Author Archives: Fiona Whelan

Genomes from metagenomics: pulling the needles from the haystack.

Shotgun whole genome sequencing revolutionized how we study single, microbial isolates. By breaking the genome into small reads in vitro, we are able to parallelize sequencing and decrease costs before bioinformatic assemblers put the puzzle back together again in silico. However, re-building the genomic … Continue reading

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A new year for our journal club!

Happy New Year, microbiome fanatics! With a new year, comes more interesting microbiome research for us to tackle in our journal club. Please take the opportunity now to sign up for an available spot on our 2017 calendar by commenting here, … Continue reading

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Working Group: New location

Our weekly, drop in Microbiome Working Group sessions now have a new home! From now until the foreseeable future, working group will be in MDCL 2249. Come by with your laptop to discuss issues, theory, or simply meet others working … Continue reading

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Special event: How to give a journal club.

UPDATE: Mark has provided us with his slides ahead of time in case you’d like to follow along on your own computer/handouts. The slides are available here: journal-club-tutorial UPDATE: We have a room: this event will occur Nov 11th at 3pm in … Continue reading

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Special event: How to give a journal club.

UPDATE: We have a room: this event will occur Nov 11th at 3pm in 3N44A. Journal clubs, such as ours, are popular during Graduate and Postdoc studies. And for good reason: journal clubs help us learn how to read peer-reviewed manuscripts, interpret … Continue reading

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Follow-up: microbiome & obesity?

Last week, PhD student Daphnée Lamarche led us through Marc A. Sze’s and Patrick D. Schloss’s recent paper: “Looking for a Signal in the Noise: Revisiting Obesity and the Microbiome.” We really enjoyed how well-written this paper was; however, we … Continue reading

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Follow up: Why do people have such different microbiomes from one another?

This mid-summer human microbiome journal club was small but mighty, with representatives from 3 laboratories, undergraduates to post-doctoral fellows. On Friday, Saad (future MD-PhD in the Surette lab) led us through a discussion of Universality of Human Microbial Dynamics, Bashan et … Continue reading

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April journal club: genomes from metagenomes.

Research into the composition and effect that the human microbiome can have on its host has advanced significantly with the application of 16S rRNA gene sequencing techniques and improvements in next generation sequencing technology. Using this marker gene, we can get a … Continue reading

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Working Group: updated room information

Hello fellow microbiome-explorers! Our drop in, bring-your-data&questions style, working group format is still kicking every Tuesday from 3:30pm on. Our room booking moves around a bit, so I would just like to update you that we will be in MUMC … Continue reading

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The Microbiome Working Group Continues

After a successful summer, I’m happy to report that we will continue the Microbiome Working Group come September. We have had participation from multiple labs across many Departments, tackling big questions from laboratory contamination to large-scale bioinformatic analysis. This Group is … Continue reading

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