Cosmos Nicolaou

Mining human microbiomes reveals an untapped source of peptide antibiotics

Marcelo D. T. Torres, Erin F. Brooks, Angela Cesaro, Hila Sberro et autres

Drug-resistant bacteria are outpacing traditional antibiotic discovery efforts. Here, we computationally screened 444,054 previously reported putative small protein families from 1,773 human metagenomes for antimicrobial properties, identifying 323 candidates encoded in small open reading frames (smORFs). To test our computational predictions, 78 …

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Human gut metagenomic mining reveals an untapped source of peptide antibiotics

Marcelo D. T. Torres, Erin F. Brooks, Angela Cesaro, Hila Sberro et autres

Abstract Drug-resistant bacteria are outpacing traditional antibiotic discovery efforts. Here, we computationally mined 444,054 families of putative small proteins from 1,773 human gut metagenomes, identifying 323 peptide antibiotics encoded in small open reading frames (smORFs). To test our computational predictions, 78 peptides …

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Simultaneous ribosome profiling of hundreds of microbes from the human microbiome

Brayon J. Fremin, Cosmos Nicolaou, Ami Siddharth Bhatt

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bhattlab/bhattlab_workflows: metariboseq_v1.0.0

Ben Siranosian, Eli L. Moss, jribado, Cosmos Nicolaou et autres

metariboseq release to obtain DOI via zenodo.

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Sensitive and specific multi-cancer detection and localization using methylation signatures in cell-free DNA

M.C. Liu, Geoffrey R. Oxnard, Eric A. Klein, Charles Swanton et autres

BACKGROUND: Early cancer detection could identify tumors at a time when outcomes are superior and treatment is less morbid. This prospective case-control sub-study (from NCT02889978 and NCT03085888) assessed the performance of targeted methylation analysis of circulating cell-free DNA (cfDNA) to detect and …

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Abstract LB-343: Development of plasma cell-free DNA (cfDNA) assays for early cancer detection: first insights from the Circulating Cell-Free Genome Atlas Study (CCGA)

Alexander A. Aravanis, Geoffrey R. Oxnard, Tara Maddala, Earl A. Hubbell et autres

Abstract CCGA [NCT02889978] is the largest study of cfDNA-based early cancer detection; the first CCGA learnings from multiple cfDNA assays are reported here. This prospective, multi-center, observational study has enrolled 10,012 of 15,000 demographically-balanced participants at 141 sites. Blood was collected from …

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