Bile acid - OmicsDI

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Unknown (5554)
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Organisms

Mus musculus (251)
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mouse gut metagenome (16)
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unidentified (2)
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metagenome (2)
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Claveliimonas bilis (1)
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[Clostridium] hylemonae DSM 15053 (1)
Lactobacillus kefiranofaciens (1)

Repository

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NODE (1)

Tissue

Liver (33)
Bile (17)
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Hepatocyte (8)
Cecum (6)
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Colon (5)
Urine (3)
Blood plasma (3)
Blood serum (3)
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Urine (3)
Cultured cells (2)
Bile duct (2)
Bronchoalveolar lavage (2)
Cholangiocyte (2)
Epithelial cell (2)
Leaf (2)
Permanent cell line cell (2)
Plant cell (2)
Ileum (1)
Flushing (1)
Plasmodium cells (1)
Unspecified (1)
Bacterial cells (1)
Ileum (1)

Disease

Normal (6)
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Rett syndrome (1)
Parental (1)
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"hepatocellular adenoma" (1)
Healthy (1)
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Cancer cell line pool (1)
Ductal carcinoma (1)

Technology Type

Mass Spectrometry (164)
Mass spectrometry (158)
Mass spectrometry assay (74)
Shotgun proteomics (67)
ESI (32)
Bottom-up proteomics (24)
Data-dependent acquisition (9)
Affinity purification coupled with mass spectrometry proteomics (8)
Data-independent acquisition (6)
SWATH MS (6)
NMR spectroscopy (5)
EI (5)
Gel-based experiment (5)
Chemical cross-linking coupled with mass spectrometry proteomics (3)
HDMSE (3)
MSE (3)
NMR (2)
Metaproteomics (2)
SRM/MRM (2)
Top-down proteomics (2)
Illumina HumanOmniExpress-12 v1., Illumina HiSeq 2000 (1)
Illumina Genome Analyzer IIx (1)
NMR spectroscopy assay (1)
Unspecified (1)
All-ion fragmentation (1)
Mass spectrometry imaging (1)

Instrument Platform

Illumina NovaSeq 6000 (35)
Illumina HiSeq 2500 (22)
NextSeq 500 (18)
Illumina HiSeq 4000 (16)
Illumina HiSeq 2000 (9)
Illumina NovaSeq X (7)
NextSeq 2000 (6)
Illumina MiSeq (6)
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Unspecified (2)
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Ion Torrent Proton (2)
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GeneTitan MultiChannel System (1)
GeneChip Clariom S mouse array cartridge and Affymetrix GeneTitan MultiChannel System (1)
GeneChip Pico Kit (Affymetrix/ThermoFisher) (1)
ReliaPrep RNA Miniprep System (Promega) (1)
Adipocyte Progenitor Isolation Kit (Miltenyi Biotec) (1)
Standard molecular biology equipment (per Lexogen SENSE mRNA-seq kit protocol) (1)
NanoDrop ND-1000 spectrophotometer; Agilent 2100 Bioanalyzer (1)
Tissue Homogenizer (required to process mucosal tissue for the miRNeasy kit). Refrigerated Centrifuge (4 °C) (required for the miRNeasy protocol). (1)
Using NEBNext Ultra II DNA Library (1)
BD Rhapsody Express Instrument (1)
Microsyringe for intraperitoneal injection (1)
Computational server/cluster, Software: R (v4.3.x), Seurat package (v5.1.0) (1)
Biological safety cabinet, Centrifuge, Cell strainer, Automated cell counter/Hemocytometer (1)
Surgical dissection tools (1)

Publication Date

2013 (218)
2015 (208)
2014 (207)
2026 (189)
2025 (178)
2010 (175)
2012 (165)
2011 (155)
2016 (151)
2024 (128)
2023 (108)
2008 (92)
2022 (85)
2021 (84)
2020 (67)
2009 (65)
2019 (51)
2007 (50)
2017 (44)
2018 (43)
2005 (10)
2006 (8)
2004 (2)
2003 (1)

UNIPROT ID/AC

5833.MAL13P1.267 (2)
5833.MAL13P1.269 (2)
5833.MAL13P1.325 (2)
5833.MAL13P1.334 (2)
5833.MAL7P1.78 (2)
5833.MAL8P1.208 (2)
5833.MAL8P1.320 (2)
5833.PF11_0033 (2)
5833.PF11_0263 (2)
5833.PF11_0512 (2)
5833.PF13_0305 (2)
5833.PF13_0321 (2)
5833.PF14_0001 (2)
5833.PF14_0009 (2)
5833.PF14_0173 (2)
5833.PF14_0734 (2)
5833.PF14_0751 (2)
5833.PF14_0756 (2)
5833.PF14_0759 (2)
5833.PFA0105w (2)
5833.PFA0120c (2)
5833.PFA0705c (2)
5833.PFB0050c (2)
5833.PFB0280w (2)
5833.PFB0925w (2)
5833.PFB0946c (2)
5833.PFC1011c (2)
5833.PFC1075w (2)
5833.PFD0075w (2)
5833.PFD0100c (2)

CHEBI ID

CHEBI:16359 (46)
CHEBI:28834 (40)
CHEBI:17687 (40)
CHEBI:16755 (38)
CHEBI:28865 (38)
CHEBI:15756 (37)
CHEBI:16196 (36)
CHEBI:27471 (36)
CHEBI:16525 (35)
CHEBI:17368 (35)
CHEBI:17351 (34)
CHEBI:15428 (31)
CHEBI:16919 (31)
CHEBI:36274 (30)
CHEBI:9410 (30)
CHEBI:30769 (30)
CHEBI:16325 (29)
CHEBI:16704 (29)
CHEBI:15891 (29)
CHEBI:18257 (29)
CHEBI:15843 (29)
CHEBI:15354 (29)
CHEBI:17295 (29)
CHEBI:28716 (29)
CHEBI:15971 (28)
CHEBI:17895 (28)
CHEBI:17596 (28)
CHEBI:16828 (28)
CHEBI:9907 (27)
CHEBI:28842 (27)

Metabolite Name

Hypoxanthine (43)
Deoxycholic acid (41)
Taurine (37)
Glycocholic acid (36)
Creatine (36)
Cholic acid (35)
Taurocholic acid (33)
Inosine (33)
Uracil (31)
Adenine (31)
Choline (30)
Linoleic acid (30)
Azelaic acid (30)
4-Hydroxybenzaldehyde (29)
Uridine (29)
Uric acid (28)
Citrulline (27)
Tauroursodeoxycholic acid (27)
Oxypurinol (27)
Riboflavin (27)
Xanthine (27)
Guanosine (27)
Ornithine (26)
Indole (26)
Guanine (26)
Palmitic acid (26)
Myristic acid (26)
Thymidine (26)
Chenodeoxycholic acid (25)
Ursodeoxycholic acid (25)

First Public Date

2026 (182)
2025 (174)
2024 (134)
2023 (89)
2022 (72)
2021 (62)
2014 (53)
2020 (51)
2019 (38)
2018 (33)
2015 (23)
2017 (18)
2016 (18)
2013 (5)

Modelling Approach

Ordinary differential equation model (1)

Study status

Recruiting (6)
Completed (4)
Not yet recruiting (2)
Active, not recruiting (1)

Lab affiliation

NovAliX, Department of Biophysics, 16 Rue d’Ankara, 67000, Strasbourg, France; orcid.org/0000-0001-6229-4524 (3)
Department of Chemistry & Bioscience Aalborg University Denmark (2)
Department of Microbial Physiology and Molecular Biology, Institute of Microbiology, University of Greifswald (2)
Keele University (2)
Proteomics Core Facility and Research Group Proteomics, CEITEC-MU, Masaryk University, Brno, Czech Republic (2)
1 Institute for Diabetes and Cancer, Helmholtz Munich, Neuherberg, Germany 2 Joint Heidelberg-IDC Translational Diabetes Program, Inner Medicine 1, Heidelberg University Hospital, Heidelberg, Germany 3 German Center for Diabetes Research (DZD), and German Center for Cardiovascular Disease (DZHK), Neuherberg, Germany 4 Chair Molecular Metabolic Control, Technical University Munich, Germany (1)
1 Population Health and Immunity Division, The Walter and Eliza Hall Institute of Medical Research, Melbourne, VIC, Australia Department of Veterinary Biosciences, Melbourne Veterinary School, Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Parkville, VIC, Australia (1)
1. Gene Center and Department of Biochemistry, Ludwig-Maximilians-Universität München, Munich, Germany 2. Research group Molecular Mechanisms of Inflammation, Max-Planck Institute of Biochemistry, Martinsried, Germany (1)
2Oncode Institute and Department of Molecular Cancer Research, Center for Molecular Medicine, University Medical Center Utrecht, 3584 CX, Utrecht, The Netherlands. (1)
Analytical Food Chemistry, University of Stuttgart, Germany (1)
Associate Professor of Medicine: Rheumatology Chair, Gene Therapy and Vaccines Graduate Program Director, RVCL Research Center University of Pennsylvania Perelman School of Medicine (1)
Australian Proteome Analysis Facility (1)
BU Bioscience, Wageningen Plant Research, Wageningen UR. the Netherlands (1)
Bavarian Center for Biomolecular Mass Spectrometry at Klinikum rechts der Isar Technical University of Munich (1)
Biochemistry and Molecular Biology, Michael Smith Laboratories, University of British Columbia, Canada (1)
Biological Sciences Dept, Mississippi State University, Mississippi State, 39762 (1)
CIC bioGUNE Proteomics Service Head (1)
CNB-CSIC (1)
Cedars-Sinai Medical Center (1)
Center for Molecular Medicine, UMC Utrecht, Utrecht, The Netherlands (1)
Center for Neurodegenerative Science, Van Andel Institute, Grand Rapids, MI, 49503 USA (1)
Centre for Proteome Research, University of Liverpool (1)
Centro Nacional de Biotecnología (CNB-CSIC) (1)
Centro Nacional de Biotecnología CNB/CSIC (1)
Centro de Investigación Médica Aplicada (CIMA), Clínica Universidad de Navarra (CUN) (1)
Chair of Proteomics and Bioanalytics, Technical University of Munich, Freising, Germany (1)
Colorado State University, Department of Animal Science (1)
Core Facility Proteomics Institute of Clinical Chemistry University Medical Center Göttingen (1)
Core Facility Proteomics, Department of Clinical Chemistry, University Medical Center Goettingen, Germany (1)
Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Paraná, PR, Brasil. Instituto Oswaldo Cruz, Rio de Janeiro, Brasil (1)

Keyword

Bile Acids and Salts (1)
Bile acid malabsorption (1)
Small intestinal bacterial overgrowth (1)
Microbiome, human (1)
Bile acids and salts (1)
Diet, western (1)
Polyethylene glycol with ascorbic acid (1)
Simethicone (1)
Bowel preparation (1)
Anti-Bacterial Agents (1)

IsPrivate

False (2)

Model Flag

Non Kinetic (1)

Classification

bacteria (19)
fungi (2)

Study type

Transcription profiling by array (1080)
RNA-seq of coding RNA (137)
Comparative genomic hybridization by array (71)
Methylation profiling by array (50)
ChIP-seq (34)
RNA-seq of non coding RNA (29)
RNA-seq of coding RNA from single cells (24)
Other (19)
Unknown experiment type (16)
ChIP-chip by tiling array (14)
MicroRNA profiling by array (13)
DNA-seq (13)
Genotyping by array (12)
ChIP-chip by array (11)
RNA-seq of total RNA (11)
Transcription profiling by RT-PCR (9)
Methylation profiling by high throughput sequencing (9)
Animal - High-throughput sequencing (4)
Human - High-throughput sequencing (3)
Human - One-color microarray (3)
MicroRNA profiling by high throughput sequencing (3)
Spatial transcriptomics by high-throughput sequencing (3)
Animal - One-color microarray (2)
High-throughput sequencing (2)
Cell line - High-throughput sequencing (2)
RNAi profiling by array (2)
ATAC-seq (2)
Single nucleus RNA sequencing (2)
Genotyping by high throughput sequencing (2)
Transcription profiling by array;comparative genomic hybridization by array (1)

Release Date

2022 (760)
2025 (742)
2023 (639)
2024 (616)
2021 (558)
2020 (410)
2018 (354)
2015 (344)
2014 (330)
2019 (322)
2013 (299)
2016 (298)
2017 (260)
2012 (247)
2011 (227)
2010 (223)
2026 (136)
2008 (118)
2009 (112)
2007 (69)
2006 (27)
2005 (20)
2003 (9)
2004 (8)
2001 (7)
2002 (6)
2000 (5)
1999 (1)
1998 (1)
1996 (1)

Location

United States (4)
Japan (3)
Malaysia (1)
New Zealand (1)
Denmark (1)
Puerto Rico (1)
Australia (1)
South Korea (1)
China (1)

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Targeted bile acid profiling of Faecalibaculum rodentium-induced bile acid remodeling in antibiotic-treated mice

This study investigated whether Faecalibaculum rodentium remodels the intestinal bile acid pool through bacterial bile salt hydrolase activity in antibiotic-treated male C57BL/6J mice. Mice were assigned to three groups: control, Faecalibaculum rodentium gavage, and Faecalibaculum rodentium gavage c...

2026-08-07 | MTBLS15285 | MetaboLights

Integrative analysis of gut microbiota, bile acid pathways, and immune dysregulation in dyslipidemia models_Bile acid profile of rat fecal samples

This study aims to compare changes in bile acid profiles between fecal samples from rats fed a standard control diet and those fed a high-fat diet.

2025-10-04 | MTBLS13092 | MetaboLights

Bile acid is a significant host factor shaping the gut microbiome of diet induced obese mice (targeted bile acid analysis assay)

BACKGROUND: Intestinal bacteria are known to regulate the bile acid (BA) homeostasis via intestinal biotransformation of BAs and stimulating the expression of fibroblast growth factor 19 through intestinal nuclear farnesoid X receptor (FXR). On the other hand, BAs directly regula...

2017-11-23 | MTBLS547 | MetaboLights

Bile Acid Metabolome in Hepatopancreas Tissue of Common Carp

This study investigated the regulatory effects of three probiotics (P. pentosaceus, B. coagulans, and E. faecalis) on bile acid metabolism in common carp (Cyprinus carpio) fed a high-carbohydrate-high-fat (HCHF) diet for 56 days. A targeted metabolomics approach using UHPLC-QTRAP-MS/MS with sched...

2026-08-09 | MTBLS15295 | MetaboLights

SADI-S and SG Surgeries Induce Distinct Bile Acid Profiles Linked to Improved Glucose Metabolism via Microbiota Interactions_feces

Introduction:

Bariatric surgery profoundly improves type 2 diabetes (T2D); however, the specific mechanisms linking distinct procedures to metabolic benefits through bile acid (BA) remodeling remain incompletely understood. This study investigates the differential effects of single-anastomo...

2025-09-16 | MTBLS12715 | MetaboLights

4-Hydroxyphenanthrene exacerbates obesity by altering gut microbiota and bile acid metabolism

Elevated exposure to 4-hydroxyphenanthrenes (4-OHPhe) is positively associated with obesity risk. However, the specific pathogenic mechanism remains unclear. Here, we used SHapley Additive exPlanations (SHAP) and logistic regression analysis to identify a strong association between 4-OHPhe and o...

2025-12-21 | MTBLS13496 | MetaboLights

SADI-S and SG Surgeries Induce Distinct Bile Acid Profiles Linked to Improved Glucose Metabolism via Microbiota Interactions_serum

Introduction:

2025-09-16 | MTBLS12716 | MetaboLights

Targeted Bile Acid Metabolomic Profiling of Plasma Samples in Patients with Parkinson's Disease

Targeted LC-MS metabolomic profiling was performed on plasma samples from a validation cohort comprising 20 patients with Parkinson's disease and 20 healthy controls. The study aimed to verify altered circulating bile acid levels identified in the discovery cohort, assess correlations between bil...

2026-09-03 | MTBLS15429 | MetaboLights

The bile acid metabolome in umbilical cord blood and meconium of healthy newborns: Distinct characteristics and implications (Meconium analysis)

OBJECTIVE: To characterize the bile acid (BA) metabolomic profile of umbilical cord blood (UCB) and meconium in healthy newborns.

METHODS: Fifteen healthy newborns, which born in the Obstetrics Department of the Affiliated Hospital of Southwest Medical Univ...

2024-11-28 | MTBLS10267 | MetaboLights

Theabrownin from Pu-erh tea attenuates hypercholesterolemia via modulation of gut microbiota and bile acid metabolism

Pu-erh tea displays cholesterol-lowering properties, but the underlying mechanism has not been elucidated. Theabrownin is one of the most active and abundant pigments in Pu-erh tea. Here, we show that theabrownin alters the gut microbiota in mice and humans, predominantly suppressing microbes associ...

2021-11-18 | MTBLS1259 | MetaboLights

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