Dataset Information

Raw N-glycan MALDI mass spectrometry imaging data on formalin-fixed mouse kidney

ABSTRACT: The N-glycome was mapped and visualised on formalin-fixed mouse kidney tissue using an ultrafleXtreme MALDI-ToF/ToF MS instrument (Bruker Daltonics).

INSTRUMENT(S): ultraflex

ORGANISM(S): Mus Musculus (mouse)

TISSUE(S): Kidney

SUBMITTER: Matthew Briggs

LAB HEAD: Prof. Peter Hoffmann

PROVIDER: PXD009808 | Pride | 2018-11-02

REPOSITORIES: pride

ACCESS DATA

Dataset's files

Source:

			Action	DRS
	MB001-040_pos.tif	Other
	N-glycan_RScript.docx	Other
	cal-nonormalization.ibd	Other
	cal-nonormalization.imzML	Other
	control-nonormalization.ibd	Other

Items per page:

1 - 5 of 10

Publications

Raw <i>N</i>-glycan mass spectrometry imaging data on formalin-fixed mouse kidney.

Gustafsson Ove J R OJR Briggs Matthew T MT Condina Mark R MR Winderbaum Lyron J LJ Pelzing Matthias M McColl Shaun R SR Everest-Dass Arun V AV Packer Nicolle H NH Hoffmann Peter P

Data in brief 20180912

Provided is the annotated raw data for <i>N</i>-glycan mass spectrometry imaging (MSI) annotations in thin cross-sections of formalin-fixed and paraffin-embedded murine kidney. Relevant meta-data have been provided in this brief and the raw MSI data can be accessed using ProteomeXchange with the PRoteomics IDEntifications (PRIDE) identifier PXD009808. This brief is the first in a set of submissions from our group which will make raw data publicly accessible for existing and future MSI studies. ...[more]

PMID: 30364692

Similar Datasets

Project description:This is the first report characterizing noncoding RNA expression in a congenital heart defect. The striking shift in expression of noncoding RNAs reflects a fundamental change in cell biology, likely impacting expression, transcript splicing and translation of developmentally important genes and possibly contributing to the cardiac defect. The importance of noncoding RNAs (ncRNA), especially microRNAs, for maintaining stability in the developing vertebrate heart has recently become apparent. However, there is little known about the expression pattern of ncRNA in the human heart with developmental anomalies. We examined the expression of microRNAs and small nucleolar RNAs (snoRNAs) in right ventricular myocardium from 16 infants with nonsyndromic tetralogy of Fallot (TOF) without a 22q11.2 deletion, three fetal heart samples and eight normally developing infants. We found 61 microRNAs and 135 snoRNAs to be significantly changed in expression in myocardium from children with TOF compared to normally developing comparison subjects. The pattern of ncRNA expression in TOF myocardium had a remarkable resemblance to expression patterns in fetal myocardium, especially for the snoRNAs. Potential targets of microRNAs with altered expression were enriched for gene networks of importance to cardiac development. We derived a list of 229 genes known to be critical to heart development and found 44 had significantly changed expression in TOF myocardium relative to normally developing myocardium. These 44 genes had significant negative correlation with 33 microRNAs, each of which also had significantly changed expression. The primary function of snoRNAs is targeting specific nucleotides of ribosomal RNAs and spliceosomal RNAs for biochemical modification. The targeted nucleotides of the differentially expressed snoRNAs were concentrated in the 28S and 18S ribosomal RNAs and two spliceosomal RNAs, U2 and U6. In addition, in myocardium from children with TOF, we observed splicing variants in 51% of the critical cardiac developmental genes. Taken together, these observations suggest a link between snoRNA level in the myocardium, spliceosomal function and heart development. We examined the expression of microRNAs and small nucleolar RNAs (snoRNAs) in right ventricular myocardium from 16 infants with nonsyndromic tetralogy of Fallot (TOF) without a 22q11.2 deletion, three fetal heart samples and eight normally developing infants