Assessment and Selection of Competing Models for Zero-Inflated Microbiome Data

Comparison of methods for fecal microbiome biospecimen collection

(2014) Christine Dominianni et al.   BMC MICROBIOLOGY

Primate vaginal microbiomes exhibit species specificity without universal Lactobacillus dominance

(2014) Suleyman Yildirim et al.   ISME Journal

Identifying Keystone Species in the Human Gut Microbiome from Metagenomic Timeseries Using Sparse Linear Regression

(2014) Charles K. Fisher et al.   PLoS One

The Female Urinary Microbiome: a Comparison of Women with and without Urgency Urinary Incontinence

(2014) M. M. Pearce et al.   mBio

Cell-associated bacteria in the human lung microbiome

(2014) Robert P Dickson et al.   Microbiome

Host Genotype Shapes the Foliar Fungal Microbiome of Balsam Poplar (Populus balsamifera)

(2013) Miklós Bálint et al.   PLoS One

PANDAseq: paired-end assembler for illumina sequences

(2012) Andre P Masella et al.   BMC BIOINFORMATICS

A metagenome-wide association study of gut microbiota in type 2 diabetes

(2012) Junjie Qin et al.   NATURE

Microbial Co-occurrence Relationships in the Human Microbiome

(2012) Karoline Faust et al.   PLoS Computational Biology

The analysis of zero-inflated count data: Beyond zero-inflated Poisson regression.

(2011) Tom Loeys et al.   BRITISH JOURNAL OF MATHEMATICAL & STATISTICAL PSYCHOLOGY

Application of Two-Part Statistics for Comparison of Sequence Variant Counts

(2011) Brandie D. Wagner et al.   PLoS One

Zero-Inflated and Hurdle Models of Count Data with Extra Zeros: Examples from an HIV-Risk Reduction Intervention Trial

(2011) Mei-Chen Hu et al.   AMERICAN JOURNAL OF DRUG AND ALCOHOL ABUSE

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Gut Microbiota in Human Adults with Type 2 Diabetes Differs from Non-Diabetic Adults

(2010) Nadja Larsen et al.   PLoS One

Traditional occupancy–abundance models are inadequate for zero-inflated ecological count data

(2009) Gudeta Sileshi et al.   ECOLOGICAL MODELLING