Research Highlights

2014

Inferring Clonal Composition from Multiple Sections of a Breast Cancer
Habil Zare, Alex Hu, Debbie Nickerson, Bill Noble and colleagues are authors on paper in PLOS Computational Biology.

Study of Jewish Women Shows Link to Cancer Without Family History
New York Times

Mapping the Inner Workings of the Microbiome: Genomic- and Metagenomic-Based Study of Metabolism and Metabolic Interactions in the Human Microbiome
Ohad Manor, Roie Levy, and Elhanan Borenstein are authors on paper in Cell Metabolism.

Comparative Analysis of Functional Metagenomic Annotation and the Mappability of Short Reads
Rogan Carr and Elhanan Borenstein are authors on paper in PLOS One.

Primate evolution of the recombination regulator PRDM9
Jerrod Schwartz, David J. Roach, Jim Thomas and Jay Shendure are authors on paper in Nature Communications.

Emergent Biosynthetic Capacity in Simple Microbial Communities
Hsuan-Chao Chiu, Roie Levy, and Elhanan Borenstein are authors on paper in PLOS Computational Biology.

Computing exact p-values for a cross-correlation shotgun proteomics score function
Jeff Howbert and Bill Noble are authors on paper in Molecular & Cellular Proteomics.

Three-dimensional modeling of the P. falciparum genome during the erythrocytic cycle reveals a strong connection between genome architecture and gene expression
Noble Lab member Ferhat Ay is lead author on paper modeling the dynamic genome architecture of a malarial parasite in Genome Research.

Resurrecting Surviving Neanderthal Lineages from Modern Human Genomes
Akey Lab grad Benjamin Vernot is lead author on paper in Science. 
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2013

Metabolic modeling of species interaction in the human microbiome elucidates community-level assembly rules
Roie Levy and Elhanan Borenstein are authors on paper in PNAS.

2012

Multimolecule test-tube simulations of protein unfolding and aggregation
Valerie Daggett and colleagues are authors on paper in PNAS.

2011

Construction of regulatory networks using expression time-series data of a genotyped population
Ka Yee Yeung, John Mittler, Roger Bumgarner and colleagues are authors on paper in PNAS.

Next-Generation Sequencing Reveals HIV-1-Mediated Suppression of T Cell Activation and RNA Processing and Regulation of Noncoding RNA Expression in a CD4+ T Cell Line
Michael Katze and colleagues are authors on paper in mBio.

Stochastic Ensembles, Conformationally Adaptive Teamwork, and
Enzymatic Detoxification
Hong Qian and colleagues are authors on paper in Biochemistry.

Genetic impact of vaccination on breakthrough HIV-1 sequences from the STEP trial
James Mullins and colleagues are authors on paper in Nature Medicine.