Single Cell Portal BETA

Visualization portal for single cell RNA-seq data.

Now featuring 23 studies with 284,497 cells.

Browse Studies

Single nucleus RNA-seq of cell diversity in the adult mouse hippocampus. Habib N, Li Y, Heidenreich M, Swiech L, Avraham-Davidi I, Trombetta J, Hession C, Zhang F, Regev A. Div-Seq: Single-nucleus RNA-Seq reveals dynamics of rare adult newborn neurons. Science  28 Jul 2016 DOI: 10.1126/science.aad7038 Contact: naomi@broadinstitute.org Single cell RNA-Seq provides rich information about cell types and states. However, it is difficult to capture rare dynamic processes, such as adult neurogenesis, because isolation of rare neurons from adult tissue is challenging and markers for each phase are limited. Here, we develop Div-Seq, which combines scalable single-nucleus RNA-Seq (sNuc-Seq) with pulse labeling of proliferating cells by EdU... (continued)
Retinal Bipolar Neuron Drop-Seq Karthik Shekhar, Sylvain W. Lapan, Irene E. Whitney, Nicholas M. Tran, Evan Z. Macosko, Monika Kowalczyk, Xian Adiconis, Joshua Z. Levin, James Nemesh, Melissa Goldman, Steven A. McCarroll, Constance L. Cepko, Aviv Regev, Joshua R. Sanes. Comprehensive Classification of Retinal Bipolar Neurons by Single-Cell Transcriptomics. Cell. Volume 166, Issue 5, p1308–1323.e30, 25 August 2016. DOI: http://dx.doi.org/10.1016/j.cell.2016.07.054 Contact: Karthik Shekhar at karthik@broadinstitute.org   Patterns of gene expression can be used to characterize and classify neuronal types. It is challenging, however, to generate taxonomies that fulfill the essential criteria of being comprehensive, harmonizing with conventional classification schemes, and lacking superfluous subdivisions of genuine types. To address these challenges, we used massively parallel single-cell RNA profiling and optimized computational methods on a heterogeneous class of... (continued)
Single-cell RNA-seq from 1,301 cells in the anterior lateral motor cortex (ALM), a sub-region of the premotor cortex. All cells were collected from 56±3 day-old adult male mice. Further details and a tecnical whitepaper can be found on the Allen Institute for Brain Science RNA-seq Transcriptomic Profiling page: http://celltypes.brain-map.org/rnaseq  
Single-cell RNA-seq from 1,827 cells in the lateral geniculate complex (LGd). All cells were collected from 56±3 day-old adult male mice. Further details and a tecnical whitepaper can be found on the Allen Institute for Brain Science RNA-seq Transcriptomic Profiling page: http://celltypes.brain-map.org/rnaseq