2024-11-26
ENA first public
ERC000011
ENA-CHECKLIST
QCIF Facility for Advanced Bioinformatics, Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD
INSDC center name
public
INSDC status
ERS22446144
SRA accession
E-MTAB-14618:TolDC1
Submitter Id
ArrayExpress
broker name
not collected
collection date
house mouse
common name
Protocols: C57BL6 mice bone marrow derived dendritic cells were treated with VitD3/IL10 to generated tolerogenic (tolDC) with and without LPS stimulation. PBS, tolDC or LPS-tolDC were given to C57BL6 mice at time of bilateral renal ischemia reperfusion injury and kidney samples obtained 24-hours post injury for sampling with 10x Visium spatial transcriptomics  ST libraries were prepared by Visium Spatial Gene Expression Reagent Kits  The NextSeq 500 (Illumina) protocol involves several key steps for sequencing, which are designed to ensure accurate and efficient data generation. Here’s a brief overview:  Library Preparation: This involves preparing DNA or RNA samples for sequencing. The samples are fragmented, and adapters are added to create a library of sequences. Cluster Generation: The prepared library is loaded onto a flow cell, where clusters of identical DNA fragments are generated. This step is crucial for amplifying the signal during sequencing. Sequencing: The NextSeq 500 uses sequencing-by-synthesis (SBS) technology to read the DNA sequences. During this process, fluorescently labeled nucleotides are incorporated into the DNA strands, and the emitted fluorescence is captured to determine the sequence. Data Analysis: The raw sequencing data is processed and analyzed using bioinformatics tools. This step includes base calling, alignment, and variant calling to interpret the genetic information12  The NextSeq 500 (Illumina) protocol involves several key steps for sequencing, which are designed to ensure accurate and efficient data generation. Here’s a brief overview:  Library Preparation: This involves preparing DNA or RNA samples for sequencing. The samples are fragmented, and adapters are added to create a library of sequences. Cluster Generation: The prepared library is loaded onto a flow cell, where clusters of identical DNA fragments are generated. This step is crucial for amplifying the signal during sequencing. Sequencing: The NextSeq 500 uses sequencing-by-synthesis (SBS) technology to read the DNA sequences. During this process, fluorescently labeled nucleotides are incorporated into the DNA strands, and the emitted fluorescence is captured to determine the sequence. Data Analysis: The raw sequencing data is processed and analyzed using bioinformatics tools. This step includes base calling, alignment, and variant calling to interpret the genetic information12 ST libraries were prepared by Visium Spatial Gene Expression Reagent Kits  The NextSeq 500 (Illumina) protocol involves several key steps for sequencing, which are designed to ensure accurate and efficient data generation. Here’s a brief overview:  Library Preparation: This involves preparing DNA or RNA samples for sequencing. The samples are fragmented, and adapters are added to create a library of sequences. Cluster Generation: The prepared library is loaded onto a flow cell, where clusters of identical DNA fragments are generated. This step is crucial for amplifying the signal during sequencing. Sequencing: The NextSeq 500 uses sequencing-by-synthesis (SBS) technology to read the DNA sequences. During this process, fluorescently labeled nucleotides are incorporated into the DNA strands, and the emitted fluorescence is captured to determine the sequence. Data Analysis: The raw sequencing data is processed and analyzed using bioinformatics tools. This step includes base calling, alignment, and variant calling to interpret the genetic information
description
adult
developmental stage
acute kidney injury
disease
not collected
geographic location (country and/or sea)
tolDC
growth condition
tolDC treated mouse 01
individual
not applicable
isolate
Mus musculus
organism
Mus musculus
organism
kidney
organism part
Mus musculus
scientific_name
male
sex
C57BL6
strain
TolDC1
title