The human #microbiome project (HMP): new papers and news stories

Just collecting here the new papers from the Human Microbiome Project and some news stories discussing them.

Main papers in Nature

• Microbiology: Learning about who we are - commentary by Relman (Caution - hidden behind a paywall) but PDF available here.
• Structure, function and diversity of the healthy human microbiome (Free)
• A framework for human microbiome research (Free)

PLoS Collection (all free)

• Announcing the Human Microbiome Project Collection
• Metabolic Reconstruction for Metagenomic Data and Its Application to the Human Microbiome
• Diverse CRISPRs Evolving in Human Microbiomes
• Inflammatory Bowel Diseases Phenotype, C. difficile and NOD2 Genotype Are Associated with Shifts in Human Ileum Associated Microbial Composition
• Sequence Analysis of the Human Virome in Febrile and Afebrile Children
• Complex Carbohydrate Utilization by the Healthy Human Microbiome
• A Case Study for Large-Scale Human Microbiome Analysis Using JCVI’s Metagenomics Reports (METAREP)
• Host Genes Related to Paneth Cells and Xenobiotic Metabolism Are Associated with Shifts in Human Ileum-Associated Microbial Composition
• Analyses of the Microbial Diversity across the Human Microbiome
• A Core Human Microbiome as Viewed through 16S rRNA Sequence Clusters
• Novel Bacterial Taxa in the Human Microbiome
• Optimizing Read Mapping to Reference Genomes to Determine Composition and Species Prevalence in Microbial Communities
• A Metagenomic Approach to Characterization of the Vaginal Microbiome Signature in Pregnancy
• Evaluation of 16S rDNA-Based Community Profiling for Human Microbiome Research
• Reducing the Effects of PCR Amplification and Sequencing Artifacts on 16S rRNA-Based Studies

Other paper out in Nature on the topic though not from the HMP

• Human gut microbiome viewed across age and geography

Some news stories:

• In Good Health? Thank Your 100 Trillion Bacteria NY Times
• 10000 germ species live in, on healthy people AP via Chicago Tribune 
• Human Microbiome Project reveals largest microbial map BBC News
• Was The Human Microbiome Project A Waste Of Money? (Matt Herper asks at Forbes)
• Gene Map of Body's Microbes Is New Health Tool Wall Street Journal
• Consortium Members Publish Collection of Studies Stemming from Human ... GenomeWeb
• Government Unveils First Map Of All The Germs In The Human Body Forbes
• A closer look at the microbes that live on, and in, us can give a better ... Washington Post
• Microbe census maps out human body's bacteria, viruses, other bugs LA Times
• Finally, A Map Of All The Microbes On Your Body NPR
• Microbiology: Learning about who we are Nature
• Scientists find human body contains 10K different microbes USA Today
• Researchers Catalog Your Microbial Zoo Technology Review
• Body Count: Taking Stock of all the Bugs That Call Humans Home Scientific American
• 'Germs occupy every nook and cranny of your body':  Daily Mail
• US Scientists Map Germs in Human Body Voice of America
• Scientists Probe Diversity of Human Body's Microbes US News and World Report
• Human Microbiome Project Outlines Powerful New Methods for Cataloging and ... (The Financial)
• Gross! Scientists Find More Than 10000 Species Of Germs On The ... (RedOrbit)
• Bugs living in humans breed biotech startups - Fierce Biotech
• Genes Of Human-Dwelling Germs Decoded May Aid In Medicine - Bloomberg
• Microbial Menagerie by Ed Yong in The Scientist
• Bacteria, viruses and fungi (oh my!) on the human body LA Times
• A New Genetic Map That Could Make Your Skin Crawl Newshour
• How many germs make a person?
• Study finds huge variety of good bacteria in humans Denver Post
• Humans are made up of more microbes than human cells Wired UK
• The Good Bugs: How the Germs in Your Body Keep You Healthy - Time
• Inside Job - Tina Saey at Science News
• How bacteria in the vagina change during pregnancy - SE Gould at SciAm
• Studying the bacteria in our bodies: The ethical ramifications - LA Times
• Tending the Body's Microbial Garden - Carl Zimmer in the New York Times
• Scientists: Let's End the War on Germs - Newser
• Invisible Residents - Nice graphic in NY Times
• NIH Human Microbiome Project Defines Normal Bacterial Makeup of ...
• Wisconsin Public Radio w/ Kathleen Dunn

Some previous posts of mine in this general area

• Crowdsourcing some facts for my upcoming #Tedmed talk on #microbes on #humans
• Overselling the microbiome award: Scientists look to mummies for obesity cure
• Transfaunation and Fecal Transplants: What Goes Around Comes Around, Literally and Figuratively
• Carl Zimmer on "Who Owns Your Microbes"?
• Storification of my notes/tweets from #UCDavis CLIMB Symposium "The infant gut microbiome: prebiotics, probiotics and establishment"
• Here's hoping molecular classification/systematics of cultured & uncultured microbes wins #NobelPrize in medicine
• Probiotic use spreading, lots of money being made, known benefits still murky
• A complete summary (probably TMI) about my time at the human #microbiome meeting #HMP2010
• Human microbiome project meeting (#HMP2010) Day 2 wrap up
• Human microbiome project meeting (HMP2010) Day 1 wrap up w/ mea culpa
• Overselling the microbiome award #2: The Marshall Protocol
• More (you know you wanted it) on fecal transplants and the microbiome
• Overselling the microbiome award: Stephen Barrie on pre and probiotics at the Huffington Post
• What is not getting any love at this #metagenomics meeting
• The human microbiome - term being used in many ways - but at least it is getting some press
• More on the Human Microbiome Program Workshop - Day1
• A human microbiome program?
• Scientist Reveals Secret of the Ocean: It's Him
• NIH wants proposals on the human microbiome ... 12/97

Some other good recent posts or articles worth looking at on the topic

• An introduction to the microbiome (Ed Yong)
• The Trillions of Microbes That Call Us Home—and Help Keep Us Healthy (Michael Tennesen)
• Our Microbiomes, Ourselves - NYTimes.com (Carl Zimmer)
• The Wired Atlas of the Human Ecosystem | Wired Magazine | Wired ...
• Explore the Human Microbiome [Interactive]: Scientific American
• Your Microbiome Community Brings New ... - Scientific American

Related links

• Human Microbiome Project (HMP) - NIH Common Fund
• Human Microbiome Project DACC - Home

And of course - a gratuitous embed of my recent TEDMED talk