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List of works by Eric Franzosa

A conserved bacterial protein induces pancreatic beta cell expansion during zebrafish development

scientific article (publication date: 13 December 2016)

A proteome-scale map of the human interactome network

scientific article

A reproducible approach to high-throughput biological data acquisition and integration

scientific article

A statistical model for describing and simulating microbial community profiles

scientific article published on 13 September 2021

Advancing the microbiome research community

scientific article

Alterations in oral bacterial communities are associated with risk factors for oral and oropharyngeal cancer

scientific article published on 15 December 2017

Author Correction: Gut microbiome structure and metabolic activity in inflammatory bowel disease

scientific article published on 01 May 2019

Bacteroides-Derived Sphingolipids Are Critical for Maintaining Intestinal Homeostasis and Symbiosis

scientific article published on 01 May 2019

Biogeography of the intestinal mucosal and lumenal microbiome in the rhesus macaque

scientific article

Comparative genomics and genome biology of Campylobacter showae.

scientific article published in January 2019

Compositional and Temporal Changes in the Gut Microbiome of Pediatric Ulcerative Colitis Patients Are Linked to Disease Course

article

Computational reconstruction of protein-protein interaction networks: algorithms and issues

scientific article published on January 2009

Construction of functional linkage gene networks by data integration

scientific article

Dynamics of metatranscription in the inflammatory bowel disease gut microbiome

scientific article

Erratum: MetaPhlAn2 for enhanced metagenomic taxonomic profiling

scholarly article published in Nature Methods

Erratum: Strains, functions and dynamics in the expanded Human Microbiome Project

scientific article published on 12 October 2017

Experimental design and quantitative analysis of microbial community multiomics

scientific article published on 30 November 2017

Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4

Fluoride Depletes Acidogenic Taxa in Oral but Not Gut Microbial Communities in Mice

scientific article published on July 2017

Functional profiling of the gut microbiome in disease-associated inflammation

scientific article published on 31 July 2013

Global chemical effects of the microbiome include new bile-acid conjugations

scientific article published on 26 February 2020

Growth effects of N-acylethanolamines on gut bacteria reflect altered bacterial abundances in inflammatory bowel disease

scientific article published on 20 January 2020

Gut microbiome structure and metabolic activity in inflammatory bowel disease

scientific article published on 10 December 2018

Heterozygous yeast deletion collection screens reveal essential targets of Hsp90

scientific article published in 2011

High-Specificity Targeted Functional Profiling in Microbial Communities with ShortBRED.

scientific article published on 18 December 2015

Host genetic variation and its microbiome interactions within the Human Microbiome Project

scientific article published on 29 January 2018

Identification of Natural CRISPR Systems and Targets in the Human Microbiome

scientific article published on 16 November 2020

Identifying personal microbiomes using metagenomic codes

scientific article published on 11 May 2015

Independent Effects of Protein Core Size and Expression on Residue-Level Structure-Evolution Relationships ⬇️

scientific article published on October 3, 2012

Indoleacrylic Acid Produced by Commensal Peptostreptococcus Species Suppresses Inflammation

scientific article published on July 2017

Integrated assessment of genomic correlates of protein evolutionary rate

scientific article

Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3

Linking the Human Gut Microbiome to Inflammatory Cytokine Production Capacity ⬇️

scientific article

Linking the Human Gut Microbiome to Inflammatory Cytokine Production Capacity

scientific article published on 01 December 2016

MetaPhlAn2 for enhanced metagenomic taxonomic profiling

article published in 2015

Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases

scientific article published on 29 May 2019

Multivariable association discovery in population-scale meta-omics studies

scientific article published on 16 November 2021

Natural history of the infant gut microbiome and impact of antibiotic treatment on bacterial strain diversity and stability

scientific article published on June 2016

Obese Individuals with and without Type 2 Diabetes Show Different Gut Microbial Functional Capacity and Composition

scientific article published on 06 August 2019

Predictive metabolomic profiling of microbial communities using amplicon or metagenomic sequences

scientific article published on 17 July 2019

Protein evolution in yeast transcription factor subnetworks

scientific article

Quantitative residue-level structure-evolution relationships in the yeast membrane proteome

scientific article published on January 2013

Relating the metatranscriptome and metagenome of the human gut.

scientific article

Sequencing and beyond: integrating molecular 'omics' for microbial community profiling

scientific article published on 27 April 2015

Signatures of pleiotropy, economy and convergent evolution in a domain-resolved map of human-virus protein-protein interaction networks.

scientific article

Species-level functional profiling of metagenomes and metatranscriptomes

scholarly article by Eric A Franzosa published in October 2018

Strain-level epidemiology of microbial communities and the human microbiome

scientific article published on 13 August 2020

Strains, functions and dynamics in the expanded Human Microbiome Project

scientific article

Structural determinants of protein evolution are context-sensitive at the residue level

scientific article published on 13 July 2009

Structural models for host-pathogen protein-protein interactions: assessing coverage and bias

scientific article published on January 1, 2012

Structural principles within the human-virus protein-protein interaction network ⬇️

scientific article published on June 16, 2011

Sub-clinical detection of gut microbial biomarkers of obesity and type 2 diabetes

scientific article published on 17 February 2016

The Dynamics of the Human Infant Gut Microbiome in Development and in Progression toward Type 1 Diabetes

scholarly article published by Päivi Pöhö in 2016

The classroom microbiome and asthma morbidity in children attending 3 inner-city schools

scholarly article by Peggy S Lai et al published June 2018 in The Journal of Allergy and Clinical Immunology

The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes

scientific article published on 5 February 2015

The human gut microbiome in early-onset type 1 diabetes from the TEDDY study

scientific article published in Nature

Toward a three-dimensional view of protein networks between species

scientific article

Understanding human immune function using the resources from the Human Functional Genomics Project

scientific article published on August 2016

Variation in Microbiome LPS Immunogenicity Contributes to Autoimmunity in Humans

scientific article

Variation in Microbiome LPS Immunogenicity Contributes to Autoimmunity in Humans

scientific article published on 01 June 2016

bioBakery: A meta'omic analysis environment

scientific article published in April 2018

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