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16S rRNA sequencing is being used to characterize the complexity of microbial communities at individual body sites, and to determine whether there is a core microbiome at each site. Several body sites are being studied, including the gastrointestinal and female urogenital tracts, oral cavity, nasal and pharyngeal tract, and skin. This project includes development, pilot-phase and production-phase sub-projects, each linked to their respective data sets of Sanger or second generation (eg. 454) sequences.
| Accession | PRJNA48489 |
| Type | Umbrella project (Subtype:Funding initiative) |
| Submission | Registration date: 10-May-2010
NIH Human Microbiome Consortium |
| NCBI Links | |
Project Data:
| Resource Name | Number
of Links |
|---|
| Sequence data |
| SRA Experiments | 831 |
| Capillary Traces (Trace Archive) | 1 |
| Publications |
| PubMed | 1 |
| Other datasets |
| BioSample | 62853 |
| Genotype and Phenotype (dbGaP) | 11 |
Human Microbiome Project (HMP) 16S rRNA Gene Diversity encompasses the following 16 sub-projects:
| Project Type | Number of Projects |
| Phenotype or Genotype | 4 |
BioProject
accession | Organism | Title |
|---|
| PRJNA34129 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: Sanger Clinical Production Pilot (NIH Human Microbiome Consortium) | | PRJNA48333 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: 454 Clinical Production Phase I (NIH Human Microbiome Consortium) | | PRJNA48335 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: Clinical Production Pilot (PPS) (NIH Human Microbiome Consortium) | | PRJNA50563 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: 454 Clinical Production Phase II (NIH Human Microbiome Consortium) |
|
| Targeted Locus (Loci) | 12 |
BioProject
accession | Organism | Title |
|---|
| PRJNA48339 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: 454 Protocol Validation - Clinical (NIH Human Microbiome Consortium) | | PRJNA48341 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: 454 Protocol Validation - Mock (NIH Human Microbiome Consortium) | | PRJNA48465 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: 454 Protocol Development - Mock (NIH Human Microbiome Consortium) | | PRJNA48467 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: 454 Protocol Development - Clinical (NIH Human Microbiome Consortium) | | PRJNA48469 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: Sanger Clinical Production (NIH Human Microbiome Consortium) |
List all 12 'Targeted Locus (Loci)' projects...BioProject
accession | Organism | Title |
|---|
| PRJNA48339 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: 454 Protocol Validation - Clinical (NIH Human Microbiome Consortium) | | PRJNA48341 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: 454 Protocol Validation - Mock (NIH Human Microbiome Consortium) | | PRJNA48465 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: 454 Protocol Development - Mock (NIH Human Microbiome Consortium) | | PRJNA48467 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: 454 Protocol Development - Clinical (NIH Human Microbiome Consortium) | | PRJNA48469 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: Sanger Clinical Production (NIH Human Microbiome Consortium) | | PRJNA48471 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: Sanger Mock Pilot (NIH Human Microbiome Consortium) | | PRJNA48547 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: Sanger Protocol Validation - Clinical (NIH Human Microbiome Consortium) | | PRJNA53501 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: 454 Impact of PCR on Chimera Formation - Mock (NIH Human Microbiome Consortium) | | PRJNA60763 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: Sanger Protocol Development - Clinical (NIH Human Microbiome Consortium) | | PRJNA60765 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: Sanger Protocol Development - Mock (NIH Human Microbiome Consortium) | | PRJNA60767 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: Sanger Impact of PCR on Chimera Formation (NIH Human Microbiome Consortium) | | PRJNA60769 | human metagenome | Human Microbiome Project (HMP) 16S rRNA Gene Diversity, the diversity of 16S ribosomal RNA genes in the human microbiome: Sanger Impact of Capillary Length on Sequence Quality (NIH Human Microbiome Consortium) |
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