果蝇精巢数据库 http://fly-ted.org/flyted-the-drosophila-testis-gene-expression-database/ 图片.png 12. SynEcoSys https://www.synecosys.cn/#/ SynEcoSys 13. Cell Taxonomy https://ngdc.cncb.ac.cn/celltaxonomy/ Cell Taxonomy
doi:10.1038/35689Meredith WadmanNatureNatureWadman, M. 1998. Gene marker database stirs up debate. Nature 391: 726.
通常是依赖Marker gene来定义每一个类群,可以是GO/KEGG数据库功能富集,虽然这样会比较粗糙,适用于类群不多,而且差异非常大的情形。但是上面例子的细胞类群太多,需要其它方法,通常是根据已经有人整理好的数据库,做如下映射。 这里推荐两个: CellMarker数据库 这里值得推荐的是哈尔滨医科大学 Yun Xiao老师等在2019年1...
Yang K, Ou Q, Li X, Wang P, Zhang Y. CellMarker 2.0: an updated database of manually curated cell markers in human/mouse and web tools based on scRNA-seq data. Nucleic Acids Res. 2023 Jan 6;51(D1):D870-D876.
Noun1.genetic marker- a specific gene that produces a recognizable trait and can be used in family or population studies cistron,gene,factor- (genetics) a segment of DNA that is involved in producing a polypeptide chain; it can include regions preceding and following the coding DNA as well ...
In my experience, the step which usesminimap2to align reads to the marker gene database uses about 66GB of memory. Output table Marker-MAGuoutputs a long form table, and the combined outputs (fromcombine_sample_tables1.R) are long form. This allows for a smaller file size and nimbler do...
Gene expression data from 63 patients with OC and LI, and 35 patients with OC but without LI, were investigated using an Affymetrix Human Genome U133 Array and analyzed using The Cancer Genome Atlas (TCGA) database. Among these 98 patients, 16 survived for 5 years or more. DEGs were ...
The functional composition of microbial community samples from several environments is predicted based on 16S ribosomal RNA gene sequencing data. Profiling phylogenetic marker genes, such as the 16S rRNA gene, is a key tool for studies of microbial commu
To better explain the enriched signaling pathways in NK cell-related gene-based clusters, we applied the Hallmark database and its candidate genes with GSEA. The results indicated that 14 signaling pathways were markedly enriched in the C1 cluster compared with the C3 cluster in the TCGA-LIHC co...
SSRs have been extensively exploited as molecular markers for diverse applications including genetic diversity, linkage/association mapping of gene/QTL, marker-assisted selection, variety identification and evolution analysis. However, a comprehensive database or web service for studying microsatellite DNAs ...