Exact sequence variants should replace operational taxonomic units in marker-gene data analysis
… Susan P Holmes Susan P Holmes … Benjamin J Callahan, Paul J McMurdie, Susan P Holmes,
Exact sequence variants should replace operational taxonomic units in marker-gene data …
Exact sequence variants should replace operational taxonomic units in marker-gene data …
Immigration as a social determinant of health
H Castañeda, SM Holmes, DS Madrigal… - Annual review of …, 2015 - annualreviews.org
Although immigration and immigrant populations have become increasingly important foci
in public health research and practice, a social determinants of health approach has seldom …
in public health research and practice, a social determinants of health approach has seldom …
[HTML][HTML] Reporting guidelines for human microbiome research: the STORMS checklist
The particularly interdisciplinary nature of human microbiome research makes the organization
and reporting of results spanning epidemiology, biology, bioinformatics, translational …
and reporting of results spanning epidemiology, biology, bioinformatics, translational …
Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2
To the Editor—Rapid advances in DNA-sequencing and bioinformatics technologies in the
past two decades have substantially improved understanding of the microbial world. This …
past two decades have substantially improved understanding of the microbial world. This …
DADA2: High-resolution sample inference from Illumina amplicon data
We present the open-source software package DADA2 for modeling and correcting Illumina-sequenced
amplicon errors ( https://github.com/benjjneb/dada2 ). DADA2 infers sample …
amplicon errors ( https://github.com/benjjneb/dada2 ). DADA2 infers sample …
The DNA sequence of human chromosome 22
…, R Hall, G Hall-Tamlyn, RW Heathcott, S Ho, S Holmes… - Nature, 1999 - nature.com
Abstract Knowledge of the complete genomic DNA sequence of an organism allows a systematic
approach to defining its genetic components. The genomic sequence provides access …
approach to defining its genetic components. The genomic sequence provides access …
[HTML][HTML] phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data
PJ McMurdie, S Holmes - PloS one, 2013 - journals.plos.org
Background The analysis of microbial communities through DNA sequencing brings many
challenges: the integration of different types of data with methods from ecology, genetics, …
challenges: the integration of different types of data with methods from ecology, genetics, …
The development and evaluation of the Earth Gravitational Model 2008 (EGM2008)
NK Pavlis, SA Holmes, SC Kenyon… - Journal of geophysical …, 2012 - Wiley Online Library
EGM2008 is a spherical harmonic model of the Earth's gravitational potential, developed by
a least squares combination of the ITG‐GRACE03S gravitational model and its associated …
a least squares combination of the ITG‐GRACE03S gravitational model and its associated …
[HTML][HTML] Waste not, want not: why rarefying microbiome data is inadmissible
PJ McMurdie, S Holmes - PLoS computational biology, 2014 - journals.plos.org
Current practice in the normalization of microbiome count data is inefficient in the statistical
sense. For apparently historical reasons, the common approach is either to use simple …
sense. For apparently historical reasons, the common approach is either to use simple …
Orexin A activates locus coeruleus cell firing and increases arousal in the rat
…, ML Evans, TA Wattam, S Holmes… - Proceedings of the …, 1999 - National Acad Sciences
The localization of orexin neuropeptides in the lateral hypothalamus has focused interest on
their role in ingestion. The orexigenic neurones in the lateral hypothalamus, however, …
their role in ingestion. The orexigenic neurones in the lateral hypothalamus, however, …