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Unbiased classification of sensory neuron types by large-scale single-cell RNA sequencing
(Published in Nature Neuroscience)

Dmitry Usoskin[1], Alessandro Furlan[1], Saiful Islam[1], Hind Abdo[1], Peter Lönnerberg[1], Daohua Lou[1], Jens Hjerling-Leffler[1], Jesper Haeggström[2], Olga Kharchenko[1], Peter Kharchenko[3,4], Sten Linnarsson[1] and Patrik Ernfors[1]

[1] Division of Molecular Neurobiology, [2] Division of Physiological Chemistry, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, 17177 Stockholm, Sweden. [3] Center for Biomedical Informatics, Harvard Medical School, Boston, Massachusetts, USA. [4] Division of Hematology/Oncology, Children's Hospital, Boston, Massachusetts, USA

Correspondence to and

External resource Table 1 Normalized data for all sequenced wells (expressed as RPM) with full sample annotation. The first worksheet (named “Tab1_INFO”) contains detailed annotation for data. The raw data for individual plates (libraries) are accessible at Gene Expression Omnibus (GEO) under accession number GSE59739.

External resource Table 2 This Excel file contains the expression profile for all genes and neuronal populations (fraction of positive cells, with color coding) and if macros are enabled (Windows only, and requires Excel 2010 or later), allows for generation of scatter plots of expression, reads-per-million (RPM), for any gene or list of genes of interest in all cells of identified neuronal populations. Macro used for calculation fraction of positive cells is also included in this file (macro name: FractionOfPositiveCells). The first worksheet (named “Tab1_INFO”) contains detailed annotation for data presented in all sheets of the file and description how to use macro. Macro for scatter plot generation requires Windows OS. As an alternative to visualize expression scatter plot one can use Search engine below.

Visualization tool for posteriors of expression level and fold change for individual genes in different sensory neuronal populations at Peter Kharchenko Lab website: The same data in a tabulated form are presented also in Supplementary Table 2 of the paper.

Search engine of scatter plots of expression, reads-per-million (RPM), for any gene in 622 neurons assigned to individual populations. Values are grouped along horizontal axis according identified populations. Solid vertical lines separate major types in the order: NF, NP, PEP, TH populations. Dashed vertical lines separate major populations into further subtypes, for example NF1 to NF5 for NF major type. Vertical axis shows normalized expression level in RPM (reads per million) for individual cells.