Resources
This page is dedicated to sharing resources with the scientific community. These include protocols used by the lab and useful links that our lab members use for their research.
Protocols
How to make a 1.00 mm WB gradient gel.
SERCA2a activity assay
How to measure SERCA2a ATPase assay.
scRNA sequencing of mouse heart
How to perform single-cell RNA sequencing of mouse heart cells.
Hairpin2 staining
How to stain cells with necrotic cell death.
Metabolomic sample preparation
How to prepare samples for metabolomic analyses and perform a result analysis.
Mouse echocardiography
How to evaluate cardiac function in mice using echocardiography.
EM protocol
How to conduct EM analysis.
Gene set enrichment analysis (GSEA)
How to conduct a brief GSEA analysis of RNA-seq data.
TTC staining
How to evaluate the size of myocardial infarction in mice.
Cell Viability Assays
How to evaluate cell viability.
LC3-II western blotting
How to conduct LC3-II immunoblot assays.
Hypoxia chamber experiment
How to apply hypoxia in cultured cardiomyocytes.
Gradient Gels
How to make a gradient gel.
Useful Links
AAV Core
The Department of Cell Biology and Molecular Medicine AAV Core will generate AAV vectors and purify them for in vivo transfer experiments. This service is open to the public.
Primer Bank
This database shows primer sets for qPCR that have been used or validated in previous studies. This is useful for pilot studies and saves time compared to designing and validating new primers from scratch.
UCSC Genome Browser
This tool allows users to visualize and analyze genomic data such as gene location, gene sequence, promoters, and enhancers.
MetaboAnalyst 6.0
This platform is dedicated to metabolome analysis data, where it is possible to filter out significantly changed metabolites and perform enrichment analysis.
Tabula Sapiens & Tabula Muris Senis
These databases are comprehensive collections of single-cell transcriptomic data and allow for direct and controlled comparisons of gene expressions across shared cell types between tissues.
Venny 2.1
A Venn figure generator for multiple genes/proteins/metabolites lists.
g:Profiler
With sequencing data, filter out significantly changed genes and perform enrichment analysis.
Cytoscape
This open-source software platform can help visualize and analyze complex biological networks and relationships, providing inspiration for future studies.
GeneCards
This is a useful database for obtaining all information related to the gene you are searching for, including information about commercially available products for the gene of interest.
Scansite 4.0
This site searches for motifs within proteins.