Brain

Campbell

• Campbell, J. N. et al. A molecular census of arcuate hypothalamus and median eminence cell types. Nat. Neurosci. 20, 484–496 (2017)

Accession	Protocol	Size	Scripts	Download	Report
GSE93374	Drop-seq	26774 features 21086 samples	bash R	SCESet	html

Chen

• Chen, R., Wu, X., Jiang, L. & Zhang, Y. Single-Cell RNA-Seq Reveals Hypothalamic Cell Diversity. Cell Rep. 18, 3227–3241 (2017)

Accession	Protocol	Size	Scripts	Download	Report
GSE87544	Drop-seq	23284 features 14437 samples	bash R	SCESet	html

Manno

• La Manno, G. et al. Molecular Diversity of Midbrain Development in Mouse, Human, and Stem Cells. Cell 167, 566–580.e19 (2016)

Accession	Protocol	Size	Scripts	Download	Report
GSE76381	STRT-Seq UMI	23530 features 2150 samples	bash R	SCESet	html

Marques

• Marques, S. et al. Oligodendrocyte heterogeneity in the mouse juvenile and adult central nervous system. Science 352, 1326–1329 (2016)

Accession	Protocol	Size	Scripts	Download	Report
GSE75330	C1	23556 features 5053 samples	bash R	SCESet	html

Romanov

• Romanov, R. A. et al. Molecular interrogation of hypothalamic organization reveals distinct dopamine neuronal subtypes. Nat. Neurosci. 20, 176–188 (2017)

Note

The expression data in Excel format were downloaded from GEO Omnibus on 24/07/2017 and was converted to csv format. The csv file is stored here and is used to generate the scater object and the report.

Accession	Protocol	Size	Scripts	Download	Report
GSE74672	XXXXXXXXX	24341 features 2881 samples	R	SCESet	html

Tasic

• Tasic, B. et al. Adult mouse cortical cell taxonomy revealed by single cell transcriptomics. Nat. Neurosci. 19, 335–346 (2016)

• Supporting data

• Manual data

Note

All processed files were downloaded from brain map website on 22/02/2017. These files are stored here and are used to generate the scater object and the report.

Read counts

Accession	Protocol	Size	Scripts	Download	Report
GSE71585	SMARTer	24150 features 1679 samples	bash R	SCESet	html

RPKMs

Accession	Protocol	Size	Scripts	Download	Report
GSE71585	SMARTer	24150 features 1679 samples	bash R	SCESet	html

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Usoskin

• Usoskin, D. et al. Unbiased classification of sensory neuron types by large-scale single-cell RNA sequencing. Nat. Neurosci. 18, 145–153 (2015)

• Supporting data

• Manual data

Note

Excel file was downloaded from the Supporting data and converted to csv format on 07/02/2017. The resulting csv file is stored here and is used to generate the scater object and the report.

Accession	Protocol	Size	Scripts	Download	Report
GSE59739	STRT-Seq	25334 features 622 samples	bash R	SCESet	html

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Zeisel

• Zeisel, A. et al. Brain structure. Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq. Science 347, 1138–1142 (2015)

• Supporting data

• Manual data

Note

Txt file was downloaded from the Supporting data and on 22/02/2017. This file is used to generate the scater object and the report.

Accession	Protocl	Size	Scripts	Download	Report
GSE60361	STRT-Seq UMI	19972 features 3005 samples	bash R	SCESet	html