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Scope: from the registry to the catalog

About › Scope

The registry lists every shotgun-metagenome INSDC BioProject reached through ENA and classifies its host; the catalog curates the human studies whose runs include the human gut / stool, at every age.

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Study rule (config/packs/gut.yaml): registry_studies.host_human in {yes, mixed} and assay in {shotgun_dna, mixed} and gut_stool in body_sites, OR in_infant_catalog == include. Sample rule: registry_biosamples of those studies (all body sites kept; body_site_class marks non-gut samples) + the curated infant samples. Every sample of a catalog study is kept, with a body_site_class (primary = gut/stool, unknown = no site attribute, excluded/linked = another site of a gut study) so that nothing is silently dropped.

Funnel

registry studies (every ENA shotgun-metagenome study reached by the enumeration)	64,369
host human = yes or mixed	6,898
… with gut / stool among the body sites	3,588
… host human AND assay shotgun (catalog rule)	2,819
catalog studies	2,798

Age categories

Age at collection in days → category (config/packs/gut.yaml): neonate 0–28 d · infant 29–1100 d · child 1101–4382 d · adolescent 4383–6574 d · adult 6575–23741 d · elderly 23742–∞ d. Without a numeric age the category falls back to the sample's stated life stage, then to a cohort-wide statement (R3/R4), then to the study's primary life stage; the basis is recorded per sample.

Gut studies not in the catalog (790)

Registry studies with gut / stool among their body sites that fail the study rule — host not human (yes or mixed), assay not shotgun (amplicon, genome, transcriptome), or classification still pending. They stay in the registry with their evidence and enter the catalog when a later cycle resolves them.

host human	assay	classification stage	studies	runs
yes	other	sonnet_x2	168	20,290
unknown	shotgun_dna	deterministic_rule	100	4,904
yes	other	opus_adjudicated	54	34,940
yes	amplicon_misfiled	owner_decision	50	10,290
yes	amplicon_misfiled	sonnet_x2	45	7,592
unknown	other	deterministic_rule	40	1,628
yes	isolate_genome	sonnet_x2	34	684
yes	amplicon	opus_adjudicated	29	6,281
mixed	other	sonnet_x2	24	3,220
yes	amplicon	owner_decision	24	5,120
no	shotgun_dna	curator_audit	15	1,563
unknown	shotgun_dna	sonnet_x2	15	1,473
yes	amplicon_misfiled	opus_adjudicated	15	12,839
yes	other	owner_decision	15	2,614
yes	shotgun_dna	sonnet_x2	15	42
unknown	shotgun_dna	pending	13	691
mixed	other	opus_adjudicated	10	1,341
unknown	other	sonnet_x2	10	890
no	shotgun_dna	deterministic_prior	9	885
yes	isolate_genome	opus_adjudicated	9	130
unknown	isolate_genome	pending	8	29
unknown	amplicon_misfiled	sonnet_x2	6	348
unknown	other	opus_adjudicated	6	344
yes	amplicon	curator_audit	5	1,561
yes	rna	sonnet_x2	5	44
mixed	amplicon_misfiled	owner_decision	4	351
mixed	isolate_genome	sonnet_x2	4	39
unknown	shotgun_dna	opus_adjudicated	4	88
yes	other	deterministic_rule	4	285
yes	shotgun_dna	opus_adjudicated	4	13
yes	unknown	deterministic_rule	4	805
unknown	other	pending	3	193
yes	isolate_genome	curator_audit	3	309
mixed	amplicon_misfiled	opus_adjudicated	2	151
mixed	isolate_genome	opus_adjudicated	2	61
mixed	mixed	sonnet_x2	2	72
mixed	other	owner_decision	2	1,759
no	other	opus_adjudicated	2	97
no	shotgun_dna	sonnet_x2	2	254
unknown	unknown	deterministic_rule	2	894
yes	amplicon	sonnet_x2	2	647
yes	other	deterministic_prior	2	416
yes	rna	opus_adjudicated	2	286
yes	unknown	opus_adjudicated	2	1,387
yes	unknown	sonnet_x2	2	37
mixed	amplicon	opus_adjudicated	1	193
mixed	amplicon_misfiled	sonnet_x2	1	84
mixed	unknown	pending	1	168
no	shotgun_dna	opus_adjudicated	1	80
unknown	amplicon_misfiled	opus_adjudicated	1	30
unknown	isolate_genome	opus_adjudicated	1	9
unknown	mixed	deterministic_rule	1	24
unknown	unknown	opus_adjudicated	1	90
yes	mixed	opus_adjudicated	1	2
yes	shotgun_dna	deterministic_prior	1	10
yes	shotgun_dna	deterministic_rule	1	1
yes	unknown	pending	1	36

Largest of them

study	title	host	assay	body sites	life stages	stage	runs	samples
PRJNA803937	Single-cell microbial genomic sequencing of the human gut microbiome	yes	other	gut_stool	unknown_age	opus_adjudicated	26,428	26,428
PRJEB81814	The Swedish Maternal Microbiome project	yes	amplicon_misfiled	vaginal_urogenital;gut_stool;oral	adult;infant	opus_adjudicated	8,243	7,510
PRJEB13747	Genetic determinants of the gut microbiome in the TwinsUK cohort	yes	amplicon_misfiled	gut_stool	unknown_age	opus_adjudicated	3,288	3,288
PRJEB29078	NOMIC	yes	other	gut_stool	unknown_age	sonnet_x2	2,995	2,995
PRJEB60095	Cardamom	yes	other	nasal_nasopharyngeal;gut_stool	infant	sonnet_x2	2,860	2,860
PRJNA841786	Faecal microbiome-based machine learning for multi-class disease diagnosis	yes	other	gut_stool	unknown_age	opus_adjudicated	2,470	2,470
PRJNA763692	A high-quality genome compendium of the human gut microbiome of Inner Mongolians	yes	other	gut_stool	unknown_age	owner_decision	1,859	1,859
PRJEB77729	First-Year Dynamics of the Microbiome in Infants’ Oral and Gastrointestinal Systems	yes	amplicon_misfiled	gut_stool;oral;milk	infant	owner_decision	1,787	840
PRJDB39052	Fecal 16S rRNA Sequencing from a Colorectal Screening Cohort in China (PRJCA044001)	yes	amplicon_misfiled	gut_stool	unknown_age	sonnet_x2	1,575	1,575
PRJNA510571	uncultured crAssphage global survey	mixed	other	gut_stool	adult	owner_decision	1,374	1,279
PRJDB33475	Women microbiome (PRJCA032652)	yes	unknown	gut_stool	adult	opus_adjudicated	1,309	1,309
PRJNA46337	The Neonatal Microbiome and Necrotizing Enterocolitis	yes	amplicon_misfiled	gut_stool;respiratory_lower	infant;neonate;child	owner_decision	1,153	827
PRJEB14941	The microbiota at multiple body sites during pregnancy in a rural Tanzanian population and the effects of Moringa supple	yes	amplicon	gut_stool;oral;vaginal_urogenital;milk	adult;infant	curator_audit	1,118	1,118
PRJNA417939	Characterization of the composition of the human gut microbiome during the course of Plasmodium falciparum infection, ep	yes	amplicon_misfiled	gut_stool	unknown_age	sonnet_x2	1,106	1,106
PRJDB41146	The dynamics of tissue-resident microbiota during the development of colorectal cancer (PRJCA039589)	unknown	shotgun_dna	gut_stool;blood_tissue	unknown_age	deterministic_rule	1,042	1,042
PRJNA810087	Prospective and cross-sectional associations of the rectal tissue microbiome with colorectal adenoma recurrence: The Pol	yes	amplicon	gut_stool;blood_tissue	unknown_age	opus_adjudicated	1,030	1,030
PRJEB10914	Developmental Ecology of the Human Microbiome - Restoration Study of babies.	yes	amplicon	gut_stool;oral;skin;vaginal_urogenital	infant;adult	owner_decision	1,016	1,016
PRJNA1274040	Yoghurt supplementation in overweight/obese women from early pregnancy to postpartum augments gut microbiota in their in	yes	amplicon	gut_stool	infant	owner_decision	1,000	1,000
PRJNA658160	Ghana Breast Health Study microbiome data	yes	amplicon	gut_stool	unknown_age	opus_adjudicated	962	962
PRJNA767189	The oral microbiome and breast cancer and non-malignant breast disease, and its relationship with the fecal microbiome i	yes	amplicon	oral;gut_stool	unknown_age	opus_adjudicated	947	947
PRJEB13940	Mayo Fecal Stability Study I	yes	other	gut_stool	unknown_age	opus_adjudicated	858	858
PRJEB28237	Culture-enriched human gut microbiomes reveal core and accessory resistance genes	yes	other	gut_stool	adult	sonnet_x2	842	191
PRJNA900041	ITS Bifidobacteria human Gut	yes	amplicon_misfiled	gut_stool	infant	owner_decision	830	830
PRJNA900180	ITS Bifidobacteria human Gut #2	yes	amplicon_misfiled	gut_stool	infant	owner_decision	830	830
PRJEB38148	Characterizing microbiota-directed fiber snack food prototypes in gnotobiotic mice and humans	mixed	other	gut_stool	adult	sonnet_x2	780	779
PRJEB14801	Puerto Rico and Plantanal	yes	amplicon	skin;gut_stool;oral;nasal_nasopharyngeal;multi_site	infant	owner_decision	767	767
PRJNA1082665	canine and feline gut metagenomic samples Raw sequence reads	no	shotgun_dna	gut_stool	unknown_age	curator_audit	767	767
PRJEB37883	Hospital regimes including probiotics guide the individual development of the gut microbiome of very low birth weight in	yes	amplicon_misfiled	gut_stool	neonate	owner_decision	753	379
PRJDB39894	Constructions and application technology development of the infra- system for Korean gut microbiome (KAP230597)	unknown	unknown	gut_stool	unknown_age	deterministic_rule	728	728
PRJNA800419	An ex vivo screening of community response to synthetic and reference glycans	yes	other	gut_stool	unknown_age	opus_adjudicated	708	708
PRJNA558494	Transplantation of Human Gut Microbiota into Germ-Free Mice	mixed	other	gut_stool	unknown_age	sonnet_x2	695	695
PRJEB18471	Dynamics of the gut microbiome in Inflammatory Bowel Disease	yes	other	gut_stool	unknown_age	sonnet_x2	683	683
PRJNA1402556	Gut Microbiota and Risk of Acute Cellular Rejection after Liver Transplant: A Longitudinal Cohort Study	yes	amplicon_misfiled	gut_stool	adult	sonnet_x2	674	674
PRJNA659029	Association of Body Mass Index with Fecal Microbial Diversity and Metabolites in the Northern Finland Birth Cohort	yes	amplicon	gut_stool	adult	sonnet_x2	587	587
PRJNA675704	gQlab Metagenome	yes	amplicon_misfiled	gut_stool;vaginal_urogenital	adult	owner_decision	585	585
PRJNA553595	Biobehavioral Determinants of the Microbiome and Preterm Birth in Black Women	yes	other	gut_stool;oral;vaginal_urogenital	adult	sonnet_x2	552	552
PRJEB11425	Wischmeyer_ICU_microbiome	yes	other	gut_stool;oral;skin;multi_site	unknown_age	sonnet_x2	544	544
PRJNA673212	Re-use of fecal immunochemical test (FIT) devices for associations of colorectal neoplasia with fecal microbiome metrics	yes	amplicon	gut_stool	unknown_age	opus_adjudicated	538	538
PRJNA785341	Resolving clonal substructure from single cell genomic data in primary and metastatic tumors using CopyKit	unknown	shotgun_dna	blood_tissue;gut_stool	unknown_age	deterministic_rule	530	1
PRJNA1464060	Efficacy of Bifidobacterium lactis BLa80 in Preventing Early Childhood Eczema and Respiratory Infections via Gut Microbi	yes	amplicon_misfiled	gut_stool;nasal_nasopharyngeal;milk	child;infant	owner_decision	488	488
PRJEB17694	Gut Microbiota Regulate Motor Deficits and Neuroinflammation in a Model of Parkinson's Disease	mixed	other	gut_stool	unknown_age	opus_adjudicated	481	481
PRJNA738943	Comparison of fecal and oral collection methods for studies of the human microbiota in two Iranian cohorts	yes	amplicon_misfiled	gut_stool;oral	unknown_age	sonnet_x2	471	471
PRJEB11170	American Gut round 20	yes	other	gut_stool	unknown_age	sonnet_x2	470	470
PRJNA748447	Validity and safety of ID-JPL934 in lower gastrointestinal symptom improvement	yes	amplicon_misfiled	gut_stool	adult	owner_decision	448	448
PRJNA725416	Emory University African American Vaginal, Oral, and Gut Microbiome in Pregnancy Cohort Study	yes	other	vaginal_urogenital;oral;gut_stool	adult	sonnet_x2	436	436
PRJEB39293	Maternal and neonatal rectal carriage of beta-lactamases from low- and middle-income countries: prevalence, risk factors	yes	unknown	gut_stool	neonate;adult	deterministic_rule	422	422
PRJEB27325	Probiotic supplementation restores normal microbiota composition and function in antibiotic-treated and in caesarean-bor	yes	amplicon	gut_stool	infant	owner_decision	402	402
PRJNA637490	16S RNA sequencing of gut microbiota for study of gestational diabetes	yes	amplicon	gut_stool	adult	opus_adjudicated	402	402
PRJNA1143938	Integrative analyses of the viral dark matter of the IBS with depression and anxiety	yes	other	gut_stool	unknown_age	sonnet_x2	401	401
PRJDB12430	Changes in gut microbiome by intake of poly-gamma-glutamic acid and galactooligosaccharide	yes	other	gut_stool	unknown_age	opus_adjudicated	400	400
PRJEB35571	Virome sequencing of human stool	yes	other	gut_stool	unknown_age	sonnet_x2	400	400
PRJEB50286	Study of 16S metagenomic data from stool samples of severe acute malnutrition	yes	amplicon_misfiled	gut_stool	child	owner_decision	396	396
PRJEB6358	Effects of cholera on the human gut microbiota, and interactions between human gut microbes and Vibrio cholerae.	mixed	other	gut_stool	adult	owner_decision	385	214
PRJNA1128691	A phase 2 randomized, placebo-controlled trial of inulin for the prevention of gut pathogen colonization and infection i	yes	amplicon	gut_stool	unknown_age	opus_adjudicated	384	384
PRJNA1005621	MGMSU COVID-19 Resistome Targeted Panel Sequencing	yes	other	oral;gut_stool	unknown_age	opus_adjudicated	371	371
PRJNA1131598	Gut microbiota in obese young adults	yes	amplicon_misfiled	gut_stool	adult	opus_adjudicated	360	169
PRJNA936638	Prolonged efficacy of Bifidobacterium lactis in the treatment of functional dyspepsia	yes	other	gut_stool	unknown_age	sonnet_x2	360	360
PRJDB19503	Stool 16S rRNA amplicon sequencing of Korean Crohn's disease and ulcerative colitis patients (KAP230691)	yes	unknown	gut_stool	unknown_age	deterministic_rule	357	357
PRJNA1009231	Born in the twilight of antbiotics	yes	other	nasal_nasopharyngeal;gut_stool	infant	opus_adjudicated	345	345
PRJNA812758	Study of human gut microbiota	yes	amplicon_misfiled	gut_stool	unknown_age	sonnet_x2	341	1
PRJEB78708	Tracking_Antimicrobial_Resistance_Across_Care_Settings_in_Liverpool_	unknown	shotgun_dna	gut_stool;skin;other_site	unknown_age	pending	336	336
PRJEB9818	The gut DNA viromes of Malawian twins discordant for severe acute undernutrition	yes	other	gut_stool	infant;child	owner_decision	331	245
PRJNA1150262	Enterobacteriaceae-selected fecal sample metagenomics	yes	other	gut_stool	unknown_age	sonnet_x2	330	161
PRJNA984221	Fecal microbiota transplant in ulcerative colitis patients: what is the role of the human gut virome and can it be used	yes	other	gut_stool	adult	deterministic_prior	312	312
PRJNA288562	Temporal and Spatial Variation of the Human Microbiota During Pregnancy	yes	amplicon_misfiled	vaginal_urogenital;gut_stool;oral	adult	opus_adjudicated	292	292
PRJEB55403	Differential Microbial Community Assembly Following Co-housing versus Microbiota Transplant	unknown	shotgun_dna	gut_stool	unknown_age	deterministic_rule	288	288
PRJNA453621	Gut microbiota analysis associated with autism spectrum disorders [16S rRNA]	yes	amplicon	gut_stool	unknown_age	opus_adjudicated	286	286
PRJEB13680	The Treatment-Naive Microbiome in New-Onset Crohn`s Disease	yes	amplicon	gut_stool	child;adolescent	owner_decision	284	284
PRJNA936635	T2D	unknown	other	gut_stool	unknown_age	sonnet_x2	280	280
PRJEB97391	Gut microbiome repopulation through SCFA cross-feeding shapes community dynamics and alleviates IL-22–mediated colitis	unknown	shotgun_dna	gut_stool	unknown_age	deterministic_rule	272	272
PRJNA1336467	Microbiome of in vitro gut microbiome fed with a legume-based postbiotic formulation	no	shotgun_dna	gut_stool		deterministic_prior	272	272
PRJEB88937	We sequenced Western Capercaillie feathers and faeces collected in Tyresta National Park, Sweden	unknown	other	gut_stool	unknown_age	deterministic_rule	270	270
PRJNA924942	Human fecal samples Raw sequence reads (host removed)	yes	other	gut_stool	unknown_age	sonnet_x2	269	269
PRJNA824667	gut metagenome Raw sequence reads	unknown	shotgun_dna	gut_stool	unknown_age	sonnet_x2	267	267
PRJNA1012329	Gut microbiota in checkpoint inhibitor-induced colitis	mixed	other	gut_stool	unknown_age	sonnet_x2	264	264
PRJNA782810	Exploring the species-level infant gut bacterial biodiversity through a meta-analysis and the formulation of an optimize	yes	amplicon	gut_stool	infant	owner_decision	264	264
PRJEB51894	Changes in gut microbiota metatranscriptome induced by a Bifidobacterium lactis CNCM I-2494 fermented milk are associate	yes	rna	gut_stool	unknown_age	opus_adjudicated	262	262
PRJEB60691	Sterile faecal filtrate transplantation alters phage-microbe dynamics in individuals with metabolic syndrome	yes	other	gut_stool	adult	sonnet_x2	261	261
PRJNA1441097	human gut metagenome Raw sequence reads	yes	amplicon_misfiled	gut_stool;vaginal_urogenital	adult	sonnet_x2	260	260
PRJNA317572	riverine metagenome Genome sequencing	unknown	other	gut_stool	unknown_age	deterministic_rule	256	256
PRJNA1071348	Modeling prebiotic interventions on luminal and mucosa-associated microbiota in vitro	no	shotgun_dna	gut_stool		deterministic_prior	255	255
PRJEB7604	Goodrich Methanogen Mice	mixed	other	gut_stool	unknown_age	sonnet_x2	252	252
PRJNA644763	Study on the gut microbiota in autism children and their mothers Targeted loci	yes	amplicon_misfiled	gut_stool	child;adult;infant	owner_decision	246	246
PRJNA976196	Impact of soymilk-burkina intake on gut microbiome and nutritional status of Ghanaian women	yes	amplicon	gut_stool;milk;blood_tissue	adult	curator_audit	246	246
PRJNA714459	human gut metagenome	yes	other	gut_stool	unknown_age	opus_adjudicated	245	245
PRJNA808836	Helicobacter pylori in Colorectal Carcinogenesis	unknown	other	gut_stool	unknown_age	deterministic_rule	245	245
PRJNA1106098	Lp082 isolates from feces after intermittent gavage	yes	isolate_genome	gut_stool	unknown_age	sonnet_x2	244	244
PRJNA450709	Metagenome-wide association analysis identifies microbial determinants of post-antibiotic ecological recovery in the gut	no	shotgun_dna	gut_stool	unknown_age	curator_audit	243	243
PRJNA1306337	Gut and oral microbiota in patients with obesity and/or ischemic heart disease	yes	amplicon_misfiled	gut_stool;oral	unknown_age	sonnet_x2	240	240
PRJNA1320978	Dark chocolate, cocoa, and almonds influence gut microbiome in adults with overweight or obesity	yes	amplicon_misfiled	gut_stool	adult	owner_decision	240	240
PRJNA684591	16s rRNA of human stool samples Metagenome	yes	amplicon_misfiled	gut_stool	elderly	sonnet_x2	240	240
PRJNA503710	Study on the gut microbiota of coronary artery disease Targeted loci	unknown	amplicon_misfiled	gut_stool	unknown_age	sonnet_x2	238	238
PRJNA644456	Obesity gut microbiome metagenomic sequencing	yes	other	gut_stool	unknown_age	sonnet_x2	228	228
PRJNA1243050	Maternal gut microbiota	yes	other	gut_stool	adult	opus_adjudicated	227	227
PRJNA1294581	Plasmids promote antimicrobial resistance through Insertion Sequence mediated gene inactivation	yes	isolate_genome	gut_stool	unknown_age	sonnet_x2	225	225
PRJEB44020	An approach for evaluating the effects of dietary fiber polysaccharides on the human gut microbiome and plasma proteome	yes	other	gut_stool	unknown_age	sonnet_x2	222	222
PRJEB51501	Predicting butyrate- and propionate-forming bacteria of gut microbiota from sequencing data	unknown	shotgun_dna	gut_stool	unknown_age	sonnet_x2	212	212
PRJNA1074371	Bacterial 16S and fungal ITS2 rRNA data from adult humans with lymphoma treated with CAR T-cell therapy	yes	amplicon	gut_stool	adult	opus_adjudicated	212	212
PRJEB45090	ED Gut	unknown	shotgun_dna	gut_stool	unknown_age	sonnet_x2	210	201
PRJNA576323	human metagenome Raw sequence reads	yes	amplicon_misfiled	gut_stool;respiratory_lower	unknown_age	owner_decision	210	210
PRJNA481528	16s rRNA Sequencing of Stool Samples Metagenome	yes	amplicon_misfiled	gut_stool	unknown_age	sonnet_x2	208	208
PRJNA1391352	Performance of shotgun metagenomic sequencing for detection of fungi and parasites in a broad range of clinical samples:	yes	other	gut_stool;blood_tissue;respiratory_lower;other_site	unknown_age	sonnet_x2	204	204
PRJNA631464	lactobacillus composition in human fece	yes	isolate_genome	gut_stool	unknown_age	curator_audit	200	200
PRJNA746322	Bacterial 16S rRNA gene and shotgun metagenomic sequencing data from adult humans infected by SARS-CoV-2	yes	amplicon	gut_stool	adult	owner_decision	198	198
PRJNA881329	Understanding Rectal HIV Transmission among At-Risk MSM	yes	other	gut_stool	adult	sonnet_x2	195	195
PRJEB111795	Westernization shapes protist–microbiota interactions	mixed	other	gut_stool	unknown_age	sonnet_x2	194	194
PRJEB39960	High engraftment capacity of frozen ready-to-use human fecal transplants assessed in germ-free mice	no	shotgun_dna	gut_stool	unknown_age	curator_audit	193	87
PRJNA1055136	Microbial metabolite drives ageing-related clonal haematopoiesis via ALPK1	mixed	amplicon	blood_tissue;gut_stool	unknown_age	opus_adjudicated	193	193
PRJNA841222	gut microbiota and anticancer treatment - M21	yes	other	gut_stool	unknown_age	sonnet_x2	193	193
PRJNA802048	Insights into the infant gut microbiome composition after bovine lactoferrin oral administration over time	yes	amplicon_misfiled	gut_stool;milk	infant;neonate	owner_decision	187	187
PRJNA1162456	Effects of allyl isothiocyanate on the human gut microbiome assessed using an in vitro model	no	shotgun_dna	gut_stool		sonnet_x2	184	184
PRJNA1180640	Efficacy and Mechanisms of CDD2101 granules on Functional Constipation	yes	other	gut_stool	unknown_age	sonnet_x2	183	183
PRJEB36968	Gut microbiota and Antimicrobial resistance alteration during international travel in Hong Kong traveler	yes	other	gut_stool	unknown_age	sonnet_x2	180	180
PRJNA1222290	BREATHE PROJECT	yes	other	gut_stool	child;adolescent	opus_adjudicated	178	178
PRJNA445932	16S rDNA profiling and virome sequencing of stool samples from children after the onset of type 1 diabetes	unknown	other	gut_stool	child;adolescent	sonnet_x2	178	178
PRJNA819052	First-in-class microbial ecosystem therapeutics 4 (MET4) in combination with immune checkpoint inhibitors in patients wi	yes	amplicon_misfiled	gut_stool	unknown_age	sonnet_x2	170	170
PRJDB41499	The 16s rRNA amplicon sequencing raw data (PRJCA049722)	unknown	shotgun_dna	gut_stool	unknown_age	deterministic_rule	168	168
PRJNA658828	LDM-mouse gut metagenome Targeted loci	mixed	unknown	gut_stool	adult;mixed_ages	pending	168	168
PRJNA600283	Meconium samples	unknown	unknown	gut_stool	neonate	deterministic_rule	166	166
PRJNA1171148	Gut microbiota rehabilitation	mixed	amplicon_misfiled	gut_stool	unknown_age	owner_decision	165	165
PRJNA557226	Mycobiome in Pancreatic Cancer	mixed	other	gut_stool	unknown_age	sonnet_x2	164	164
PRJNA1252674	Gut Microbiota Signatures Associated with Ketogenic Diet Response in Pediatric Drug-Resistant Epilepsy	yes	amplicon_misfiled	gut_stool	infant;child	opus_adjudicated	162	162
PRJEB13219	The influence of a short-term gluten-free diet on the human gut microbiome	yes	other	gut_stool	adult	sonnet_x2	161	161
PRJNA1328163	The Gut Microbiota of Infants Before and After Probiotic and/or Lactose Treatment	yes	amplicon	gut_stool	infant;neonate	opus_adjudicated	161	161
PRJEB11685	Intestinal microbiome is related to lifetime antibiotic use in Finnish pre-school children	yes	other	gut_stool	infant;child	opus_adjudicated	160	80
PRJEB41866	TTSH Study	unknown	shotgun_dna	gut_stool;skin	unknown_age	sonnet_x2	160	160
PRJEB67448	16S rRNA gene sequence analysis of feces samples from 60 breast cancer patients treated with paclitaxel and 20 healthy c	yes	amplicon	gut_stool	unknown_age	opus_adjudicated	160	80
PRJNA646241	Genome targeted microbial community analysis	mixed	other	gut_stool	unknown_age	opus_adjudicated	160	160
PRJEB39955	The dynamic changes of gut microbiota during the perinatal period in sows	unknown	shotgun_dna	gut_stool	unknown_age	deterministic_rule	159	159
PRJEB16057	Baseline Fecal Samples of Hemapoetic Stem Cell Transplant Donors and Patients	yes	amplicon_misfiled	gut_stool	unknown_age	sonnet_x2	158	79
PRJEB53584	A Viral Metagenomic Protocol for Nanopore Sequencing of Group A Rotavirus	yes	other	gut_stool	unknown_age	sonnet_x2	157	157
PRJNA726242	Red wine remodels gut microbiota (Part 1)	yes	other	gut_stool	adult;elderly	opus_adjudicated	156	156
PRJNA898682	Study of gut virome in allogeneic hematopoietic stem cell transplantation	yes	other	gut_stool	unknown_age	opus_adjudicated	153	153
PRJNA1024544	Impact of Childhood Adversity on the Gut Microbiome of Nursing Students	yes	amplicon_misfiled	gut_stool	child;adult	owner_decision	150	150
PRJNA1066963	MORDOR54	yes	other	gut_stool	infant;child	opus_adjudicated	150	150
PRJNA1330789	T cell receptor repertoire sequencing from duodenal samples of coeliac disease patients and healthy controls (dataset 1)	yes	other	gut_stool	unknown_age	sonnet_x2	149	149
PRJNA764417	human gut ITS2 Raw sequence reads	yes	amplicon_misfiled	gut_stool	unknown_age	sonnet_x2	149	149
PRJNA1053898	Gut microbial dysbiosis is associated with occurrence and post-surgical prognosis of unraptured cerebral aneurysm	yes	amplicon	gut_stool	unknown_age	owner_decision	148	148
PRJEB71847	Gut and respiratory tract microbiota in children younger than 12 months hospitalised for bronchiolitis compared with hea	yes	amplicon_misfiled	gut_stool;respiratory_lower	infant	owner_decision	147	147
PRJNA1240002	The Impact of Donor Microbiota Functional Characteristics on Fecal Microbiota Transplantation Efficacy in Inflammatory B	mixed	amplicon_misfiled	gut_stool	unknown_age	opus_adjudicated	147	147
PRJEB71357	Double-blind, randomized, placebo-controlled study assessing the Impact of Probiotic Supplementation on Antibiotic Induc	yes	other	gut_stool	adult	sonnet_x2	145	145
PRJNA1106097	Leuconostoc citreum enhances the colonization ability of Lactiplantibacillus plantarum in the intestinal tract Metagenom	mixed	other	gut_stool	unknown_age	sonnet_x2	144	144
PRJNA1261487	Onion- and Cucumber-Derived Fructooligosaccharides Selectively Promote Bacteroides fragilis Growth in the Gut	unknown	other	gut_stool	unknown_age	sonnet_x2	144	144
PRJNA284162	STL Infant Twins Microbiome	yes	other	gut_stool	infant	owner_decision	143	48
PRJNA1517268	Feces Raw sequence reads	unknown	shotgun_dna	gut_stool	unknown_age	sonnet_x2	142	142
PRJEB30788	Gut microbial diversity among school children of Tibetan, Hui, and Han ethnics in the Qinghai˗Tibetan Plateau	yes	amplicon	gut_stool	child	opus_adjudicated	141	141
PRJNA668202	gut dysbiosis in diabetes used metagenomic data	yes	other	gut_stool	unknown_age	sonnet_x2	141	141
PRJNA980291	Targeted Capture of AMR in children in Botswana	yes	other	gut_stool	child;infant	sonnet_x2	141	141
PRJNA1427664	16S rRNA sequencing of gut microbiota from patients of papillary thyroid cancer and healthy controls	yes	amplicon_misfiled	gut_stool	adult	sonnet_x2	140	140
PRJNA767648	Gut dysbiosis is Associated with the Development of Alopecia Areata	mixed	amplicon_misfiled	gut_stool	unknown_age	owner_decision	138	138
PRJNA574542	feces metagenome Raw sequence reads	yes	amplicon_misfiled	gut_stool	adult	owner_decision	137	137
PRJNA793907	Bacterial 16S rRNA gene sequences from fecal samples of prostate cancer patients treated with enzalutamide and pembroliz	yes	amplicon	gut_stool	unknown_age	opus_adjudicated	136	136
PRJNA828345	Microbiome Indonesia	yes	amplicon_misfiled	gut_stool;blood_tissue	adult;elderly	owner_decision	134	134
PRJNA1470033	Less diverse, more functionally specialised An eight-week crossover feeding trial reveals coordinated microbiome-metabol	yes	other	gut_stool	adult	opus_adjudicated	133	133
PRJEB58865	The microbiota drives circadian entrainment of tryptophan metabolism in the stressed gut	unknown	shotgun_dna	gut_stool;blood_tissue	unknown_age	deterministic_rule	132	132
PRJNA913793	Maternal tributyrin supplementation in late pregnancy and lactation improved offspring immunity, gut microbiota and diar	unknown	other	gut_stool	adult	deterministic_rule	132	1
PRJEB48760	Norovirus genomic surveillance: benchmarking, baseline survey, and outbreak investigation	mixed	other	gut_stool	unknown_age	opus_adjudicated	130	130
PRJNA399638	CRC mucosal microbiota project Targeted loci	yes	amplicon_misfiled	gut_stool	adult	sonnet_x2	130	130
PRJNA666226	Gut bacteriophages in Clostridioides difficile patients and fecal microbiota transplantation donors	yes	other	gut_stool	unknown_age	sonnet_x2	130	130
PRJNA821525	Gut microbiota analysis in poorly controlled diabetes patients with latent TB infection (LTBI) and nonLTBI [16S rRNA]	yes	amplicon	gut_stool	unknown_age	opus_adjudicated	130	130
PRJNA1232647	Fecal Microbiota and Bile Acid Profiles in Early-Stage Hepatocellular Carcinoma: A Matched Case-Control Study	yes	other	gut_stool	unknown_age	sonnet_x2	129	129
PRJNA1497083	Pet risk - antimicrobial resistance	mixed	other	gut_stool	unknown_age	opus_adjudicated	129	129
PRJNA1434023	Microbiome and metabolome patterns centered on cancer cachexia link skeletal muscle and adipose tissue depletion to clin	yes	amplicon_misfiled	gut_stool	unknown_age	opus_adjudicated	128	128
PRJNA668036	Enrichment-based discovery and cataloguing of gut bacteriophages	yes	other	gut_stool	unknown_age	sonnet_x2	128	128
PRJNA1133685	Homo sapiens Raw sequence reads	yes	amplicon_misfiled	gut_stool	adult	sonnet_x2	127	127
PRJNA589343	The gut microbiota changes in Chinese children with autism spectrum disorders	yes	other	gut_stool	child;infant	opus_adjudicated	127	127
PRJNA1394862	Improved deconvolution of circulating tumor DNA from shallow whole-genome methylation sequencing using CelFiE-ISH	unknown	shotgun_dna	blood_tissue;gut_stool;respiratory_lower	unknown_age	pending	126	126
PRJEB38373	Microbial Features in Pregnant Women with Hypothyroidism	unknown	shotgun_dna	gut_stool;oral	adult	deterministic_rule	122	122
PRJNA1110396	Effect Of Mastectomy On Gut Microbiota And Its Metabolism In Patients With Breast Cancer	yes	other	gut_stool	unknown_age	sonnet_x2	121	121
PRJNA1220680	Spatially separated intraepithelial and lamina propria neutrophils present distinct functional identities in the inflame	yes	other	gut_stool	unknown_age	sonnet_x2	120	60
PRJNA973721	gut microbiota from 120 eldly people in Tongchuan and Xi'an, China Raw sequence reads	yes	amplicon	gut_stool;blood_tissue	adult;elderly	owner_decision	120	120
PRJEB31117	Human Gut Microbiota from Autism Spectrum Disorder Promote Behavioral Symptoms in Mice	mixed	other	gut_stool	unknown_age	sonnet_x2	117	117
PRJEB34966	Selective culture enrichment and sequencing of feces to enhance detection of antimicrobial resistance genes in third-gen	yes	other	gut_stool	unknown_age	sonnet_x2	117	117
PRJNA1179461	Integrative Multiomics Analysis Reveals Association of Gut Microbiota and its Metabolites With Susceptibility to Keloids	yes	other	gut_stool	unknown_age	sonnet_x2	116	116
PRJNA267842	Intestinal microbiota composition modulates choline bioavailability from diet and accumulation of the pro-atherogenic me	unknown	other	gut_stool	unknown_age	pending	116	116
PRJNA803045	Evaluation of amoxicillin-clavulanic acid antibiotic treatment on the gut microbiota in a murine model	mixed	other	gut_stool	unknown_age	sonnet_x2	115	115
PRJNA1207020	Eggerthella lenta Down Regulated Flavone and Flaconol Biosynthesis Promoted Kawasaki Disease	yes	amplicon	gut_stool	infant;child	opus_adjudicated	114	114
PRJNA900686	Homo sapiens fecal Metagenome	yes	amplicon_misfiled	gut_stool	unknown_age	owner_decision	114	57
PRJNA1441486	Target-enriched metagenomic sequencing improves detection and provides consistent resistome characterization across libr	unknown	other	gut_stool	unknown_age	opus_adjudicated	112	24
PRJNA544346	fecal sample collected healthy human Raw sequence reads	yes	amplicon	gut_stool	infant;adult	owner_decision	112	56
PRJEB43505	Gut barrier and microbiota changes with glycine and branched chain amino acids supplementation in chronic hemodialysis p	yes	amplicon_misfiled	gut_stool;blood_tissue	adult	owner_decision	111	111
PRJEB11531	Impact of freeze-drying on milk oligosaccharide content and marker gene bacterial community profiles in infant fecal sam	yes	other	gut_stool	infant	sonnet_x2	109	109
PRJNA1011537	Exercise-induced changes in gut mycobiome as a potential contributor to metabolic benefits in diabetes prevention: an in	yes	other	gut_stool	adult	sonnet_x2	108	108
PRJNA419104	human stool FUNGI	yes	other	gut_stool	unknown_age	sonnet_x2	108	108
PRJNA706147	Homo sapiens Raw sequence reads	yes	other	gut_stool	unknown_age	sonnet_x2	108	1
PRJNA1282097	Fecal virome in Pediatric CD	yes	other	gut_stool	child	deterministic_rule	106	106
PRJNA1204201	The synergistic effect of compound dietary fiber and pd on GDM	unknown	shotgun_dna	gut_stool	unknown_age	deterministic_rule	105	105
PRJEB14669	Variation in the gut microbiota of monozygotic twins is mirrored in their viromes	yes	other	gut_stool	adult	deterministic_prior	104	104
PRJEB24843	The intestinal microbiota predisposes to traveller’s diarrhoea and to the carriage of multidrug-resistant Enterobacteria	unknown	shotgun_dna	gut_stool	unknown_age	sonnet_x2	104	104
PRJNA1094987	The link of carbohydrate degrading enzymes to GVHD	unknown	shotgun_dna	gut_stool	unknown_age	deterministic_rule	104	104
PRJNA419097	human stool bacteria 16s rDNA v4 region sequencing	yes	amplicon_misfiled	gut_stool	unknown_age	sonnet_x2	104	104
PRJNA592853	Enteral Nutrition in Pediatric Patients Undergoing Hematopoietic SCT Promotes the Recovery of Gut Microbiome Homeostasis	yes	other	gut_stool	child	deterministic_rule	104	104
PRJNA1232706	Fecal Microbiota and Bile Acid Profiles in Early-Stage Hepatocellular Carcinoma using Shotgun metagenomic sequencing: A	yes	other	gut_stool	unknown_age	sonnet_x2	103	103
PRJNA1401517	Altered Gut Microbiota and Serum Metabolite Profiles Characterize Postmenopausal Bone Loss Insights into the Gut Bone Ax	yes	amplicon	gut_stool	adult;infant	owner_decision	103	103
PRJNA445365	human gut metagenome Raw sequence reads	yes	other	gut_stool	unknown_age	sonnet_x2	103	1
PRJEB31095	The intestinal microbiome from two ecotypes of Atlantic cod and three additional Gadidae species.	unknown	other	gut_stool	unknown_age	deterministic_rule	102	102
PRJEB90858	Mapping Antibiotic Resistance Gene Transmission in Human-Pig Environments	mixed	other	gut_stool	adult	opus_adjudicated	101	101
PRJEB40590	The intestinal virome in irritable bowel syndrome	yes	other	gut_stool	unknown_age	sonnet_x2	100	99
PRJEB60914	Roles of gut microbiota-mediated nutrient competition and metabolite inhibition in the intestinal colonisation of CRE.	yes	other	gut_stool	unknown_age	opus_adjudicated	99	99
PRJNA506811	HUMAN GUT RECTAL BACTERIA Metagenome	yes	other	gut_stool	unknown_age	sonnet_x2	99	99
PRJNA924526	Metagenomic sequencing of human feces in vitro culture for 72 hours after phage treatment	no	shotgun_dna	gut_stool		deterministic_prior	99	99
PRJNA1251145	Homo sapiens Raw sequence reads	yes	amplicon_misfiled	gut_stool	unknown_age	opus_adjudicated	98	98
PRJNA1314062	Effect of chemotherapy on gut microbiota in patients with colorectal cancer	yes	amplicon_misfiled	gut_stool	adult	sonnet_x2	98	98
PRJEB18693	Fat-rich diets flatten the contribution of vegetarian and omnivora oriented dietary styles on human gut microbiota.	yes	amplicon	gut_stool	unknown_age	owner_decision	97	97
PRJNA381832	Homo sapiens Raw sequence reads	yes	other	blood_tissue;oral;gut_stool	adult	opus_adjudicated	97	1
PRJNA916802	PFKFB3 overexpression in monocytes of patients with colon but not rectal cancer programs pro-tumor macrophages and is in	yes	other	gut_stool;blood_tissue	adult	sonnet_x2	97	97
PRJDB17852	16S rRNA amplicon sequencing of colorectal polyps	yes	amplicon_misfiled	gut_stool;oral;multi_site	unknown_age	sonnet_x2	96	96
PRJEB39038	Microbiome signature in post-treatment Lyme disease syndrome patients	yes	other	gut_stool	unknown_age	sonnet_x2	96	96
PRJNA1081843	Factors impacting target-enriched long-read sequencing of resistomes and mobilomes	mixed	other	gut_stool	unknown_age	opus_adjudicated	96	96
PRJNA1116578	Gut microbiome profiling of Alzheimer's disease	unknown	shotgun_dna	gut_stool	unknown_age	deterministic_rule	96	96
PRJNA1192571	Faeces metagenome methionine	unknown	shotgun_dna	gut_stool	unknown_age	sonnet_x2	96	96
PRJNA1255389	Carbapenemase producing Enterobacterales from Qatar and Gaza area in Sidra Medicine Raw sequence reads	yes	isolate_genome	gut_stool	child	curator_audit	96	96
PRJNA1293349	fecal microorganism	unknown	other	gut_stool	unknown_age	opus_adjudicated	96	96
PRJNA1380314	gut metagenome	unknown	shotgun_dna	gut_stool	unknown_age	sonnet_x2	96	96
PRJNA1244236	Exploration of predictive factors based on oral and intestinal bacterial flora for treating patients with urothelial car	yes	amplicon_misfiled	gut_stool;oral	unknown_age	sonnet_x2	95	95
PRJNA1302499	Stool microbiota of patients with acute myeloid patients with neutropenia	yes	other	gut_stool	unknown_age	sonnet_x2	94	1
PRJNA751712	To Probiotic or not to probiotic: using metagenomics to compare the gut microbiome of infants who fulfill probiotic-trea	yes	amplicon	gut_stool	infant;neonate	owner_decision	94	1
PRJEB14782	Ercolini whole grain feces	yes	other	gut_stool	unknown_age	opus_adjudicated	93	93
PRJEB32675	Modulation of the gut microbiome in Mild Cognitive Impairment (MCI) subjects	yes	other	gut_stool	adult;elderly	sonnet_x2	93	93
PRJNA1063217	Gut Microbiota Composition and Fecal Metabolomic Profile in Patients with Non-Traumatic Osteonecrosis of the Femoral Hea	yes	amplicon	gut_stool	unknown_age	opus_adjudicated	93	93
PRJNA1127492	Differences in gut microbiota composition between hormonal receptor positive breast cancer patients and healthy controls	yes	other	gut_stool	unknown_age	sonnet_x2	92	92
PRJNA630202	Dynamics of Salmonella spp. and Listeria monocytogenes in irrigation water and the correlation to environmental factors,	unknown	shotgun_dna	gut_stool	unknown_age	deterministic_rule	92	92
PRJNA1193239	Maternal gut inflammation aggravates acute liver failure through facilitating ferroptosis via altering gut microbial met	mixed	other	gut_stool	unknown_age	opus_adjudicated	91	91
PRJNA408008	Homo sapiens Raw sequence reads	yes	other	gut_stool	unknown_age	sonnet_x2	91	91
PRJEB34058	Gut microbiota and serotonin alter after Connected to nature intervention	yes	other	gut_stool	infant;child	opus_adjudicated	90	90
PRJNA1216621	Significant changes in the gut microbiota in heart failure patients	yes	other	gut_stool	unknown_age	opus_adjudicated	90	90
PRJNA1320699	16S sequencing of infant stool Metagenome	yes	amplicon_misfiled	gut_stool	infant	owner_decision	90	90
PRJNA1480865	Comparison of gut microbiome signatures between premature ovarian insufficiency and polycystic ovary syndrome	yes	other	gut_stool	adult	sonnet_x2	90	90
PRJNA609532	Gut bacterial 16S rDNA sequencing data	yes	amplicon_misfiled	gut_stool	unknown_age	sonnet_x2	90	4
PRJNA899863	16S Microbiome Sequencing of EDP1815 Phase 1B Clinical Trial Patients Stool	yes	amplicon_misfiled	gut_stool	unknown_age	sonnet_x2	90	90
PRJNA936602	antibiotic gut microbiome	unknown	unknown	gut_stool	unknown_age	opus_adjudicated	90	90
PRJNA1305438	Composition of the intestinal microbiota in the Peruvian vegetarian population	yes	amplicon	gut_stool	adult	curator_audit	88	88
PRJNA1419483	Microbiota in HCC	yes	other	gut_stool	unknown_age	sonnet_x2	86	86
PRJNA313074	BROAD IBD Study Human Microbiome Raw sequence reads	yes	other	gut_stool	unknown_age	sonnet_x2	86	43
PRJNA554111	The raw reads of gut Microbiota in Patients with Alzheimer’s Disease and normal people	yes	other	gut_stool	unknown_age	sonnet_x2	86	86
PRJNA574517	feces metagenome Raw sequence reads	yes	amplicon_misfiled	gut_stool	adult	owner_decision	86	86
PRJNA758355	16S sequencing of human fecal samples	yes	amplicon_misfiled	gut_stool	adult	sonnet_x2	86	86
PRJNA800832	16S rRNA amplicon sequencing analysis of the lung bacteria and gut bacteria in pulmonary tuberculosis - a pilot study.	yes	amplicon_misfiled	respiratory_lower;gut_stool	unknown_age	owner_decision	86	86
PRJDB38084	Shotgun metagenomic sequences aligned to the clb genes in the gut microbiota of healthy Japanese adult	yes	other	gut_stool	adult	sonnet_x2	85	85
PRJEB15633	Growth and Morbidity of Gambian Infants are Influenced by Maternal Milk Oligosaccharides and Infant Gut Microbiota	yes	amplicon	gut_stool	infant;adult	owner_decision	85	85
PRJEB41206	Circadian rhythm of the fecal microbiota in laying hens	unknown	shotgun_dna	gut_stool	unknown_age	deterministic_rule	85	85
PRJDB10803	Euglena gracilis stimulates Faecalibacterium and contributes to increased defecation	yes	other	gut_stool	unknown_age	opus_adjudicated	84	84
PRJNA1224737	Vancomycin protects against acute respiratory distress syndrome by promoting butyrate metabolism	mixed	amplicon_misfiled	gut_stool	unknown_age	sonnet_x2	84	83
PRJNA1251693	Enrichment of DNA hypomethylated regions using 5-methylcytosine glycosylase	unknown	shotgun_dna	gut_stool	unknown_age	deterministic_rule	83	77
PRJEB32887	Gastrointestinal microbiota and immune cells interact closely and display regional specificity, but little is known abou	yes	other	gut_stool	unknown_age	sonnet_x2	82	82
PRJNA493726	human-gut microbiota Raw sequence reads	yes	other	gut_stool	unknown_age	sonnet_x2	82	82
PRJNA789106	Stool microbiome of IBS patients	yes	other	gut_stool	unknown_age	opus_adjudicated	82	82
PRJNA1456676	Feces Raw sequence reads	unknown	shotgun_dna	gut_stool	unknown_age	pending	81	81
PRJEB7166	Metagenomic analysis of the virome and 16S rRNA gene of feces from healthy individuals and feces and biopsies from Crohn	yes	other	gut_stool;blood_tissue	unknown_age	owner_decision	80	80
PRJNA1063177	Associations of Sleep with Gut Microbiome and Participant-Reported Outcomes in Patients with Colorectal Cancer and their	yes	other	gut_stool	unknown_age	opus_adjudicated	80	80
PRJNA690972	Gut microbiota for orthopedic patients preoperatively	yes	other	gut_stool	elderly	sonnet_x2	80	80
PRJNA851256	Comparing in vitro faecal fermentation methods for phage therapy application	no	shotgun_dna	gut_stool		opus_adjudicated	80	80
PRJNA894152	Long read infant/young children fecal and environmental samples	yes	amplicon_misfiled	gut_stool	infant;child	owner_decision	80	57
PRJNA917185	Lamb fecal Microbiome after CCFA challenge	unknown	shotgun_dna	gut_stool	unknown_age	deterministic_rule	80	80
PRJEB13051	Subsistence strategies in traditional societies distinguish gut microbiomes	yes	other	gut_stool	unknown_age	sonnet_x2	79	79
PRJEB32184	Duodenal Microbiota in Stunted Undernourished Children with Enteropathy	yes	other	gut_stool	child;infant	sonnet_x2	79	58
PRJNA1215817	gut microbiota sequencing of Human	yes	other	gut_stool	unknown_age	opus_adjudicated	79	79
PRJNA804967	Alterations in Gut Microbiota Mediate Breast Cancer Development and Bone Metastasis	yes	amplicon	gut_stool	unknown_age	curator_audit	79	79
PRJNA1000620	Successful secukinumab therapy in plaque psoriasis is associated with altered gut microbiota and related function change	yes	amplicon	gut_stool	unknown_age	owner_decision	78	78
PRJNA1151239	Faecal microbiology in preschool children	yes	unknown	gut_stool	child;infant	opus_adjudicated	78	78
PRJNA590026	Intestinal microbiota metagenomic sequencing after taking L.p HNU082	mixed	other	gut_stool	unknown_age	sonnet_x2	78	78
PRJNA805248	Targeted Capture of AMR in Preterm infants after probiotic exposure	yes	other	gut_stool	neonate	sonnet_x2	78	78
PRJNA824808	16S V3-V4 -based microbial profiling of stool, skin and saliva samples of patients affected by systemic sclerosis (SSc)	yes	amplicon	gut_stool;skin;oral	unknown_age	opus_adjudicated	78	78
PRJNA961974	The effects of selected plant extracts on the human gut microbiome	yes	other	gut_stool	adult	opus_adjudicated	78	78
PRJNA1397951	Gut microbial signatures of advanced hepatocellular carcinoma and their potential diagnostic value	unknown	other	gut_stool	unknown_age	sonnet_x2	76	76
PRJNA528602	Effect of the consumption of a synbiotic on Mexican scholar children with overweight or obesity	yes	amplicon_misfiled	gut_stool	child	sonnet_x2	76	76
PRJNA975734	Disentangling the interactions between nasopharyngeal and gut microbiome and their involvement in the modulation of COVI	yes	other	nasal_nasopharyngeal;gut_stool	unknown_age	opus_adjudicated	76	76
PRJNA1333911	Influenza gut microbiome	yes	other	gut_stool	unknown_age	sonnet_x2	75	75
PRJNA1155655	Metagenomic analysis of the samples	no	shotgun_dna	gut_stool	unknown_age	curator_audit	74	74
PRJNA338148	Culture of gut microbiota raw sequence reads	yes	other	gut_stool	unknown_age	opus_adjudicated	74	74
PRJNA485216	human gut metagenome Raw sequence reads	yes	other	gut_stool	unknown_age	sonnet_x2	74	74
PRJNA852230	Evaluating the gut microbiota shifts caused by two diets based on ancient grains	yes	amplicon_misfiled	gut_stool	unknown_age	sonnet_x2	74	74
PRJNA991320	Depression in older adults	yes	amplicon_misfiled	gut_stool	adult;elderly	owner_decision	74	74
PRJEB49241	Gut microbiota and nutritional parameters differ in hemodialysis patients vs. healthy subjects	yes	amplicon_misfiled	gut_stool;blood_tissue	adult	owner_decision	73	73
PRJEB84421	Faecal microbiota and genetics in paediatric-onset orofacial granulomatosis and Crohn´s disease	yes	other	gut_stool	child	sonnet_x2	73	73
PRJEB16321	The Fecal Microbial Community of Breast-fed Infants from Georgia and Armenia	yes	amplicon	gut_stool	infant	opus_adjudicated	72	72
PRJEB27388	Longitudinal analysis of microbiome in pit latrines reveals a gut to environmental microbiome gradient and factors that	unknown	shotgun_dna	gut_stool	unknown_age	deterministic_rule	72	72
PRJEB41865	NUH Stool	unknown	shotgun_dna	gut_stool	unknown_age	sonnet_x2	72	72
PRJEB83283	Vancomycin-resistant enterococci utilise antibiotic-enriched nutrients for intestinal colonisation	yes	other	gut_stool	unknown_age	sonnet_x2	72	72
PRJNA862662	probiotics and lovastatin	yes	other	gut_stool	unknown_age	sonnet_x2	72	72
PRJNA974554	feces metagenome Genome sequencing	yes	amplicon_misfiled	gut_stool	unknown_age	owner_decision	72	72
PRJNA1102166	metagenome of intestine	unknown	shotgun_dna	gut_stool	unknown_age	deterministic_rule	71	1
PRJEB114345	Host-associated microbial evolution generates dominant gut communities that reshape metabolism	unknown	shotgun_dna	gut_stool	unknown_age	deterministic_rule	70	70
PRJNA1120650	Changes in simulated human gut after ingestion of fermented fruit juices with lower sugar content	no	shotgun_dna	gut_stool		sonnet_x2	70	70
PRJNA1262168	Mechanistic insights into the role of Bifidobacterium breve CCFM1078 in Regulating Rheumatoid Arthritis across the Gut-J	yes	other	gut_stool	unknown_age	opus_adjudicated	70	70
PRJNA769748	yangchengcong96@emails.imau.ed.cn	no	shotgun_dna	gut_stool	unknown_age	curator_audit	70	70
PRJNA789994	Homo sapiens gut genome	yes	amplicon_misfiled	gut_stool	unknown_age	owner_decision	70	70
PRJNA700830	The gut microbiota of critically ill patients with COVID-19	yes	amplicon_misfiled	gut_stool	adult	sonnet_x2	69	69
PRJNA551354	Gut microbiota Raw sequence reads	yes	other	gut_stool	unknown_age	sonnet_x2	68	68
PRJNA715828	Fusobacterium rpoB amplicon sequencing of the gut microbiota from colorectal cancer patients	yes	amplicon_misfiled	gut_stool	unknown_age	sonnet_x2	67	67
PRJEB7744	Dominguez uncontacted Yanomani 2008	yes	other	skin;oral;gut_stool	unknown_age	sonnet_x2	66	66
PRJEB7825	Dominguez uncontacted Yanomani 2008	yes	other	skin;oral;gut_stool	unknown_age	sonnet_x2	66	66
PRJNA1119639	Transcriptional profile and TCR sequences from tumor and adjacent normal human colorectal samples	yes	other	gut_stool	unknown_age	sonnet_x2	66	42
PRJNA1484277	Feces Raw sequence reads	unknown	shotgun_dna	gut_stool	unknown_age	pending	66	66
PRJNA611839	Alzheimer's disease microbial community diversity	yes	other	gut_stool	unknown_age	opus_adjudicated	65	65
PRJEB46230	Limited impact of dietary habits on the gut microbiome and resistome of humans	yes	other	gut_stool	unknown_age	opus_adjudicated	64	64
PRJEB47358	Saccharomyces boulardii CNCM I 745 supplementation modifies the fecal resistome during the Helicobacter pylori eradicati	yes	other	gut_stool	adult	sonnet_x2	64	64
PRJNA339554	Composite fecal samples and WWTP biosolids Raw sequence reads	mixed	other	gut_stool;other_site	unknown_age	opus_adjudicated	64	64
PRJNA674452	Exploration of crucial mediators for carotid atherosclerosis pathogenesis through integration of microbiome, metabolome	yes	amplicon	gut_stool	unknown_age	opus_adjudicated	64	64
PRJNA877434	human gut metagenome Raw sequence reads	yes	other	gut_stool	unknown_age	sonnet_x2	64	64

Other body-site scopes in the registry (future curation)

scope	studies	runs	status
All human shotgun metagenomes (registry) human_all	4,675	929,502	registry only — planned
Infant gut (0–3 y) infant_gut	389	182,725	curated (part of the catalog)
Child / adolescent gut (3–18 y) gut_child	406	147,159	registry only — planned
Adult gut (≥ 18 y) gut_adult	1,389	369,164	registry only — planned
Oral cavity oral	613	140,572	registry only — planned
Skin skin	273	77,062	registry only — planned
Vaginal / urogenital vaginal_urogenital	289	67,023	registry only — planned
Respiratory tract respiratory	827	117,408	registry only — planned
Human milk milk	64	22,569	registry only — planned
Blood / tissue blood_tissue	1,251	161,229	registry only — planned
Other body site other_site	278	45,273	registry only — planned
Body site unknown unknown_site	828	57,717	registry only — planned