Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

GNPS - Hypothalamic-pituitary-gonadal axis drives sex differences in the gut microbiome during puberty: Amines

ABSTRACT: Untargeted biogenic amines associated with preprint https://doi.org/10.1101/2023.06.20.545808. Metadata available at https://github.com/laurasisk/HPG_puberty_microbiome/tree/main/data/metadata_for_repository_files. Amines for mouse fecal samples pre- and post-puberty in wild-type and hypogonadal mice.

INSTRUMENT(S): Sciex 6600

ORGANISM(S): Mus Musculus (ncbitaxon:10090)

SUBMITTER: Varykina G. Thackray

PROVIDER: MSV000095869 | GNPS |

REPOSITORIES: GNPS

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

GNPS - Hypothalamic-pituitary-gonadal axis drives sex differences in the gut microbiome during puberty: Lipids

Project description:Untargeted lipidomics associated with preprint https://doi.org/10.1101/2023.06.20.545808. https://github.com/laurasisk/HPG_puberty_microbiome/tree/main/data/metadata_for_repository_files. Lipid profiles for mouse fecal samples pre- and post-puberty in wild-type and hypogonadal mice.

| MSV000095868 | GNPS

Differential RNA abundance between S. cerevisiae yeast BY4741 strains with YAK1_WT and YAK1_Q578*

Project description:Identification of the gene differentially expressed with and without a non-sense mutation in YAK1 gene. This analysis provided a better understanding of the mechanism underlying variants affecting differently mRNA and protein abundance of genes in TRANS. Data used in the preprint: https://www.biorxiv.org/content/10.1101/2020.07.02.185413v1

2020-08-11 | GSE155998 | GEO

Evolution of conserved noncoding sequences (CNS) in Arabidopsis thaliana

Project description:We report ATAC-seq for several A. thaliana accessions in healthy leaf tissue. As part of an investigation into the evolution of conserved noncoding sequences, our goal was to identify overlaps between regions of accessible chromatin and CNS. Manuscript in review. Biorxiv preprint doi: https://doi.org/10.1101/727669

2021-01-04 | GSE164159 | GEO

Plasmodium falciparum GBP2 pulldown

Project description:This experiment was conducted to learn about the potential biological roles of P. falciparum GBP2 (PfGBP2), a protein identified as part of the telomeric proteome in the malaria parasite P. falciparum. HA-tagged GBP2 protein was immunoprecipitated from P. falciparum parasites and its interactome was obtained via mass spectrometry. See preprint https://doi.org/10.1101/2021.07.02.450898

2022-04-04 | PXD028903 | Pride

Spatial transcriptomics of ovarian cancer tumors

Project description:Several ovarian cancer tumors from different anatomical sites and therapy statuses. A GUI to explore the data can be found at: https://visium-shiny-9hzfl.ondigitalocean.app/ Code to run the shiny app (same output as the GUI): https://github.com/kwells4/visium_public_shiny Code to replicate the analysis can be found: https://github.com/kwells4/visium_ovarian_cancer

2022-10-10 | GSE213699 | GEO

RNA-seq of AtPIN5 overexpressing tobacco BY-2 cells

Project description:This RNA-seq is a part of the paper describing the role of PIN5 in generating auxin sinks. https://www.biorxiv.org/content/10.1101/2024.01.24.576992v1

2024-03-31 | GSE260945 | GEO

Deep Semi-Supervised Learning Improves Universal Peptide Identification of Shotgun Proteomics Data

Project description:Data and results for paper, "Deep Semi-Supervised Learning Improves Universal Peptide Identification of Shotgun Proteomics Data," found at: https://doi.org/10.1101/2020.11.12.380881 Deep learning software for PSM recalibration, called ProteoTorch-DNN, available at: https://github.com/proteoTorch/proteoTorch with documentation: https://proteotorch.readthedocs.io/en/latest/

2021-05-11 | MSV000087402 | MassIVE

Nassar2022 - Metagenomics Classification Task for Scientific Literature Text

Project description:This is a use case to show that, given any automatic metagenomic classification model for the documents, we can convert those to ONNX (Open Neural Network Exchange) format; it also consists of the Dockerfile that can be used to prepare a docker image. This conversion ensures interoperability and open access. The ONNX format utility can perform the following essential tasks: model conversion, inference, inspection, and optimization. Reference: 1) https://github.com/elixir-europe/biohackathon-projects-2022/tree/main/9 2) https://www.ebi.ac.uk/biomodels/search?query=Maaly+Nassar&domain=biomodels 3) https://gitlab.com/maaly7/emerald_metagenomics_annotations 4) This model is built upon the model of the following publication: Maaly Nassar, Alexander B Rogers, Francesco Talo', Santiago Sanchez, Zunaira Shafique, Robert D Finn, Johanna McEntyre, A machine learning framework for discovery and enrichment of metagenomics metadata from open access publications, GigaScience, Volume 11, 2022, giac077, https://doi.org/10.1093/gigascience/giac077

2023-05-25 | BIOMD0000001068 | BioModels

Raw OBE MS data for Stepwise design of pseudosymmetric protein hetero-oligomers

Project description:Online buffer exchange (OBE)-MS data for "Stepwise design of pseudosymmetric protein hetero-oligomers"(https://doi.org/10.1101/2023.04.07.535760). Raw file names correspond to file names given in the reports in Table S7. Data was collected using Xcalibur and data were deconvolved using UniDec (https://github.com/michaelmarty/UniDec)

2023-08-22 | MSV000092722 | MassIVE

A large-scale comparative study of isoform expressions measured on four platforms

Project description:The NanoString experiment were conducted on 59 cell lines including 12 ovary cell lines, 12 lung cell lines, 11 colon cell lines, 10 breast cell lines, 4 pancreas cell lines, 2 prostate cell lines, 2 stomach cell lines, and 6 cell lines of 6 other types of tissues. A total of 404 probes were customized to estimate the isoform expressions of 155 cancer genes curated from the literature with more reliable isoform annotations, where each of the 155 gene contains at least two isoforms. RT-qPCR data on seven genes in twelve out of the 59 cancer cell lines are available at https://github.com/compbiolabucf/IntMTQ/tree/master/RT-qPCR

2019-06-25 | GSE133226 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data