Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

Michael I. Love, Wolfgang Huber, Simon Anders

Genome biology

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

Johannes Schindelin, Ignacio Arganda‐Carreras, Erwin Frise, +13

Nature Methods

BiologyBiological-image AnalysisImage AnalysisEngineeringMicroscope Image Processing +6

HISAT: a fast spliced aligner with low memory requirements

Daehwan Kim, Ben Langmead, Steven L. Salzberg

Nature Methods

Hardware SecurityEngineeringHardware AccelerationHigh-performance ArchitectureComputer Engineering +5

Comprehensive Integration of Single-Cell Data

Tim Stuart, Andrew Butler, Paul Hoffman, +7

Cell

EngineeringBiomedical Data IntegrationData ScienceSingle Cell SequencingMedicine +9

Metascape provides a biologist-oriented resource for the analysis of systems-level datasets

Yingyao Zhou, Bin Zhou, Lars Pache, +5

Nature Communications

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

Mihaela Pertea, Geo Pertea, Corina Antonescu, +3

Nature Biotechnology

Functional GenomicsNatural SciencesGeneticsRna Structure PredictionRna Biology +8

Integrating single-cell transcriptomic data across different conditions, technologies, and species

Andrew Butler, Paul Hoffman, Peter Smibert, +2

Nature Biotechnology

EngineeringGeneticsMultiomicsSingle-cell Transcriptomic DataTranscriptomics Technology +15

Complex heatmaps reveal patterns and correlations in multidimensional genomic data

Zuguang Gu, Roland Eils, Matthias Schlesner

Bioinformatics

Neurotoxic reactive astrocytes are induced by activated microglia

Shane A. Liddelow, Kevin A. Guttenplan, Laura Clarke, +18

Nature

Activated MicrogliaMedicineCell DeathBrain-immune InteractionBrain Injury +5

Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq

Amit Zeisel, Ana B. Muñoz‐Manchado, Simone Codeluppi, +11

Science

Social SciencesTranscriptional RegulationCell TypesSingle Cell SequencingLong Non-coding Rna +15