José P Pinto, Rui S R Machado, Ramiro Magno, Daniel V Oliveira, Susana Machado, Raquel P Andrade, José Bragança, Isabel Duarte, Matthias E Futschik, StemMapper: a curated gene expression database for stem cell lineage analysis, Nucleic Acids Research, Volume 46, Issue D1, 4 January 2018, Pages D788–D793, https://doi.org/10.1093/nar/gkx921. endstream endobj startxref Here, our aim is to find novel candidate marker genes from the analysis of a set of established genes associated with the differentiation of neural precursor cells (NPCs) into astrocytes (Figure 1). In mammals, SCs can be classified according to their developmental structure or tissue of origin (embryonic versus adult SCs) as well as their potential to differentiate into one or many cell types. PRODUCT AVAILABILITY: Update Regarding the Evolving COVID-19 Situation, Bio-Techne appreciates the critical role that you and our products and services play in research efforts to further scientific innovation and discovery. Glial fibrillary acidic protein (Gfap) is considered an astrocyte-specific gene and has been widely used in the study of astrocytogenesis (20). The user can subsequently choose to retrieve the relevant data for follow-up analyses, either directly by pressing the ‘Download’ button presented for each sample (providing the standardized processed data), or by following the GEO links to obtain the raw data from the source. During EMT, epithelial cells lose their junctions and apical-basal polarity, reorganize their cytoskeleton, undergo a change in the signaling cascade that defines cell shape and reprograms gene expression. Cell-surface markers are advantageous as they allow for recovery of live cells with multiparameter labeling; thus, recovered cells can be readily applied to functional SSC analyses. The validation data of some of the above mentioned targets is shown below: E Cadherin was detected in immersion fixed D3 mouse embryonic stem cell line using Goat Anti-Human/Mouse E Cadherin Antigen Affinity-purified Polyclonal Antibody (Catalog #AF748) at 10 µg/mL for 3 hours at room temperature. The frozen parameter vectors were calculated on the basis of the data contained in StemMapper's database. Thank you for submitting a comment on this article. Conventionally, markers used for mESCs, mouse embryonic carcinomas (ECs), or human EC cells, were exploited to identify undifferentiated human embryonic stem cells (hESCs) [10, 11].At the pre-implantation stage, murine embryos, human germ cells, and teratocarcinoma stem cells express certain molecular receptors known as Stage-Specific Embryonic Antigens (SSEA) on their membrane … This is an Open Access article distributed under the terms of the Creative Commons Attribution License (. Since the cancer stem cell concept has been widely accepted, several strategies have been proposed to attack cancer stem cells (CSC). In total, 82 batches for mouse (246 arrays) and 17 batches for human (68 arrays) were used to derive the fRMA parameters. Barrett T., Wilhite S.E., Ledoux P., Evangelista C., Kim I.F., Tomashevsky M., Marshall K.A., Phillippy K.H., Sherman P.M., Holko M.et al. © The Author(s) 2017. For full access to this pdf, sign in to an existing account, or purchase an annual subscription. Epithelial-Mesenchymal Transition (EMT) is the trans-differentiation of stationary epithelial cells into motile mesenchymal cells. 2015 for a more complete list.. Human Mesenchymal Stem Cell Flow Cytometry Kit [FMC020-NOV] - Human bone marrow-derived mesenchymal stem cells were stained using the antibodies and reagents provided in the Human Mesenchymal Stem Cell Marker Verification Multi-Color Flow Cytometry Kit. Hematopoietic Stem Cell Markers. Additionally, it is possible to zoom into the heatmaps. In this manner, we sought to remove potentially mis-annotated samples that could compromise downstream analyses and the overall quality of data integrated into StemMapper. All samples passing the QC were subsequently processed in a standardized way to enhance comparability and consistency of the integrated data, while reducing potential batch effects related to the study of origin. These include tools such as ImmGen Gene Skyline (21), Codex (22), Gene Expression Commons (23), Expression Atlas (24) and Stemformatics (25), which provide - similarly to StemMapper - access to expression data for a wide range of cell types. Collectively, these changes increase the motility of individual cells and enables the development of an invasive phenotype. The displays are interactive, allowing the user to easily inspect the expression values for genes and samples by moving the pointer over the heatmaps. 140 0 obj <>stream IHC analysis of a FFPE tissue section of human hepatocellular carcinoma using at 1:400 dilution of MMP2 antibody with HRP-DAB detection method. Once the queried data is retrieved and processed, two main tabs are generated: Heatmaps and PCA Plot containing interactive plots for these visualizations, allowing the user to access detailed gene-centered or cell type-centered information. We are continually assessing our manufacturing and supplier capabilities during the COVID-19 situation and are implementing precautionary measures to ensure uninterrupted supply of products and services. Genes can be also removed by deleting their identifiers in the textbox. Moreover, the comparison of expression measurements from different experiments could help to identify more robust gene signatures and potential new marker genes. Note the specific staining of Vimentin localized to the cytoskeleton. Communication between R and the Java components is provided through Rserver.

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