IBD microbiome

All published public datasets in this pipeline, ranked by reuse-readiness × participants.

Also see IBD spatial transcriptomics Also see IBD single-cell transcriptomics

Full catalogue

All published datasets

147 datasets in this domain, ranked by impact.

#	Dataset	Participants	Samples	Reuse	Impact
1	Large-scale whole blood RNA-Seq identifies transcriptional differences between primary sclerosing cholangitis and ulcerative colitis Illumina HiSeq2500 · open	1,035	—	5.7 /10	5,899.5
2	Transcriptional Drivers of Stricturing Crohns Disease Illumina HiSeq 1000 · open	345	746	6.7 /10	2,311.5
3	Associations between host gene expression, the mucosal microbiome, and clinical outcome in the pelvic pouch of patients with inflammatory bowel disease. Illumina MiSeq v2 · open	205	255	8.9 /10	1,824.5
4	Paired mucosal j-pouch and afferent limb samples from postoperative ulcerative colitis and familial ademonatous polyposis patients from Mount Sinai Hospital, Toronto. Samples were collected during pouch endoscopy and 16S sequenced. Illumina MiSeq · open	204	652	8.9 /10	1,815.6
5	The Intestinal Microbiome in Children with Inflammatory Bowel Disease and Lactose Malabsorption Illumina HiSeq 2500 · open	185	459	7.7 /10	1,424.5
6	Cross sectional evaluation of the gut-microbiome metabolome axis in an Italian cohort of IBD patients. Illumina MiSeq · open	183	183	7.1 /10	1,299.3
7	Epigenomic alterations are associated with mucosal microbiota and inflammation in inflammatory bowel disease Illumina MiSeq · open	161	48	7.6 /10	1,223.6
8	No association between the faecal microbiome and the presence of genuine irritable bowel syndrome symptoms in patients with quiescent inflammatory bowel disease Illumina MiSeq · open	270	—	4.4 /10	1,188.0
9	Fungal microbiota dysbiosis in IBD PMID: 26843508 RUN1 ena-prjeb30375 · open	273	—	4.3 /10	1,173.9
10	Fungal microbiota dysbiosis in IBD PMID: 26843508 RUN2 ena-prjeb30379 · open	273	273	4.3 /10	1,173.9
11	Gastrointestinal Surgery for Inflammatory Bowel Disease Persistently Lowers Microbiome and Metabolome Diversity Illumina HiSeq 2500 · open	129	382	8.6 /10	1,109.4
12	Fungal microbiota dysbiosis in IBD PMID: 26843508 RUN3 ena-prjeb30381 · open	273	—	3.9 /10	1,064.7
13	Fungal microbiota dysbiosis in IBD_16s data ena-prjeb30383 · open	273	—	3.9 /10	1,064.7
14	Gastrointestinal Surgery for Inflammatory Bowel Disease Persistently Lowers Microbiome and Metabolome Diversity HiSeq 4000 · open	129	300	8.0 /10	1,032.0
15	The microbiome reflects diagnosis and predicts disease severity in paediatric onset inflammatory bowel disease MiSeq · open	177	—	4.6 /10	814.2
16	The microbiome reflects diagnosis and predicts disease severity in paediatric onset inflammatory bowel disease MiSeq · open	177	—	4.3 /10	761.1
17	The microbiome reflects diagnosis and predicts disease severity in paediatric onset inflammatory bowel disease miSeq · open	177	—	4.3 /10	761.1
18	Metagenomic analysis of fecal microbiome as a tool towards targeted non-invasive biomarkers for colorectal cancer Illumina HiSeq 2000 · open	128	128	5.6 /10	716.8
19	Reproducibility of associations between the human gut microbiome and colorectal cancer assessed in a patient population from Washington, DC, USA Illumina HiSeq 2000 · open	104	110	6.6 /10	686.4
20	Longitudinal Multi’omics of the Human Microbiome in Inflammatory Bowel Disease HiSeq 2000 · open	132	2,965	4.9 /10	646.8
21	Bacteria in colitis associated cancer development ena-prjeb87602 · open	115	265	5.6 /10	644.0
22	Human gut metagenome and metatranscriptome in the inflammatory bowel disease (iHMP/HMP2) ena-prjna389280 · open	100	—	6.4 /10	640.0
23	Bile microbiota in primary sclerosing cholangitis: Impact on disease progression and development of biliary dysplasia Illumina MiSeq · open	126	126	4.7 /10	592.2
24	Intestinal microbiome and metabolome signatures in patients with chronic granulomatous disease ena-prjna909313 · open	140	—	4.1 /10	574.0
25	Additional file 5 of Tissue and stool microbiome in pediatric inflammatory bowel disease patients: diversity differs in patients with relapsing and non-relapsing Crohn’s disease Illumina MiSeq · open	82	—	6.0 /10	492.0
26	The colonic virome in inflammatory bowel disease Illumina NovaSeq 6000 · open	51	97	7.3 /10	372.3
27	Multidonor intensive faecal microbiota transplantation for active ulcerative colitis: a randomised placebo-controlled trial ena-prjeb20349 · open	85	—	4.1 /10	348.5
28	Differences in microbiome populations following hematopoietic stem cell transplantation in Crohn?s disease patients MiSeq (Illumina) · open	37	158	9.4 /10	347.8
29	Multi-omics Reveal Vitamin D Regulation of Immune-Gut Microbiome Interactions and Tolerogenic Pathways in Inflammatory Bowel Disease NovaSeq X Plus · open	48	96	6.4 /10	307.2
30	Multi-omics Reveal Vitamin D Regulation of Immune-Gut Microbiome Interactions and Tolerogenic Pathways in Inflammatory Bowel Disease Illumina MiSeq · open	48	96	5.9 /10	283.2
31	Investigations into the aetiopathogenesis of orofacial granulomatosis using multiple omics technologies reveals a potential role for B cells ena-prjna1426338 · open	75	—	3.7 /10	277.5
32	Treatment-Specific Composition of Gut Microbiota Is Associated with Disease Remission in a Pediatric Crohn’s Disease Cohort ena-prjna489897 · open	67	—	4.1 /10	274.7
33	16S rRNA sequencing of human stool Illumina MiSeq · open	39	39	6.9 /10	269.1
34	Multi-omics Reveal Vitamin D Regulation of Immune-Gut Microbiome Interactions and Tolerogenic Pathways in Inflammatory Bowel Disease [16S rRNA-seq] Illumina MiSeq · open	48	96	5.3 /10	254.4
35	Metagenomes of the gut microbiota of CD patients that required resection from a Belgian cohort Illumina HiSeq · open	49	98	5.1 /10	249.9
36	Resistant microbiome underlies antibiotic therapy in pouchitis ena-prjna524170 · open	49	234	4.7 /10	230.3
37	Microbial diversity in human creeping fat, mesenteric adipose tissue and underlying intestinal mucosa Illumina NovaSeq 6000 · open	28	131	8.0 /10	224.0
38	Fecal Microbiota Transplantation for Ulcerative Colitis. ena-prjeb46777 · open	50	—	4.4 /10	220.0
39	Disease Severity and Immune Activity Relate to Inter-Kingdom Gut Microbiome States in Ethnically Distinct Ulcerative Colitis Patients Affymetrix PhyloChip · open	43	43	5.1 /10	219.3
40	Gut multi-omics profiling in Crohn’s disease: A preliminary study Ion Torrent Personal Genome Machine (PGM) · open	24	24	8.9 /10	213.6
41	The taxonomic composition of the donor intestinal microbiota is a major factor influencing the efficacy of faecal microbiota transplantation in therapy refractory ulcerative colitis. Illumina MiSeq · open	27	172	7.7 /10	207.9
42	The taxonomic composition of the donor intestinal microbiota is a major factor influencing the efficacy of faecal microbiota transplantation in therapy refractory ulcerative colitis. Illumina MiSeq · open	27	172	7.6 /10	205.2
43	Gut Microbiota Profiling of Lebanese Patients with Ulcerative Colitis and Healthy Controls: A Pilot Study Illumina MiSeq · open	22	22	7.9 /10	173.8
44	Phagocyte-Associated Pathobionts in Crohn's Disease Illumina NovaSeqX · open	25	37	6.4 /10	160.0
45	Additional file 2 of A diet based on cured acorn-fed ham with oleic acid content promotes anti-inflammatory gut microbiota and prevents ulcerative colitis in an animal model ION PGM System · open	20	—	6.7 /10	134.0
46	Mucosa-associated ileal microbiota in new-onset pediatric Crohn’s disease Illumina · open	25	—	5.3 /10	132.5
47	16S amplicon sequence analysis of saliva from patients with Ulcerative Colitis 454 pyrosequencing · open	22	22	5.9 /10	129.8
48	Gut microbiota differs between children with Inflammatory Bowel Disease and healthy siblings in taxonomic and functional composition: a metagenomic analysis. ena-prjeb76677 · open	24	—	4.6 /10	110.4
49	Investigation into the impact of vitamin D supplementation on the microbiota of patients with and without ulcerative colitis. ena-prjeb22258 · open	25	—	4.4 /10	110.0
50	Structural robustness of the gut mucosal microbiota is associated with Crohn's disease remission after surgery 454 GS-FLX-Titanium (Roche) and MiSeq (Illumina) · open	20	46	5.3 /10	106.0
51	Erratum: Reduced Abundance of Butyrate-Producing Bacteria Species in the Fecal Microbial Community in Crohn's Disease Illumina MiSeq II · open	20	20	4.9 /10	98.0
52	Erratum: Reduced Abundance of Butyrate-Producing Bacteria Species in the Fecal Microbial Community in Crohn's Disease Illumina MiSeq II · open	20	20	4.6 /10	92.0
53	Human stool samples of healthy donors and active ulcerative colitis patients under donor fecal microbiota filtrate and microbiota transfer raw Illumina sequence reads of shotgun metagenomes and 16S amplicons Illumina MiSeq · open	11	134	7.6 /10	83.6
54	Shotgun metagenomes enriched for viromes from stool samples of healthy donors and active ulcerative colitis patients under donor fecal microbiota filtrate and microbiota transfer raw Illumina sequence reads Illumina NovaSeq · open	11	—	6.3 /10	69.3
55	Supplementary Tables - Cross-species engraftment biases and metabolic divergence in gnotobiotic mice humanized with ulcerative colitis microbiota Illumina MiSeq · open	8	—	8.4 /10	67.2
56	Molecular Profiling of the Appendix in Pediatric Inflammatory Bowel Diseases ena-prjna1184941 · open	15	—	4.3 /10	64.5
57	Relating the transcriptome and microbiome by paired terminal ileal Crohn's disease ena-prjna718848 · open	10	20	6.3 /10	63.0
58	Faecalibacterium prausnitzii EXL01 for the Maintenance of Steroid-induced Clinical Response or Remission in Patients with Crohn’s Disease: a first in human trial Illumina NovaSeq X Plus · open	8	—	7.6 /10	60.8
59	The relevance of spatial composition in the microbial changes associated with ulcerative colitis, is unclear. We coupled luminal brush samples, mucosal biopsies and laser capture microdissection with deep sequencing of the gut microbiota to develop an integrated spatial assessment of the microbial community in health and ulcerative colitis. Roche 454 GS-FLX Titanium · open	9	97	6.4 /10	57.6
60	16S V3-V4 -based microbial profiling of matched healthy and inflamed ileal mucosa from patients affected by Crohn’s disease ena-prjna683584 · open	10	20	5.0 /10	50.0
61	Supplementary Tables - Cross-species engraftment biases and metabolic divergence in gnotobiotic mice humanized with ulcerative colitis microbiota Illumina MiSeq · open	8	—	6.1 /10	48.8
62	Transcription of IBD patients Illumina NovaSeq 6000 · open	7	7	6.4 /10	44.8
63	Single-Cell Analyses Elucidate the Cellular and Molecular Landscape of Ulcerative Colitis ena-prjna516681 · open	15	—	2.9 /10	43.5
64	Immunoglobulin UMI sequencing from human gut Illumina MiSeq · open	4	42	6.3 /10	25.2
65	16S V3-V4 -based microbial profiling of matched healthy and inflamed ileal mucosa from patients affected by Crohn’s disease (set 2) Illumina MiSeq · open	—	52	7.3 /10	—
66	Gut microbial factors implicated in disease progression and treatment response in pediatric ulcerative colitis Illumina HiSeq 2500 · open	—	1,453	6.4 /10	—
67	Paired transcriptomics reveals similarities between cytokine-stimulated organoids and ulcerative colitis epithelial responses NovaSeq 6000 · open	—	—	6.3 /10	—
68	NOD2 influences intestinal microbial resilience after antibiotic perturbation Illumina MiSeq · open	—	2	6.1 /10	—
69	NOD2 Influences Trajectories of Intestinal Microbiota Recovery After Antibiotic Perturbation Illumina MiSeq · open	—	—	6.0 /10	—
70	Longitudinal Stool Study of patients with IBD and controls Illumina HiSeq 2000 · open	—	262	6.0 /10	—
71	Human gut microbiota Metagenome Illumina MiSeq · open	—	132	5.9 /10	—
72	RNA sequencing of purified intestinal epithelial cells from paediatric biopsies including Inflammatory Bowel Disease and healthy controls Illumina HiSeq 2500 · open	—	79	5.7 /10	—
73	RNA sequencing of purified intestinal epithelial cells from paediatric biopsies including Inflammatory Bowel Disease and healthy controls Illumina HiSeq 2500 · open	—	79	5.7 /10	—
74	The reduction of dextran sulfate sodium-induced colitis severity in mice exposed to cigarette smoke is accompanied by specific gene pathway and microbial shifts ena-prjeb32790 · open	—	—	5.6 /10	—
75	PDLIM2 loss in the epithelium impairs antioxidant responses and adhesion signals preceding the development of ulcerative colitis Illumina MiSeq · open	—	22	5.6 /10	—
76	Gut Bacterial communities of PSC, PSC-IBD and UC patients Illumina MiSeq · open	—	109	5.6 /10	—
77	Translocation of Viable Gut Microbiota to Mesenteric Adipose Drives Formation of Creeping Fat in Humans SureCell and Chromium · open	—	—	5.6 /10	—
78	Supporting data for "Machine learning based feature selection to search stable microbial biomarkers: application to inflammatory bowel disease" datacite-10.5524-102450 · open	—	1,569	5.4 /10	—
79	A diet based on cured acorn ham with oleic acid content promotes anti-inflammatory gut microbiota shifts and prevents ulcerative colitis in an animal model Ion Torrent PGM · open	—	24	5.4 /10	—
80	Gut metagenome of human and mouse stool-derived microbial communities with 4-GBA treatment Illumina MiSeq · open	—	16	5.3 /10	—
81	ABX sequence reads Illumina MiSeq · open	—	6	5.3 /10	—
82	Single-cell RNA sequencing analysis of colonic tissue in DSS-induced colitis mice Illumina NovaSeq 6000 · open	—	1	5.3 /10	—
83	Functional screen of Inflammatory bowel disease genes reveals key epithelial functions: Illumina Whole Genome Dataset Illumina Human HT-12 v4 beadchip · open	—	426	5.3 /10	—
84	Particulate matter 10 exposure affects intestinal functionality in both inflamed 2D intestinal epithelial cell and 3D intestinal organoid models Illumina NextSeq1000 · open	—	—	5.0 /10	—
85	GUT MICROBIOTA IN IBD PATIENTS pyrosequencing · open	—	—	4.7 /10	—
86	RNA-Seq and proteomics of Crohn's disease: Terminal ileum of inflamed and non inflamed paired tissue biopsy NovaSeq · open	—	15	4.6 /10	—
87	Mus musculus strain:C57BL/6J Raw sequence reads Illumina Genome Analyzer II · open	—	2	4.6 /10	—
88	Gut metagenome in4-GBA-treated mice and WT mice with or without DSS exposure Illumina MiSeq · open	—	16	4.6 /10	—
89	Additional file 2 of A diet based on cured acorn-fed ham with oleic acid content promotes anti-inflammatory gut microbiota and prevents ulcerative colitis in an animal model Ion PGM System · open	—	—	4.4 /10	—
90	Genome wide expression data from discordant twins (ulcerative colitis, primary mucosal tissue) ena-prjna128513 · open	—	16	4.4 /10	—
91	Sodium butyrate alleviates DSS-induced inflammatory bowel disease by inhibiting ferroptosis and modulating ERK/STAT3 signaling and intestinal flora MiSeq/HiSeq · open	—	—	4.3 /10	—
92	ChIP-seq of STAT5 and H3K27me3 antibodies with ileal crypts of STAT5+/+ and STAT5DKI mice Illumina NovaSeq 6000 · open	—	6	4.3 /10	—
93	Sodium butyrate alleviates DSS-induced inflammatory bowel disease by inhibiting ferroptosis and modulating ERK/STAT3 signaling and intestinal flora MiSeq/HiSeq · open	—	—	4.1 /10	—
94	Additional file 1 of Daikenchuto ameliorates dextran sulfate sodium-induced acute and chronic ulcerative colitis by regulating gut microbiota-derived indoles to activate AhR signaling Illumina MiSeq and Illumina NovaSeq · open	—	—	4.0 /10	—
95	EMG produced TPA metagenomics assembly of PRJNA398089 data set (Longitudinal Multi omics of the Human Microbiome in Inflammatory Bowel Disease). ena-prjeb71803 · open	—	—	4.0 /10	—
96	EMG produced TPA metagenomics assembly of PRJNA398089 data set (Longitudinal Multi omics of the Human Microbiome in Inflammatory Bowel Disease). ena-prjeb71804 · open	—	—	4.0 /10	—
97	FMT Raw sequence reads Illumina MiSeq · open	—	12	4.0 /10	—
98	RNA-seq for Studying the effects of STAT5DKI with or without irradiation injury on intestinal stem cell regeneration Illumina NovaSeq 6000 · open	—	3	4.0 /10	—
99	Redefining the practical utility of blood transcriptome biomarkers in inflammatory bowel diseases Ion Torrent Proton · open	—	336	3.9 /10	—
100	Mucosa-associated microbiota in Ulcerative Colitis ena-prjeb31884 · open	—	—	3.9 /10	—
101	EMG produced TPA metagenomics assembly of PRJNA285502 data set (Fecal microbiota transplantation (FMT) for ulcerative colitis). ena-prjeb46148 · open	—	—	3.9 /10	—
102	Changes in microbiota composition in colitis-prone mdr1a mice ena-prjeb6905 · open	—	—	3.9 /10	—
103	Crohn’s Disease Differentially Affects Region Specific Composition and Aerotolerance Profiles of Mucosally-Adherent Bacteria ena-prjna615672 · open	—	—	3.9 /10	—
104	Expression data in LoVo cells treated with MEK inhibitor Ion Proton · open	—	—	3.7 /10	—
105	Guar Gum β-Manno-Oligosaccharides Alleviate Ulcerative Colitis in Mice Models <i>via</i> Gut Microflora Modulation datacite-10.6084-m9.figshare.29776096 · open	—	—	3.6 /10	—
106	Ischaemic sensitivity of human tissue by single cell RNA seq Illumina HiSeq 4000 · open	—	147	3.6 /10	—
107	Single cell (sc)-sequence with STAT5+/+ and STAT5DKI mouse tissues Illumina NovaSeq 6000 · open	—	10	3.6 /10	—
108	Diet rapidly and reproducibly alters the human gut microbiome ena-prjna202303 · open	—	—	3.6 /10	—
109	Fermented licorice extract alleviates ulcerative colitis by inhibiting the TLR4/NF-κB pathway and regulating intestinal microbiota in mice datacite-10.57760-sciencedb.07270 · open	—	—	3.4 /10	—
110	Additional file 7 of Tissue and stool microbiome in pediatric inflammatory bowel disease patients: diversity differs in patients with relapsing and non-relapsing Crohn’s disease datacite-10.6084-m9.figshare.30629934 · open	—	—	3.4 /10	—
111	EMG produced TPA metagenomics assembly of the The gut microbiome in Crohn's disease and modulation by exclusive enteral nutrition (123CD-metagenomics) data set. ena-prjeb27122 · open	—	—	3.4 /10	—
112	EMG produced TPA metagenomics assembly of PRJNA400072 data set (Gut microbiome structure and metabolic activity in inflammatory bowel disease). ena-prjeb45424 · open	—	—	3.4 /10	—
113	EMG produced TPA metagenomics assembly of PRJNA741688 data set (saliva metagenomic analysis of Crohn`s disease-related periodontitis). ena-prjeb56857 · open	—	—	3.4 /10	—
114	Geographic patterns of the standing and active human gut microbiome in health and inflammatory bowel disease ena-prjeb6172 · open	—	89	3.4 /10	—
115	EMG produced TPA metagenomics assembly of PRJNA398089 data set (Longitudinal Multi omics of the Human Microbiome in Inflammatory Bowel Disease). ena-prjeb62791 · open	—	—	3.4 /10	—
116	Targeted transcriptome analysis of isolated intestinal epithelial cells from mice with constitutive Ptpn2-deficiency nCounter SPRINT Profiler (NanoString Technologies) · open	—	12	3.4 /10	—
117	Functional screen of Inflammatory bowel disease genes reveals key epithelial functions: Agilent Targeted Dataset Agilent iGenex v.2 gene expression array · open	—	426	3.4 /10	—
118	Immunomolecular and reactivity landscapes of gut IgA subclasses in homeostasis and inflammatory bowel diseases. Illumina NovaSeq 6000 · open	—	1	3.3 /10	—
119	Gut microbiota-derived 4-guanidinobutanoic acid improves the colonic mucosal barrier via SLC36A1 Illumina HiSeq 4000 · open	—	2	3.3 /10	—
120	A single-cell survey of the small intestinal epithelium NextSeq 500 · open	—	1,957	3.3 /10	—
121	RNA-seq for studying the role of STAT5 tetramerization in intestinal organoid formation HiSeq X Ten · open	—	6	3.3 /10	—
122	ChIP-seq of STAT5 antibodies using ileal crypts of STAT5+/+ and STAT5DKI mice HiSeq X Ten · open	—	4	3.3 /10	—
123	Supplementary Material for: Phospholipase A<sub>2</sub> of Microbiota as Pathogenetic Determinant to Induce Inflammatory States in Ulcerative Colitis: Therapeutic Implications of Phospholipase A<sub>2</sub> Inhibitors datacite-10.6084-m9.figshare.5951836.v1 · open	—	—	3.1 /10	—
124	Additional file 4: of Clustering co-abundant genes identifies components of the gut microbiome that are reproducibly associated with colorectal cancer and inflammatory bowel disease datacite-10.6084-m9.figshare.9211010 · open	—	—	3.1 /10	—
125	Additional file 4: of Clustering co-abundant genes identifies components of the gut microbiome that are reproducibly associated with colorectal cancer and inflammatory bowel disease datacite-10.6084-m9.figshare.9211010.v1 · open	—	—	3.1 /10	—
126	Kashyap_fut2_16S ena-prjeb4354 · open	—	—	3.1 /10	—
127	Gut metagenomic samples of IBD patients ena-prjna1148165 · open	—	—	3.1 /10	—
128	Human Colitis-on-Chip Model Reveals Dual Roles of Butyrate in Epithelial and Macrophage Defense Against Candida albicans Tissue Invasion NovaSeq X Plus Series · open	—	6	3.1 /10	—
129	Guar Gum β-Manno-Oligosaccharides Alleviate Ulcerative Colitis in Mice Models <i>via</i> Gut Microflora Modulation datacite-10.6084-m9.figshare.29776096.v1 · open	—	—	3.0 /10	—
130	The Treatment-Naive Microbiome in New-Onset Crohn s Disease ena-prjeb13679 · open	—	—	3.0 /10	—
131	Epithelial relay of microbial signals coordinates intestinal macrophage supported barrier repair ena-prjna1084862 · open	—	—	3.0 /10	—
132	Mus musculus Raw sequence reads BGISEQ-500 · open	—	6	3.0 /10	—
133	RNA-seq for Studying the effects of STAT5DKI with or without irradiation injury on intestinal stem cell regeneration HiSeq X Ten · open	—	7	3.0 /10	—
134	Supplementary Material for: Phospholipase A<sub>2</sub> of Microbiota as Pathogenetic Determinant to Induce Inflammatory States in Ulcerative Colitis: Therapeutic Implications of Phospholipase A<sub>2</sub> Inhibitors datacite-10.6084-m9.figshare.5951836 · open	—	—	2.9 /10	—
135	Accute and repeated DSS exposure induce distinct immune responses with differential relevance to human Ulcerative Colitis ena-prjna1312498 · open	—	—	2.9 /10	—
136	Linking Lifestyle to the Oral and Gut Microbiota in a Large Prospective Cohort ena-prjna188481 · open	—	—	2.9 /10	—
137	Integrated analysis Of Biopsies From Inflammatory Bowel Disease Patients Identifies SAA1 As A Link Between Mucosal Microbes With TH17 And TH22 Cells [diseased subjects] ena-prjna379314 · open	—	35	2.9 /10	—
138	Longitudinal Multi’omics of the Human Microbiome in Inflammatory Bowel Disease ena-prjna398089 · open	—	—	2.9 /10	—
139	Additional file 5 of Tissue and stool microbiome in pediatric inflammatory bowel disease patients: diversity differs in patients with relapsing and non-relapsing Crohn’s disease datacite-10.6084-m9.figshare.30629928.v1 · open	—	—	2.7 /10	—
140	Additional file 7 of Tissue and stool microbiome in pediatric inflammatory bowel disease patients: diversity differs in patients with relapsing and non-relapsing Crohn’s disease datacite-10.6084-m9.figshare.30629934.v1 · open	—	—	2.7 /10	—
141	Gut microbiota Raw sequence reads Illumina NovaSeq 6000 · open	—	12	2.7 /10	—
142	The Treatment-Naive Microbiome in New-Onset Crohn`s Disease ena-prjeb13680 · open	—	—	2.6 /10	—
143	OTUD3 prevents ulcerative colitis by modulating microbiota-mediated STING activation. ena-prjna1021199 · open	—	—	2.6 /10	—
144	CARD9 impacts colitis by altering gut microbiota metabolism of tryptophan into aryl hydrocarbon receptor ligands ena-prjeb9079 · open	—	—	2.4 /10	—
145	The regulatory response level of bile acids related to the intestinal flora Illumina NovaSeq 6000 · open	—	3	2.4 /10	—
146	Human intestinal stromal cells promote homeostasis in normal mucosa but inflammation in Crohn's disease in a retinoic acid-deficient manner ena-prjna741807 · open	—	14	2.4 /10	—
147	Responsiveness to vedolizumab therapy in ulcerative colitis is associated with alterations in immune cell-cell communications ena-prjna948423 · open	—	—	2.4 /10	—

Impact = reuse-readiness mean (0–10) × participants. Sample count is shown for context and does not drive rank. Rows without a reuse-readiness score sort last.

IBD microbiome

All published datasets

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