| Genome sequencing of sewage detects regionally prevalent SARS-CoV-2 variants A Crits-Christoph, RS Kantor, MR Olm, ON Whitney, B Al-Shayeb, YC Lou, ... MBio 12 (1), e02703-20, 2021 | 333 | 2021 |
| Species-and site-specific genome editing in complex bacterial communities BE Rubin, S Diamond, BF Cress, A Crits-Christoph, YC Lou, AL Borges, ... Nature microbiology 7 (1), 34-47, 2022 | 215 | 2022 |
| Infant gut strain persistence is associated with maternal origin, phylogeny, and traits including surface adhesion and iron acquisition YC Lou, MR Olm, S Diamond, A Crits-Christoph, BA Firek, R Baker, ... Cell Reports Medicine 2 (9), 2021 | 73 | 2021 |
| Widespread stop-codon recoding in bacteriophages may regulate translation of lytic genes AL Borges, YC Lou, R Sachdeva, B Al-Shayeb, PI Penev, AL Jaffe, S Lei, ... Nature microbiology 7 (6), 918-927, 2022 | 47* | 2022 |
| Contamination source modeling with SCRuB improves cancer phenotype prediction from microbiome data GI Austin, H Park, Y Meydan, D Seeram, T Sezin, YC Lou, BA Firek, ... Nature Biotechnology 41 (12), 1820-1828, 2023 | 31 | 2023 |
| Using strain-resolved analysis to identify contamination in metagenomics data YC Lou, J Hoff, MR Olm, J West-Roberts, S Diamond, BA Firek, ... Microbiome 11 (1), 36, 2023 | 21 | 2023 |
| Genetic and behavioral adaptation of Candida parapsilosis to the microbiome of hospitalized infants revealed by in situ genomics, transcriptomics, and proteomics PT West, SL Peters, MR Olm, FB Yu, H Gause, YC Lou, BA Firek, R Baker, ... Microbiome 9, 1-17, 2021 | 19 | 2021 |
| Infant gut DNA bacteriophage strain persistence during the first 3 years of life YC Lou, LX Chen, AL Borges, J West-Roberts, BA Firek, MJ Morowitz, ... Cell Host & Microbe 32 (1), 35-47. e6, 2024 | 17 | 2024 |
| Infant microbiome cultivation and metagenomic analysis reveal Bifidobacterium 2’-fucosyllactose utilization can be facilitated by coexisting species YC Lou, BE Rubin, MC Schoelmerich, KS DiMarco, AL Borges, ... Nature Communications 14 (1), 7417, 2023 | 14* | 2023 |
| Species-and site-specific genome editing in complex bacterial communities. Nat Microbiol 7: 34–47 BE Rubin, S Diamond, BF Cress, A Crits-Christoph, YC Lou, AL Borges, ... | 8 | 2022 |