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A single-cell atlas of mouse brain macrophages reveals unique transcriptional identities shaped by ontogeny and tissue environment

Hannah Van Hove, Liesbet Martens, Isabelle Scheyltjens, Karen De Vlaminck, Ana Rita Pombo Antunes, Sofie De Prijck, Niels Vandamme, Sebastiaan De Schepper, Gert Van Isterdael, Charlotte L. Scott,

Nature Neuroscience · 2019 · 1.1K citations · 57 references

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57

Fiji: an open-source platform for biological-image analysis

Johannes Schindelin, Ignacio Arganda‐Carreras, Erwin Frise et al. · Nature Methods · 2012 · 70.9K citations

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Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks

Paul Shannon, Andrew Markiel, Owen Ozier et al. · Genome Research · 2003 · 54.3K citations · Full text

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Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments

Gordon K. Smyth · Statistical Applications in Genetics and Molecular Biology · 2004 · 12K citations

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Near-optimal probabilistic RNA-seq quantification

Nicolas Bray, Harold Pimentel, Páll Melsted et al. · Nature Biotechnology · 2016 · 11K citations · Full text

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Spatial reconstruction of single-cell gene expression data

Rahul Satija, Jeffrey A. Farrell, David Gennert et al. · Nature Biotechnology · 2015 · 7.7K citations · Full text

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