre, P., Stewart, A., Wang, M., Jarmusch, A., Avila-Pacheco, J., Plichta, D., et al. (2021) · Nature

Metabolomics and Mass Spectrometry StudiesGut microbiota and health

Cited by 197

Identification of trypsin-degrading commensals in the large intestine

Li, Y., Watanabe, E., Kawashima, Y., Plichta, D. R., Wang, Z., Ujike, M., Ang, Q. Y., Wu, R., Furuichi, M., Takeshita, K., et al. (2022) · Nature

Gut microbiota and healthEscherichia coli research studies

Cited by 106

Identification of commensals and molecular components mediating trypsin degradation in the large intestine

Honda, K., Atarashi, K., Sasajima, S., Wang, Z., Nishiyama, K., Matsunaga, T., Zhang, X., Olle, B., Norman, J., Suda, W., et al. (2022) · Nature

Gut microbiota and healthEscherichia coli research studies

Cited by 106

Protein language models uncover carbohydrate-active enzyme function in metagenomics

Thurimella, K., Mohamed, A. M. T., Li, C., Vatanen, T., Graham, D. B., Owens, R. M., La Rosa, S. L., Plichta, D. R., Bacallado, S., & Xavier, R. J. (2025) · BMC Bioinformatics

Genomics and Phylogenetic StudiesMachine Learning in Bioinformatics

Cited by 9

Protein Language Models Uncover Carbohydrate-Active Enzyme Function in Metagenomics

Thurimella, K., Mohamed, A. M. T., Graham, D. B., Owens, R. M., La Rosa, S. L., Plichta, D. R., Bacallado, S., & Xavier, R. J. (2023) · bioRxiv (Cold Spring Harbor Laboratory)

Genomics and Phylogenetic StudiesMachine Learning in Bioinformatics

Cited by 7