Literature
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Last synced: Sep 14, 2026
Journal Articles
Past 30 days · ranked by 2-year mean citedness
Integrating multi-omics technologies to decipher microbiome functions
NEWT. Van Den Bossche, Eunice Lazau, Velma T. E. Aho, J. Blakeley-Ruiz, Maximilian Wolf, B. Kunath, Luis E. Valentin-Alvarado, P. Hellwig, Pieter Verschaffelt, A. Rajczewski, J. Henderickx, T. Suomi, Xian Feng, Shruti Shah, Lennart Martens, D. Benndorf, Samir R. Damare, B. Haak, Sven-Bastiaan Haange, P. Piehowski, Anne Kupczok, Daniel Figeys, Bart Mesuere, M. Palmblad, R. Hettich, L. Elo, J. Vizcaíno, Neha Garg, Zhong Wang, M. Arıkan, L. McCue, T. Griffin, Laure-Alix Clerbaux, Robert Heyer, Marnix M. Medema, S. Matallana-Surget, D. Gómez-Varela, T. Muth, B. Tillett, J. Armengaud, Robert D. Finn, Paul Wilmes, J. Caporaso, L. Grenga, P. Jagtap
Gut microbiota-derived imidazole propionate promotes primary sclerosing cholangitis via p38 signalling.
Antonio Molinaro, P. Braadland, G. Carpino, Alba Carreras, M. Nikolaidis, Petra Hanzely, K. Beck, A. Ali, L. Bossen, A. Frank, Annika Lundqvist, B. Juran, Diletta Overi, Lei Geng, Enya Amundsen-Isaksen, H. M. Reims, Ida Björk, K. Grzyb, A. Abildgaard, T. Folseraas, M. Cornillet, Holmfridur Helgadottir, Bryan M. McCauley, L. Cristoferi, Marco Carbone, V. Cardinale, M. Høivik, L. Engesæter, S. Tjønnfjord, Adrian McCann, P. Ueland, M. Vesterhus, T. H. Karlsen, H. Grønbæk, Eugenio Gaudio, Konstantinos N. Lazaridis, A. Bergquist, E. Melum, F. Bäckhed, J. Hov
MetaCAT enables reconstruction of high-quality microbial genomes and their association with host traits from metagenomic data.
Cong-Cong Liu, Shan-Shan Dong, Jing Guo, Zhen Xu, Chen Wang, Yun-Xia Li, Li-Li Meng, Xi-Cheng Yang, Meng Li, Kun Fu, Yan Guo, Tie-Lin Yang
Separating extracellular from intracellular fecal metabolites exposes cross-feeding architecture in the gut: exploring metabolite partitioning and ecological associations
Masaaki Hirayama, Fuka Takame, T. Maeda, Kenichi Kashihara, Mikako Ito, Kinji Ohno, J. Ueyama
Gut microbiome signatures during acute infection are associated with long COVID
I. Comba, R. Mars, Lu Yang, Mitchell Dumais, Jun Chen, T. V. Van Gorp, Jonathan J. Harrington, Jason P. Sinnwell, Stephen Johnson, L. Holland, Adam K. Khan, Efrem S. Lim, Christopher Aakre, Arjun P. Athreya, Georg K. Gerber, Jack C O'Horo, K. Lazaridis, Purna C. Kashyap
Sphingolipid Remodeling in Colorectal Cancer Reveals a Continuum-like Metabolic Organization
NEWAdam R. Markowski, Karolina Stępniak, Piotrek Zabielski, H. R. Hady, Aleksander Łukaszewicz, Paulina Głuszyńska, Patrycja Sadowska, Urszula Chlabicz, Agnieszka U. Błachnio-Zabielska
The human oral and airway viral genome catalog from metagenomes enables virome characterization informing respiratory health.
Xiao-Hui Zou, Yawen Ni, Qing Zhang, Kang Chang, Sheng-Hui Li, Yue Zhang, Hai-Long Yu, Chun Wang, Xiao-Xuan Yao, Shi-Bin Chen, Xiao-Lu Nie, Jian-Kang Zhao, Bing-Huai Lu, Yan-Qin Li, Ning Gan, Zhong Wang, Qiu-Long Yan, B. Cao
Species and strain sharing in the vaginal microbiome of mothers and their adult daughters.
Maria Pinedo-Bardales, Isabel Erreygers, C. Allonsius, Margo Hiel, Tom Eilers, T. Van Rillaer, T. Gehrmann, S. Ahannach, J. Dillen, I. De Boeck, V. Verhoeven, S. Van Puyvelde, N. Segata, S. Wittouck, Sarah Lebeer
Complete genome-derived metabolic interactions reveal the impact of gut ecology on human health.
Yu-He Gu, Haoyu Wang, Jin-Long Yang, Tao Zeng, He-Wei Liang, Wenxin He, Mengmeng Wang, Zhi-Nan Wu, Liye Yang, Yu-sheng Xu, Juan Zhao, Yu-Ning Zhang, Yu-Liang Dong, Yiyi Zhong, Haifeng Zhang, Jinhong Wang, Xing Rao, Yangfeng Wen, Xiaofang Sun, Karsten Kristiansen, Yu Tian, Xin Tong, Ya Wang, Juan Yang, Fushu Liu, Zejun Yang, Wangsheng Li, Bo Wang, Peng Gao, Jun Xu, Ying-Lei Miao, Xin Jin, Chuan Liu, Xun Xu, Yang Sun, Feng Zhao, Liang Xiao, Yuan-Qiang Zou
Joint-RPCA: domain-aware multi-omics integration for systems microbiology.
Bianca Cordazzo Vargas, C. Martino, A. Dilmore, Jessica L. Metcalf, Z. Burcham, L. Lahti, Aituar Bektanov, Tuomas Borman, V. Salomaa, T. Niiranen, A. Havulinna, Rachel Gregor, Stav Eyal, Michael M. Meijler, Itzhak Mizrahi, S. Song, Andrew Bartko, P. Dorrestein, James T. Morton, Daniel McDonald, R. Knight, L. Shenhav
narrowPASEF: A Sample-Aware diaPASEF Method Optimization Strategy Improving Differential Proteomics Performance on Low-Abundance Proteins.
J. Rijal, Imane Charmarke Askar, Aurélie Hirschler, Arthur Declercq, L. Martens, Christine Schaeffer-Reiss, Dominique Bagnard, C. Carapito
Accurate MAG reconstruction from a complex soil microbiome through combined short- and HiFi long-reads metagenomics
Carole Belliardo, N. Maurice, A. Péré, Samuel Mondy, Alain Franc, M. Bailly-Bechet, Claire Lemaitre, R. Vicedomini, Jean-Marc Frigerio, F. Salin, E. Belmonte, Marie Gislard, D. Sherman, Pierre Abad, C. Frioux, Étienne G. J. Danchin
Bile Microbiota Profiling in Obese and Non-Obese Patients: A Comparison of Shotgun Metagenomics and 16S rRNA Amplicon Sequencing
C. Carissimi, Francesco De Angelis, I. Laudadio, Valerio Fulci, L. Stronati, Sara Manella, D. Alvaro, Giorgio D'Andrea, G. Silecchia, V. Cardinale
Whole-Genome Sequencing and Intestinal Metagenome Sequencing Revealed the Carriage and Transmission of Salmonella enterica in Xinjiang, China
Jia Huang, Hong-Qing Zhao, Fu-Long Wang, Bei-Ni Zeng, Zi-Chao Ma, Rong Wang, Yang Yang, Muhetaer Amier, Bairena Yilihaer, Yao-Qin Lu
Functional gut microbiome dysbiosis is associated with overall survival after solid organ transplantation
NEWS. Zhang, C. Swarte, T. Investigators, T. Knobbe, K. Damman, E. Verschuuren, T.-C. Gan, H. Harmsen, V. D. de Meijer, H. Blokzijl, S. Bakker, R. Gacesa, R. Weersma, J. BjoÌrk
Microbial and inflammatory features linked to distal sensory polyneuropathy in people with HIV.
Lora Khatib, Mohammadsobhan S. Andalibi, C. Vanpouille, Azin Tavasoli, Daniel McDonald, Alan B. Wells, M. Trunfio, Jennifer E. Iudicello, D. Franklin, Antonio González, Wendy Fitzgerald, Robert K. Heaton, David Moore, S. Letendre, S. Gianella, R. Knight, Ronald J. Ellis
Multivariable-adjusted multi-omics signatures reveal gut microbial functional alterations and metabolic dysregulation in intrinsic capacity decline
Ye Liu, Chi Zhang, Yu-Shan Zhang, Jing Pang, Jie Zhang, Jing Li, Hong Shi, Xin He, Yu-Ting Kang, Ji Shen
Preprints
Past 10 days · bioRxiv, medRxiv, arXiv, etc.
GenomeCompendium: A database for the integrated analysis of repeats, assembly quality and functional content of complete prokaryotic genomes
NEWTiberiu Totu, Garance Jaques, B. Heiniger, Tina Segessemann, M. Schmid, Marc Bourqui, Adrian Wicki, J. Frey, Christian H. Ahrens
Mobile genetic elements are active and responsive to community context in model microbial consortium
NEWLillian C. Lowrey, Josué A. Rodríguez-Ramos, A. Zimmerman, William C. Nelson, James D. Jaryenneh, Kelly P. Williams, K. Hofmockel, J. Schoeniger, Catherine M. Mageeney