Statistical analysis of spatial expression patterns for spatially resolved transcriptomic studies

Slide-seq: A scalable technology for measuring genome-wide expression at high spatial resolution

(2019) Samuel G. Rodriques et al.   SCIENCE

ACAT: A Fast and Powerful p Value Combination Method for Rare-Variant Analysis in Sequencing Studies

(2019) Yaowu Liu et al.   AMERICAN JOURNAL OF HUMAN GENETICS

CancerMine: a literature-mined resource for drivers, oncogenes and tumor suppressors in cancer

(2019) Jake Lever et al.   NATURE METHODS

Heritability Estimation and Differential Analysis with Generalized Linear Mixed Models in Genomic Sequencing Studies

(2018) Shiquan Sun et al.   BIOINFORMATICS

Spatial transcriptomic survey of human embryonic cerebral cortex by single-cell RNA-seq analysis

(2018) Xiaoying Fan et al.   CELL RESEARCH

FoxO1, A2M, and TGF-β1: three novel genes predicting depression in gene X environment interactions are identified using cross-species and cross-tissues transcriptomic and miRNomic analyses

(2018) Annamaria Cattaneo et al.   MOLECULAR PSYCHIATRY

Identification of spatial expression trends in single-cell gene expression data

(2018) Daniel Edsgärd et al.   NATURE METHODS

SpatialDE: identification of spatially variable genes

(2018) Valentine Svensson et al.   NATURE METHODS

Three-dimensional intact-tissue sequencing of single-cell transcriptional states

(2018) Xiao Wang et al.   SCIENCE

Sensory Neuron Diversity in the Inner Ear Is Shaped by Activity

(2018) Brikha R. Shrestha et al.   CELL

Molecular, spatial, and functional single-cell profiling of the hypothalamic preoptic region

(2018) Jeffrey R. Moffitt et al.   SCIENCE

Single-Cell RNA-Seq of Mouse Olfactory Bulb Reveals Cellular Heterogeneity and Activity-Dependent Molecular Census of Adult-Born Neurons

(2018) Burak Tepe et al.   Cell Reports

Differential expression analysis for RNAseq using Poisson mixed models

(2017) Shiquan Sun et al.   NUCLEIC ACIDS RESEARCH

An unexpected encounter with Cauchy and Lévy

(2016) Natesh S. Pillai et al.   ANNALS OF STATISTICS

Detecting spatial structures in throughfall data: The effect of extent, sample size, sampling design, and variogram estimation method

(2016) Sebastian Voss et al.   JOURNAL OF HYDROLOGY

Adult mouse cortical cell taxonomy revealed by single cell transcriptomics

(2016) Bosiljka Tasic et al.   NATURE NEUROSCIENCE

In Situ Transcription Profiling of Single Cells Reveals Spatial Organization of Cells in the Mouse Hippocampus

(2016) Sheel Shah et al.   NEURON

Visualization and analysis of gene expression in tissue sections by spatial transcriptomics

(2016) P. L. Stahl et al.   SCIENCE

The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins

(2016) Andrew D. Rouillard et al.   Database-The Journal of Biological Databases and Curation

Spatially resolved, highly multiplexed RNA profiling in single cells

(2015) K. H. Chen et al.   SCIENCE

A Flexible, Efficient Binomial Mixed Model for Identifying Differential DNA Methylation in Bisulfite Sequencing Data

(2015) Amanda J. Lea et al.   PLoS Genetics

Genome-wide RNA Tomography in the Zebrafish Embryo

(2014) Jan Philipp Junker et al.   CELL

Testing environmental and genetic effects in the presence of spatial autocorrelation

(2014) François Rousset et al.   ECOGRAPHY

Transcriptome in vivo analysis (TIVA) of spatially defined single cells in live tissue

(2014) Ditte Lovatt et al.   NATURE METHODS

Single-cell in situ RNA profiling by sequential hybridization

(2014) Eric Lubeck et al.   NATURE METHODS

Spatially resolved transcriptomics and beyond

(2014) Nicola Crosetto et al.   NATURE REVIEWS GENETICS

Highly Multiplexed Subcellular RNA Sequencing in Situ

(2014) J. H. Lee et al.   SCIENCE

In situ sequencing for RNA analysis in preserved tissue and cells

(2013) Rongqin Ke et al.   NATURE METHODS

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Synthesis and evaluation of potent and selective human V1a receptor antagonists as potential ligands for PET or SPECT imaging

(2011) Karine Fabio et al.   BIOORGANIC & MEDICINAL CHEMISTRY

Generalized linear spatial models in epidemiology: A case study of zoonotic cutaneous leishmaniasis in Tunisia

(2009) K. Ben-Ahmed et al.   JOURNAL OF APPLIED STATISTICS

A central role for Islet1 in sensory neuron development linking sensory and spinal gene regulatory programs

(2008) Yunfu Sun et al.   NATURE NEUROSCIENCE