This website was developed as a webtool part of the studie entitled “A comprehensive transcriptome signature of murine hematopoietic stem cell aging”. Here we aim to provide easy, intuitive and code-free access to the findings which were described in the study.
Briefly, this dataset resulted from a systematic re-analysis of multiple (12) transcriptomic studies of young and physiologically aged murine Hematopoietic Stem Cells (HSCs). From these independent studies we generated a list of the most robust genes which were present in such studies – termed the Aging Signature – but also a complete list of all differentially expressed genes – The Aging list.
We wish to provide quick access to researchers which are interested in enquire if a specific gene(s) are directly involved in transcriptomic changes in mHSCs. Furthermore, we also provide access to different tools whereby researches can compare their own transcriptomic (bulk or single-cell ) data sets to the aging signature and have an estimation how closely related their phenotype resembles physiological aging.
All supplemental information can be found in the published manuscript and on github.
Quick search tool which allows enquire for specific gene(s). The search results return if the enquired gene is part of the Aging Signature or not. For genes which are present in the aging signature or aging list, the expression data is displayed together with information about the publications which have found that particular gene to be differentially expressed.Search
This section allows the comparison of bulk RNA-seq sets to the aging signature. Users can provide a list of genes (user input) and it will be compared to the AS using 2 different methods (Rank Score and Enrichment Score). After the analysis is done, Enrichment plots are displayed showing the user input together with the different studies which comprise the AS, giving an idea of how much the user input list is comparable with the Aging signature. examples of data are provided.dGSE signature
A list of the genes which comprise the Aging Signature. This list provides the gene symbols, gene annotation, average logFC, standard deviation (SD) and number of studies which a certain gene was found to be differentially expressed in ≥ 4 studies out of 12.Aging Signature
This section allows the comparison of single-cell RNA-seq sets to the aging signature. The user can upload raw read counts of genes (rows containing gene symbols) of single-cells (columns). The first row of each columns should assign the group that the cells belong to.
Once the data is analyzed, a PCA plot will display the degree of separation of individual cells and their AS score (how closely related each cell is to physiological aging). A boxplot will also be displayed to how the population distribution.
Users have also the option to run a example to analyze.Single Cell
A list with all genes which were ever reported to be differentially expressed in murine HSC aging. Unlike the Aging Signature section, here were also provide information about genes with low reproducibility (present in < 4 studies out of 12).Aging list