Selected Publications

An analysis of gene sharing in a model microbial community.
In eLife, 2017.

Recent Publications

. Innate immune pattern recognition: a cell biological perspective.. In Annu Rev Immunol., 2015.

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. Biochemistry of Toll-Like Receptors. In Encyc Life Sci, 2014.

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. Endosomes as platforms for NOD-like receptor signaling.. In Cell Host Microbe, 2014.

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. A promiscuous lipid-binding protein diversifies the subcellular sites of toll-like receptor signal transduction.. In Cell, 2014.

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. Effects of a novel arginine methyltransferase inhibitor on T-helper cell cytokine production.. In FEBS J, 2010.

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. NIP45 controls the magnitude of the type 2 T helper cell response.. In PNAS, 2010.

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Recent Posts

More Posts

Motivation This is a post written for students of BISC314 at Wellesley, but may be relevant for anyone else attempting to install the biobakery on a Mac. As of this writing, the homebrew recipes for installing several of the modules aren’t actually working on mac, so read on for some other options. The biobakery is a suite of microbiome and metagenomics analysis tools developed by the Huttenhower lab at Harvard School of Public Health.

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I recently stumbled onto “The Riddler” series from Five Thirty Eight. Each week, they present a puzzle to solve that involves math and probability, and since I don’t already have enough to do :grimmace:, I thought I’d give this week’s a shot: Where Will The Seven Dwarfs Sleep Tonight? Each of the seven dwarfs sleeps in his own bed in a shared dormitory. Every night, they retire to bed one at a time, always in the same sequential order, with the youngest dwarf retiring first and the oldest retiring last.

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Earlier this week, I got an e-mail from Lucia Santamaria from the “Gender Gap in Science” project from the International Council for Science. They are trying to systematically measure the gender gap in a number of ways, including looking at publication records. One of the important parts of their effort is to find ways to validate methods of gender assignment or inference. Lucia was writing about some data found in the paper I wrote with with Melanie Stefan about women in computational biology.

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Yeah, so my last post was clearly a bit too optomistic. I’ve only just now set up this new website using the Hugo static site generator and Academic theme which is pretty nifty. I started doing this back in August, but ran into some snag and haven’t returned to it until now. But I thought I’d briefly go through what I did in order to set this up, mostly as a reference for myself.

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Well, it’s been far too long since I wrote anything here. In the mean time I’ve: completed the HMX biochemistry course Got two papers accepted (eLife paper on HGT is out, PLoS Comp Bio paper needs some final touches) started a postdoc in the Huttenhower lab and… that seems like enough Also finally updated the header image on this site to be one of mine rather than the default.

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Projects

Horizontal Gene Transfer

Microbes sharing (stealing?) genes with (from) one another.

Microbiome.jl

A julia package for working with microbiome and microbial community data.

Women in Computational Biology

An analysis of the forces that decrease the representation of women in computational biology, and efforts to overcome them.

Contact