Metagenomics and its connection to microbial community organization

por Fuhrman, Jed A.
Publicado 2012

Contrasting diversity patterns of prokaryotes and protists over time and depth at the San-Pedro Ocean Time series

por Yeh, Yi-Chun, Fuhrman, Jed A.
Publicado 2022

Effects of phytoplankton, viral communities, and warming on free-living and particle-associated marine prokaryotic community structure

por Yeh, Yi-Chun, Fuhrman, Jed A.
Publicado 2022

Metagenomics and Quantitative Stable Isotope Probing Offer Insights into Metabolism of Polycyclic Aromatic Hydrocarbon Degraders in Chronically Polluted Seawater

por Sieradzki, Ella T., Morando, Michael, Fuhrman, Jed A.
Publicado 2021

ViralCC retrieves complete viral genomes and virus-host pairs from metagenomic Hi-C data

por Du, Yuxuan, Fuhrman, Jed A., Sun, Fengzhu
Publicado 2023

Estimating maximal microbial growth rates from cultures, metagenomes, and single cells via codon usage patterns

por Weissman, J. L., Hou, Shengwei, Fuhrman, Jed A.
Publicado 2021

Diverse Marine T4-like Cyanophage Communities Are Primarily Comprised of Low-Abundance Species Including Species with Distinct Seasonal, Persistent, Occasional, or Sporadic Dynamic...

por Dart, Emily, Fuhrman, Jed A., Ahlgren, Nathan A.
Publicado 2023

Phage–bacterial contig association prediction with a convolutional neural network

por Tang, Tianqi, Hou, Shengwei, Fuhrman, Jed A, Sun, Fengzhu
Publicado 2022

Towards enhanced and interpretable clustering/classification in integrative genomics

por Lu, Yang Young, Lv, Jinchi, Fuhrman, Jed A., Sun, Fengzhu
Publicado 2017

Taxon Disappearance from Microbiome Analysis Reinforces the Value of Mock Communities as a Standard in Every Sequencing Run

por Yeh, Yi-Chun, Needham, David M., Sieradzki, Ella T., Fuhrman, Jed A.
Publicado 2018

Proteorhodopsins dominate the expression of phototrophic mechanisms in seasonal and dynamic marine picoplankton communities

por Sieradzki, Ella T., Fuhrman, Jed A., Rivero-Calle, Sara, Gómez-Consarnau, Laura
Publicado 2018

Benchmarking Community-Wide Estimates of Growth Potential from Metagenomes Using Codon Usage Statistics

por Weissman, J. L., Peras, Marie, Barnum, Tyler P., Fuhrman, Jed A.
Publicado 2022

Benchmarking microbial growth rate predictions from metagenomes

por Long, Andrew M., Hou, Shengwei, Ignacio-Espinoza, J. Cesar, Fuhrman, Jed A.
Publicado 2020

Evaluating and Improving Small Subunit rRNA PCR Primer Coverage for Bacteria, Archaea, and Eukaryotes Using Metagenomes from Global Ocean Surveys

por McNichol, Jesse, Berube, Paul M., Biller, Steven J., Fuhrman, Jed A.
Publicado 2021

Accurate Genome Relative Abundance Estimation Based on Shotgun Metagenomic Reads

por Xia, Li C., Cram, Jacob A., Chen, Ting, Fuhrman, Jed A., Sun, Fengzhu
Publicado 2011

Alignment-free [Formula: see text] oligonucleotide frequency dissimilarity measure improves prediction of hosts from metagenomically-derived viral sequences

por Ahlgren, Nathan A., Ren, Jie, Lu, Yang Young, Fuhrman, Jed A., Sun, Fengzhu
Publicado 2017

VirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data

por Ren, Jie, Ahlgren, Nathan A., Lu, Yang Young, Fuhrman, Jed A., Sun, Fengzhu
Publicado 2017

Immune lag is a major cost of prokaryotic adaptive immunity during viral outbreaks

por Weissman, JL, Alseth, Ellinor O., Meaden, Sean, Westra, Edze R., Fuhrman, Jed A.
Publicado 2021

Symbiotic UCYN-A strains co-occurred with El Niño, relaxed upwelling, and varied eukaryotes over 10 years off Southern California

por Fletcher-Hoppe, Colette, Yeh, Yi-Chun, Raut, Yubin, Weissman, J. L., Fuhrman, Jed A.
Publicado 2023

Prediction of virus-host infectious association by supervised learning methods

por Zhang, Mengge, Yang, Lianping, Ren, Jie, Ahlgren, Nathan A., Fuhrman, Jed A., Sun, Fengzhu
Publicado 2017