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235 results for “Bile acid”
GNPS Bile acid modifications MS/MS spectral library
<p>Bile acids are important signaling molecules with impact on host health and metabolism. However, the diversity of bile acids furnished by both the host and microbes is incompletely characterized. To address this knowledge gap, we created a reusable resource of candidate tandem mass spectrometry (MS/MS) spectra by filtering approximately 1.2 billion publicly available MS/MS spectra from 2,706 untargeted metabolomics projects for bile acid-specific MS/MS ion patterns. Provided here are two MGFs/mzMLs consisting of 594,431 MS/MS spectra directly obtained from the public data on GNPS/MassIVE using MassQL queries designed for non-, mono-, di-, tri-, tetra- and penta-hydroxylated bile acids and MS/MS spectra from synthetic standards of 38 amino acids and 28 polyamines conjugated to bile acids. An annotation table (.tsv file) with delta masses and GNPS library matches is also provided. The MGFs/mzMLs can be selected as a group while running molecular networking jobs on GNPS (<a href="https://gnps.ucsd.edu/ProteoSAFe/static/gnps-splash.jsp">https://gnps.ucsd.edu/ProteoSAFe/static/gnps-splash.jsp</a>) and used in conjugation with the annotation table to gain unprecedented insights into the new biology of bile acids.</p>
Strain-dependent induction of primary bile acid 7-dehydroxylation by cholic acid.
<p>Raw data files for the publication <em>Strain-dependent induction of primary bile acid 7-dehydroxylation by cholic acid.</em></p>
Supplementary material - Eggerthella lenta DSM 2243 alleviates bile acid stress response in Clostridium ramosum and Anaerostipes caccae by transformation of bile acids
<p>The word document is a collection of supplementary figures and tables. <br> The excel file is a collection of raw data from experiments.</p>
Fig. 3 in Bile acids as potential pheromones in pintado catfish Pseudoplatystoma corruscans (Spix & Agassiz, 1829): eletrophysiological and behavioral studies
Fig. 3. Time spent in each compartment when Pseudoplatystoma corruscans were stimulated by taurocholic acid (TCA) and controls. TCA response was significantly different from distilled water (paired t test: 3.94, P = 0.0005) as indicated by an asterisk.
Fig. 1 in Bile acids as potential pheromones in pintado catfish Pseudoplatystoma corruscans (Spix & Agassiz, 1829): eletrophysiological and behavioral studies
Fig. 1. Electrolfactogram responses of pintado Pseudoplatystoma corruscans to five representative bile acids. Response magnitudes are normalized as percentages of response to 10-5 M L-serine (mean ± SEM). CA = Cholic acid, TCA = taurocholic acid, TCD = taurochenodeoxicholic acid, CD = chenodeoxycholic acid, DC = deoxycholic acid.
Fig. 4 in Bile acids as potential pheromones in pintado catfish Pseudoplatystoma corruscans (Spix & Agassiz, 1829): eletrophysiological and behavioral studies
Fig. 4. Number of movements of Pseudoplatystoma corruscans stimulated by taurocholic acid (TCA) and controls. Response to TCA was significantly higher than distilled water comparison for each behavior. Dunn's multiple comparisons test, P<0.05, as indicated by an asterisk. Top over the bars: type of movements in each stimuli.
Link to dataset related to article "Sustained activation of detoxification pathways promotes liver carcinogenesis in response to chronic bile acid-mediated damage"
<p>This record contains link to raw data related to article "Sustained activation of detoxification pathways promotes liver carcinogenesis in response to chronic bile acid-mediated damage"</p> <p>Chronic inflammation promotes oncogenic transformation and tumor progression. Many inflammatory agents also generate a toxic microenvironment, implying that adaptive mechanisms must be deployed for cells to survive and undergo transformation in such unfavorable contexts. A paradigmatic case is represented by cancers occurring in pediatric patients with genetic defects of hepatocyte phosphatidylcholine transporters and in the corresponding mouse model (Mdr2-/- mice), in which impaired bile salt emulsification leads to chronic hepatocyte damage and inflammation, eventually resulting in oncogenic transformation. By combining genomics and metabolomics, we found that the transition from inflammation to cancer in Mdr2-/- mice was linked to the sustained transcriptional activation of metabolic detoxification systems and transporters by the Constitutive Androstane Receptor (CAR), a hepatocyte-specific nuclear receptor. Activation of CAR-dependent gene expression programs coincided with reduced content of toxic bile acids in cancer nodules relative to inflamed livers. Treatment of Mdr2-/- mice with a CAR inhibitor blocked cancer progression and caused a partial regression of existing tumors. These results indicate that the acquisition of resistance to endo- or xeno-biotic toxicity is critical for cancers that develop in toxic microenvironments.</p> <p>https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE80777 under the accession GSE80777, which comprises ChIP-seq data (GSE80775) and expression data (GSE80776).</p>
Data_Figure S4_Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice
<p> </p> <p>Data of Figure S4 from Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice.</p> <p>The Dataset (doi: 10.3390_metabo11070442) contains the original figures as PNG-format (10.3390_metabo11070442_FigS4.PNG). Corresponding raw data and subsequent data analysis obtained from LC-MS/MS analysis provided as a file in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_2_1.csv). All further experiment related information provided as one meta-data-file (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_2_M_1.txt) in txt format, a file containing further related information in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_2_2.csv), and one file containing further related information on the analysis method (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_2_3.pdf) PDF format.</p>
Data_Table 1_Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice
<p> </p> <p>Data of Table1 from Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice”</p> <p>The Dataset (doi: 10.3390_metabo11070442) contains the original figures as PNG-format (10.3390_metabo11070442_Tab1.PNG). Corresponding raw data and subsequent data analysis obtained from LC-MS/MS analysis provided as one file in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1_1.csv). All further experiment related information provided as one meta-data-file (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1_M_1.txt) in txt format, one file containing further related information in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1_2.csv), and one file containing further related information on the analysis method (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1_3.pdf) PDF format.</p>
Data_Table 3_Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice
<p>Data of Table 3 from Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice</p> <p>The Dataset (doi: 10.3390_metabo11070442) contains the original figures as PNG-format (10.3390_metabo11070442_Tab3.PNG). Corresponding raw data and subsequent data analysis obtained from LC-MS/MS analysis provided as two files in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1-2_1.csv). All further experiment related information provided as one meta-data-file (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1-2_M_1.txt) in txt format, two files containing further related information in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1-2_2.csv), and two files containing further related information on the analysis method (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1-2_3.pdf) PDF format.</p>
Data_Table 2_Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice
<p>Data of Table 2 from Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice</p> <p>The Dataset (doi: 10.3390_metabo11070442) contains the original figures as PNG-format (10.3390_metabo11070442_Tab2.PNG). Corresponding raw data and subsequent data analysis obtained from LC-MS/MS analysis provided as one file in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_2_1.csv). All further experiment related information provided as one meta-data-file (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_2_M_1.txt) in txt format, one file containing further related information in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_2_2.csv), and one file containing further related information on the analysis method (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_2_3.pdf) PDF format.</p>
Data_Figure 2_Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice
<p>Data of Figure 2 from Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice</p> <p>The Dataset (doi: 10.3390_metabo11070442) contains the original figures as PNG-format (10.3390_metabo11070442_Fig2.PNG). Corresponding raw data and subsequent data analysis obtained from LC-MS/MS analysis provided as two files in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1-2_1.csv). All further experiment related information provided as one meta-data-file (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1-2_M_1.txt) in txt format, two files containing further related information in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1-2_2.csv), and two files containing further related information on the analysis method (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1-2_3.pdf) PDF format.</p> <p> </p>
Data_Figure 3_Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice
<p>Data of Figure 3 from Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice</p> <p>The Dataset (doi: 10.3390_metabo11070442) contains the original figures as PNG-format (10.3390_metabo11070442_Fig3.PNG). Corresponding raw data and subsequent data analysis provided as eight files in CSV format (31003A_179400_10.3390_metabo11070442_FJ_AE-BileAcids_3_4_1-3.csv and 31003A_179400_10.3390_metabo11070442_MW_AE-BileAcids_2_3_1-5.csv). All further experiment related information provided as one meta-data-file (31003A_179400_10.3390_metabo11070442_MW_FJ_AE-BileAcids_2-3_M_1.txt) in txt format, four files containing further related information in PDF format ( 31003A_179400_10.3390_metabo11070442_FJ_AE-BileAcids_3_4_4-6.pdf and 31003A_179400_10.3390_metabo11070442_MW_AE-BileAcids_2_3_6.pdf).</p>
Data_Figure 4_Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice
<p>Data of Figure 4 from Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice</p> <p>The Dataset (doi: 10.3390_metabo11070442) contains the original figures as PNG-format (10.3390_metabo11070442_Fig4.PNG). Corresponding raw data and subsequent data analysis provided as four files in CSV format (31003A_179400_10.3390_metabo11070442_FJ_AE-BileAcids_3_4_1-3.csv and 31003A_179400_10.3390_metabo11070442_MW_AE-BileAcids_2_3_2.csv). All further experiment related information provided as one meta-data-file (31003A_179400_10.3390_metabo11070442_MW_FJ_AE-BileAcids_2-3_M_1.txt) in txt format, five files containing further related information in PDF format ( 31003A_179400_10.3390_metabo11070442_FJ_AE-BileAcids_3_4_4-7.pdf and 31003A_179400_10.3390_metabo11070442_MW_AE-BileAcids_2_3_1.pdf).</p> <p> </p>
Data_Figure 5_Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice
<p>Data of Figure 5 from Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice</p> <p>The Dataset (doi: 10.3390_metabo11070442) contains the original figures as PNG-format (10.3390_metabo11070442_Fig5.PNG) and one meta-data-file (31003A_179400_10.3390_metabo11070442_AE-BileAcids_M_1.txt) in txt format</p>
Data_Figure 1_Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice
<p>Data of Figure 1 from Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice.</p> <p>The Dataset (doi: 10.3390_metabo11070442) contains the original figures as PNG-format (10.3390_metabo11070442_Fig1.PNG). Corresponding raw data and subsequent data analysis obtained from LC-MS/MS analysis provided as two files in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1-2_1.csv). All further experiment related information provided as one meta-data-file (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1-2_M_1.txt) in txt format, two files containing further related information in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1-2_2.csv), and two files containing further related information on the analysis method (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1-2_3.pdf) PDF format.</p>
Data_Figure S2_Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice
<p>Data of Figure S2 from Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice.</p> <p>The Dataset (doi: 10.3390_metabo11070442) contains the original figures as PNG-format (10.3390_metabo11070442_FigS2.PNG). Corresponding raw data and subsequent data analysis obtained from LC-MS/MS analysis provided as two files in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_2_1.csv). All further experiment related information provided as one meta-data-file (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1_M_1.txt) in txt format, one file containing further related information in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_2_2.csv), and one file containing further related information on the analysis method (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_2_3.pdf) PDF format.</p>
Data_Figure S1_Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice
<p> </p> <p>Data of Figure S1 from Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice.</p> <p>The Dataset (doi: 10.3390_metabo11070442) contains the original figures as PNG-format (10.3390_metabo11070442_FigS1.PNG). Corresponding raw data and subsequent data analysis obtained from LC-MS/MS analysis provided as one file in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1_1.csv). All further experiment related information provided as one meta-data-file (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1_M_1.txt) in txt format, one file containing further related information in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1_2.csv), and one file containing further related information on the analysis method (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1_3.pdf) PDF format.</p>
Data_Figure S3_Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice
<p>Data of Figure S3 from Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice.</p> <p>The Dataset (doi: 10.3390_metabo11070442) contains the original figures as PNG-format (10.3390_metabo11070442_FigS3.PNG). Corresponding raw data and subsequent data analysis obtained from LC-MS/MS analysis provided as a file in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1_1.csv). All further experiment related information provided as one meta-data-file (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1_M_1.txt) in txt format, a file containing further related information in CSV format (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1_2.csv), and a file containing further related information on the analysis method (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1_2.pdf) PDF format.</p>
Data_Table S1_Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice
<p>Data of Table S1 from Impact on Bile Acid Concentrations by Alveolar Echinococcosis and Treatment with Albendazole in Mice.</p> <p>The Dataset (doi: 10.3390_metabo11070442) contains the original figures as PNG-format (10.3390_metabo11070442_TabS1.PNG). All further experiment related information provided as one meta-data-file (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1-2_M_1.txt) in txt format and two files containing further related information on the analysis method (31003A_179400_10.3390_metabo11070442_CGC_AE-BileAcids_4_1-2_1.pdf) PDF format.</p>
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.