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… flows, and evolved into scalable methods for scientific data analysis. In 2014 Dr. Fagnan became the JGI-NERSC … Nat Rev Microbiol 18, 313–314 (2020). https://doi.org/10.1038/s41579-020-0377-0 S. Pau and J.B. Bell and A.S. Almgren …

Enhancers. Science 3426157. Blow et al 2010. ChIP-Seq identification of weakly conserved heart enhancers. Nat Genet … Trust Prize studentship Editorial board member for Scientific Reports … Education … Selected Publications … Awards …

… across the plant kingdom. Nucleic acids research 51 (16), 8383-8401. JT Lovell et al., 2022. GENESPACE tracks regions …     Nucleic Acids Research 40, D1178. Publications … Scientific Advisory Board member, InterMine (www.intermine.org) … …

Q:  To what extent is natural soil a limit to identify molecules exchanged between plants and microbiomes … wanted to have enough replicates that would allow us to identify significant changes.  Q:  Any advice on metabolomics … for a not very well studied plant? Both qualify and quantify? A:  Yes, metabolomics itself does not require that a …

… support from the JGI. First they were able to identify the potential for methanogenesis, but questions … and computational analysis that enable systems-based scientific approaches to these challenges.  DOE’s Office of …

… plant, fungi and animal. This analysis led them to identify 2,938 putative AT  genes. Within the AT genes identified across different species, each organism has a …

… dimictic lake. Microbiome . Camargo A. et al. 2023. Identification of mobile genetic elements with geNomad. Nature …

… databases. In this case, the machine “learned” to identify a certain type of bacterial viruses or phages called … 70,000 microbial and metagenome datasets, ultimately identifying more than 10,000 inovirus-like sequences compared to … you’ve found the right features that you can use to identify the inoviruses.” Overhauling the Perception of Inovirus …

… new opportunities in multiple basic and applied scientific disciplines that relate directly and indirectly to … The comparative analysis of the five cotton genomes identified unique genes related to fiber and seed traits in the … and  G. hirsutum species. Unique genes were also identified in the other three wild species. “We thought, ‘In all …

DOE relevant cellulosic feedstocks. Schmutz provides scientific project management for the reference eukaryotic … adaptation in polyploid bioenergy switchgrass. Nature 590: 438-444. Mamidi, S et al. 2020. A genome resource for green … of agronomically valuable loci. Nature Biotechnology 38:1203-1210. Chen, ZJ et al. 2020. Genomic diversifications …

… and bioinformatics facilitates impactful scientific discoveries, supporting the DOE’s Biological and … Rubel, O., Prabhat, Mahoney, M., & Bowen, B. (2015). Identifying important ions and positions in mass spectrometry … MIDAS: a database-searching algorithm for metabolite identification in metabolomics. Analytical chemistry, 86(19), …

… 2024 Nature Sci Data. 11, 339. https://doi.org/10.1038/s41597-024-03069-7  p.eadg7888. DOI: … Nat Commun. 13, 2510 (2022). https://doi.org/10.1038/s41467-022-30118-9 Swift CL, et al. Anaerobic gut fungi … grassland soil C-N compound turnover is depth stratified, rainfall dependent, and is mediated by genomically …