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List of works by Levi Waldron

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Metagenomic biomarker discovery and explanation

scientific article published on 24 June 2011
Orchestrating high-throughput genomic analysis with Bioconductor

scientific article
Metagenomic microbial community profiling using unique clade-specific marker genes

scientific article
Stem cell gene expression programs influence clinical outcome in human leukemia.

scientific article published on 28 August 2011
Composition of the adult digestive tract bacterial microbiome based on seven mouth surfaces, tonsils, throat and stool samples

scientific article
Assessment of colorectal cancer molecular features along bowel subsites challenges the conception of distinct dichotomy of proximal versus distal colorectum

scientific article
A guide to enterotypes across the human body: meta-analysis of microbial community structures in human microbiome datasets

scientific article
Relating the metatranscriptome and metagenome of the human gut.

scientific article
Comprehensive MicroRNA profiling for head and neck squamous cell carcinomas

scientific article
MicroRNA-301 mediates proliferation and invasion in human breast cancer.

scientific article
mRNA transcript quantification in archival samples using multiplexed, color-coded probes

scientific article published on 9 May 2011
Machine Learning Meta-analysis of Large Metagenomic Datasets: Tools and Biological Insights

scientific article
Risk prediction for late-stage ovarian cancer by meta-analysis of 1525 patient samples.

scientific article
Associations between host gene expression, the mucosal microbiome, and clinical outcome in the pelvic pouch of patients with inflammatory bowel disease

scientific article published on 8 April 2015
curatedOvarianData: clinically annotated data for the ovarian cancer transcriptome

scientific article
Genotype and time of day shape the Populus drought response

scientific article published on 8 August 2009
Racial/Ethnic Disparities in Genomic Sequencing

scientific article published on 30 June 2016
Potentially prognostic miRNAs in HPV-associated oropharyngeal carcinoma

scientific article published on 4 March 2013
Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer

scientific article published on 01 April 2019
A gene signature in histologically normal surgical margins is predictive of oral carcinoma recurrence

scientific article
Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation

scientific article published on 01 April 2019
Accessible, curated metagenomic data through ExperimentHub.

scientific article
Optimized application of penalized regression methods to diverse genomic data

scientific article
The murine caecal microRNA signature depends on the presence of the endogenous microbiota

scientific article published on 19 December 2011
Optimization and analysis of a quantitative real-time PCR-based technique to determine microRNA expression in formalin-fixed paraffin-embedded samples

scientific article published on 23 June 2010
Public data and open source tools for multi-assay genomic investigation of disease

scientific article
bioBakery: A meta'omic analysis environment

scientific article published in April 2018
Cross-study validation for the assessment of prediction algorithms

scientific article
Creation of a Human Secretome: A Novel Composite Library of Human Secreted Proteins: Validation Using Ovarian Cancer Gene Expression Data and a Virtual Secretome Array

scientific article
Más-o-menos: a simple sign averaging method for discrimination in genomic data analysis

scientific article
Expression profiling of archival tumors for long-term health studies

scientific article
Comparing Platforms for Messenger RNA Expression Profiling of Archival Formalin-Fixed, Paraffin-Embedded Tissues

scientific article published on 30 April 2015
Report on emerging technologies for translational bioinformatics: a symposium on gene expression profiling for archival tissues

scientific article published on 29 March 2012
Orchestrating single-cell analysis with Bioconductor

scientific article published on 02 December 2019
A reproducible approach to high-throughput biological data acquisition and integration

scientific article
The Doppelgänger Effect: Hidden Duplicates in Databases of Transcriptome Profiles

scientific article published on 5 July 2016
CellMapper: rapid and accurate inference of gene expression in difficult-to-isolate cell types

scientific article published on 29 September 2016
Lineage-specific interface proteins match up the cell cycle and differentiation in embryo stem cells

scientific article published on August 4, 2014
Two-stage microbial community experimental design

scientific article published on 15 August 2013
Using Registry Data to Construct a Comparison Group for Programmatic Effectiveness Evaluation - the New York City HIV Care Coordination Program.

scientific article
Molecular Subtypes of High-Grade Serous Ovarian Cancer: The Holy Grail?

Widespread modulation of gene expression by copy number variation in skeletal muscle

scientific article
Integrative approaches for microarray data analysis

scientific article
Shear Wave Elastography of the Spleen for Monitoring Transjugular Intrahepatic Portosystemic Shunt Function

Data and Statistical Methods To Analyze the Human Microbiome

scientific article
Meta-Analysis in Gene Expression Studies

scientific article published on January 2016
HMP16SData: Efficient Access to the Human Microbiome Project Through Bioconductor

scientific article published on 01 June 2019
Evaluation of Oral Cavity DNA Extraction Methods on Bacterial and Fungal Microbiota

scientific article published in Scientific Reports
Tobacco exposure associated with oral microbiota oxygen utilization in the New York City Health and Nutrition Examination Study

scientific article published on 28 March 2019
Collisional broadening and shifting of Raman lines, and the potential energy surface for H2–Ar

article

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