project_name	project_id	v_region	target_size	raw_data_source	local_processed_fasta	processed_fasta	num_samples	num_subjects	study_design_notes	area	attribute_data_type	attributes_values	short_desc	literature_source	sequencing_technology	study_design	original_mapping_file
Cho 2012	cho	V3	177	https://www.ncbi.nlm.nih.gov/bioproject/168618	MSI	http://metagenome.cs.umn.edu/public/MLRepo/fasta/cho2012.fasta.gz	95	47	Two sample types available	Antibiotics	Categorical	"Abx: Control, Penicillin, Chlortetracycline, Vancomycin, VancomycinPenicillin; Source: cecal, fecal"	"Mouse fecal and cecal samples, Control vs. 4 kinds of antibiotics"	http://www.ncbi.nlm.nih.gov/pubmed/22914093	454	Cross-Sectional	./datasets/cho/mapping-orig.txt
Claesson 2012	claesson	V4	221	https://qiita.ucsd.edu/download/13268	https://qiita.ucsd.edu/download/13265	https://qiita.ucsd.edu/download/13265	168	168		Age	Categorical	"AGE: elderly, young"	Elderly and young adults	https://www.ncbi.nlm.nih.gov/pubmed/22797518	454	Cross-Sectional	./datasets/claesson/mapping-orig.txt
David 2014	david	V4	282	https://www.mg-rast.org/linkin.cgi?project=mgp6248	MSI	http://metagenome.cs.umn.edu/public/MLRepo/fasta/david2014.fasta.gz	235	11	"Longitudinal data available, but subset by last day of intervention to compare groups"	Diet	"Categorical, Integer"	"Diet: Plant, Animal; Day: -4 to -1 (baseline), 0 to 4 (diet), 5 to 10 (washout)"	"Plant-based vs. Animal-based diet, Cross-over study"	https://www.ncbi.nlm.nih.gov/pubmed/24336217	Illumina MiSeq	Longitudinal	./datasets/david/mapping-orig.txt
Gevers 2014	gevers	V4	173	https://qiita.ucsd.edu/download/33520	https://qiita.ucsd.edu/download/33519	https://qiita.ucsd.edu/download/33519	1321	668		IBD	Categorical	"DIAGNOSIS: no, IC, CD, UC; BODY_SITE: UBERON:feces, UBERON:rectum, UBERON:colon, UBERON:ileum;"	Biopsies from IBD patients prior to treatment	https://www.ncbi.nlm.nih.gov/pubmed/24629344	Illumina MiSeq	Cross-Sectional	./datasets/gevers/mapping-orig.txt
HMP 2012	hmp	V35	527	https://qiita.ucsd.edu/download/64700	https://qiita.ucsd.edu/download/64699	https://qiita.ucsd.edu/download/64699	6407	242	Multiple body site samples per person	"Body Habitat, Gender"	Categorical	"SEX: female, male; HMPBODYSUBSITE: Tongue_dorsum, Left_Antecubital_fossa, Left_Retroauricular_crease, Anterior_nares, Subgingival_plaque, Hard_palate, Posterior_fornix, Stool, Throat, Right_Retroauricular_crease, Mid_vagina, Buccal_mucosa, Vaginal_introitus, Saliva, Right_Antecubital_fossa, Supragingival_plaque, Palatine_Tonsils, Attached_Keratinized_gingiva; HMPBODYSUPERSITE: Oral, Skin, Airways, Urogenital_tract, Gastrointestinal_tract"	Up to 18 body sites across 242 healthy subjects at 1-2 time points	https://www.ncbi.nlm.nih.gov/pubmed/22699609	454	Cross-Sectional	./datasets/hmp/mapping-orig.txt
Kostic 2012	kostic	V35	569	https://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?study=SRP000383	MSI	http://metagenome.cs.umn.edu/public/MLRepo/fasta/montassier2016.fasta.gz	190	95	Samples are paired per person	Colorectal Cancer	Categorical	"DIAGNOSIS: Healthy, Tumor"	Adjacent Healthy vs. Tumor Colon Biopsy Tissues	https://www.ncbi.nlm.nih.gov/pubmed/22009990	454	Paired	./datasets/kostic/mapping-orig.txt
Montassier 2016	bacteremia	V56	280	https://www.ncbi.nlm.nih.gov/sra/SRX733464	MSI	http://metagenome.cs.umn.edu/public/MLRepo/fasta/montassier2016.fasta.gz	28	28		Bacteremia	Categorical	"Treatment: NObact, bact"	Patients prior to chemotherapy who did or did not develop bacteremia	https://www.ncbi.nlm.nih.gov/pubmed/27121964	454	Cross-Sectional	./datasets/bacteremia/mapping-orig.txt
Morgan 2012	sokol	V35	569	https://www.ncbi.nlm.nih.gov/bioproject/82111	MSI	http://metagenome.cs.umn.edu/public/MLRepo/fasta/morgan2012.fasta.gz	231	231	Cross-sectional study with different subjects for all sample types	IBD	Categorical	"ULCERATIVE_COLIT_OR_CROHNS_DIS: Crohn's disease, Healthy, Ulcerative Colitis; BODY_SITE: UBERON:ileal mucosa, UBERON:feces, UBERON:mucosa of descending colon"	"Healthy, Crohn's Disease, or Ulcerative Colitis patients"	https://www.ncbi.nlm.nih.gov/pubmed/23013615	454	Cross-Sectional	./datasets/sokol/mapping-orig.txt
Turnbaugh 2009	turnbaugh_twins	V2	230	https://qiita.ucsd.edu/download/6982	https://qiita.ucsd.edu/download/6979	https://qiita.ucsd.edu/download/6979	281	154		Obesity	Categorical	"OBESITYCAT: Lean, Overweight, Obese; TWIN_MOTHER: Twin, Mother; ZYGOSITY: DZ, MZ, NA"	"Monozygotic or dizygotic twin pairs concordant for BMI class, and their mothers"	http://www.ncbi.nlm.nih.gov/pubmed/19043404	454	Cross-Sectional	./datasets/turnbaugh_twins/mapping-orig.txt
Wu 2011	bushman_cafe	V12	244	https://qiita.ucsd.edu/download/2032	https://qiita.ucsd.edu/download/2029	https://qiita.ucsd.edu/download/2029	95	10	"Longitudinal data available, but subset by last day of intervention to compare groups"	Diet	Categorical	"DIET: HighFat, LowFat; DAY: 01 to 10"	Controlled HighFat or LowFat feeding on 10 subjects over 10 days	https://www.ncbi.nlm.nih.gov/pubmed/21885731	454	Longitudinal	./datasets/bushman_cafe/mapping-orig.txt
Yatsunenko 2012	yatsunenko	V4	282	https://www.mg-rast.org/linkin.cgi?project=mgp401	MSI	http://metagenome.cs.umn.edu/public/MLRepo/fasta/yatsunenko2012.fasta.gz	531	531	Infants should be analyzed separately from non-infants	"Geography, Age, Gender"	"Categorical, Continuous"	"COUNTRY: GAZ:Venezuela, GAZ:United States of America, GAZ:Malawi; AGE: continuous"	"Humans of varying ages from the USA, Malawi, and Venezuela"	http://www.ncbi.nlm.nih.gov/pubmed/22699611	Illumina MiSeq	Cross-Sectional	./datasets/yatsunenko/mapping-orig.txt
Ravel 2011	ravel	V12	240	https://www.ncbi.nlm.nih.gov/sra/SRA022855	/project/flatiron2/tonya/vaginal_otus/combined_seqs.fna	http://metagenome.cs.umn.edu/public/MLRepo/fasta/ravel2011.fasta.gz	396	396		Bacterial Vaginosis	"Categorical, Integer"	"Ethnic_Group: White, Black, Asian, Hispanic; Nugent_score_category: Low, Intermediate, High; Nugent_score; pH"	Vaginal samples from four ethnic groups nugent scores for bacterial vaginosis	https://www.ncbi.nlm.nih.gov/pubmed/20534435	454	Cross-Sectional	./datasets/ravel/mapping-orig.txt
Karlsson 2013	karlsson	NA	NA	http://www.ncbi.nlm.nih.gov/sra?term=ERP002469	/project/flatiron2/data/public_shotgun/karlsson2013/shizen_20161130/fasta/combined_seqs.fna	http://metagenome.cs.umn.edu/public/MLRepo/fasta/karlsson2013.fasta.gz	144	144		Diabetes	Categorical	"Classification: NGT, IGT, T2D"	"Patients with normal, impaired, or type 2 diabetes glucose tolerance categories"	https://www.ncbi.nlm.nih.gov/pubmed/23719380	Illumina HiSeq (shotgun)	Cross-Sectional	./datasets/karlsson/mapping-orig.txt
Qin 2012	qin2012	NA	NA	http://www.ncbi.nlm.nih.gov/sra?term=SRA045646; https://www.ncbi.nlm.nih.gov/sra?term=SRA050230	/home/knightsd/cutle051/data/public_shotgun/qin2012/shi7_170630b/combined_seqs.fna	http://metagenome.cs.umn.edu/public/MLRepo/fasta/qin2012.fasta.gz	134	134		Diabetes	Categorical	"Diabetic: Y, N"	Healthy vs type 2 diabetes Chinese patients	https://www.ncbi.nlm.nih.gov/pubmed/23023125	Illumina HiSeq (shotgun)	Cross-Sectional	./datasets/qin2012/mapping-orig.txt
Qin 2014	qin2014	NA	NA	https://www.ebi.ac.uk/ena/data/view/PRJEB6337	/project/flatiron2/data/public_shotgun/qin2014/shi7_20170417/qin2014_combined_seqs.kfn6	http://metagenome.cs.umn.edu/public/MLRepo/fasta/qin2014_combined_seqs.fna.gz	130	130		Cirrhosis	Categorical	"Cirrhotic: Cirrhosis, Healthy"	Cirrhosis versus healthy	https://www.ncbi.nlm.nih.gov/pubmed/25079328	Illumina HiSeq (shotgun)	Cross-Sectional	./datasets/qin2014/mapping-orig.txt