we have launched an Organoid Cell Atlas pilot project, as a ‘Biological Network’ within the Human Cell Atlas (HCA)4,5,6, focusing on the single-cell characterization of organoids and complex in vitro systems (https://www.humancellatlas.org/coordinators). The Organoid Cell Atlas...
The vertebrate brain emerged more than ~500 million years ago in common evolutionary ancestors. To systematically trace its cellular and molecular origins, we established a spatially resolved cell type atlas of the entire brain of the sea lamprey—a jawl
The cell homeostasis of the aged lung decreased, and our single-cell atlas of development and aging lungs suggested that the dysregulation of iron homeostasis caused byFTLdown-regulation might be involved in this process. The decrease inFTLaffects the ferritin ensemble. Correlation analysis suggested ...
As well as the models provided by CellTypist (see1.2.), you can generate your own model from which the cell type labels can be transferred to another scRNA-seq dataset. This will be most useful when a large and comprehensive reference atlas is trained for future use, or when the similarit...
3. Hutter, C. & Zenklusen, J. C. The Cancer Genome Atlas: Creating Lasting Value beyond Its Data.Cell(2018) doi:10.1016/j.cell.2018.03.042. 4. Barretina, J. et al. The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity.Nature483, 603–607 (2012)...
2. Cancer GenomeAtlas Research Network. Electronic address, w. b. e. & Cancer Genome AtlasResearch, N. Comprehensive and Integrative Genomic Characterization ofHepatocellular Carcinoma.Cell169,1327-1341 e1323, doi:10.1016/j.cell.2017.05.046 (2017). ...
To explore the clinical relevance of A3B for RSR, we measured RSR signature scores using The Cancer Genome Atlas (TCGA) datasets. Pearson correlation analysis revealed that A3B levels were positively correlated with RSR signature scores in both UVM and prostate adenocarcinoma (PRAD) datasets (Fig....
Briefly, denote z ij the observed value of gene i on cell line j, and x ij its discrete hidden state. z ij was first rank-transformed into the cumulative distribution function (CDF) value y ij . Families of polynomial quantization functions [Math Processing Error]fγ(yij)≡yijγ and [...
As described in the “Background” section, variability is commonly used to select “informative” features for reference-free deconvolution. Along the same line, we consider six different approaches to select initial features, including the top 1000 most variable features; the top 1001 to 2000, ...
· Adenocarcinoma, large cell, NSCLC NOS; EGFR mutation discovered during first-line chemotherapy: "May add erlotinib to current chemotherapy" changed to a "category 2A" recommendation from a "category 2B" recommendation. · Therapy added for progression on erlotinib. > "Symptomatic, brain, ...