A cellular hierarchy in melanoma uncouples growth and metastasis

Spatiotemporal transcriptomic atlas of mouse organogenesis using DNA nanoball-patterned arrays

(2022) Ao Chen et al.   CELL

Melanoma models for the next generation of therapies

(2021) E. Elizabeth Patton et al.   CANCER CELL

Inference and analysis of cell-cell communication using CellChat

(2021) Suoqin Jin et al.   Nature Communications

Cycling cancer persister cells arise from lineages with distinct programs

(2021) Yaara Oren et al.   NATURE

Single-cell transcriptional diversity is a hallmark of developmental potential

(2020) Gunsagar S. Gulati et al.   SCIENCE

Functional heterogeneity of lymphocytic patterns in primary melanoma dissected through single-cell multiplexing

(2020) Francesca Maria Bosisio et al.   eLife

Notch signalling drives synovial fibroblast identity and arthritis pathology

(2020) Kevin Wei et al.   NATURE

Robust gene expression programs underlie recurrent cell states and phenotype switching in melanoma

(2020) Jasper Wouters et al.   NATURE CELL BIOLOGY

MITF—the first 25 years

(2019) Colin R. Goding et al.   GENES & DEVELOPMENT

DoubletFinder: Doublet Detection in Single-Cell RNA Sequencing Data Using Artificial Nearest Neighbors

(2019) Christopher S. McGinnis et al.   Cell Systems

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Spatiotemporal structure of cell fate decisions in murine neural crest

(2019) Ruslan Soldatov et al.   SCIENCE

Melanoma plasticity and phenotypic diversity: therapeutic barriers and opportunities

(2019) Florian Rambow et al.   GENES & DEVELOPMENT

Fast, sensitive and accurate integration of single-cell data with Harmony

(2019) Ilya Korsunsky et al.   NATURE METHODS

NicheNet: modeling intercellular communication by linking ligands to target genes

(2019) Robin Browaeys et al.   NATURE METHODS

Heterochromatin protein 1α interacts with parallel RNA and DNA G-quadruplexes

(2019) Ruby J Roach et al.   NUCLEIC ACIDS RESEARCH

Multi-stage Differentiation Defines Melanoma Subtypes with Differential Vulnerability to Drug-Induced Iron-Dependent Oxidative Stress

(2018) Jennifer Tsoi et al.   CANCER CELL

Toward Minimal Residual Disease-Directed Therapy in Melanoma

(2018) Florian Rambow et al.   CELL

Linking transcriptional and genetic tumor heterogeneity through allele analysis of single-cell RNA-seq data

(2018) Jean Fan et al.   GENOME RESEARCH

Multicolour lineage tracing reveals clonal dynamics of squamous carcinoma evolution from initiation to metastasis

(2018) Melissa Q. Reeves et al.   NATURE CELL BIOLOGY

A Cancer Cell Program Promotes T Cell Exclusion and Resistance to Checkpoint Blockade

(2018) Livnat Jerby-Arnon et al.   CELL

Defining T Cell States Associated with Response to Checkpoint Immunotherapy in Melanoma

(2018) Moshe Sade-Feldman et al.   CELL

Non-redundant functions of EMT transcription factors

(2018) Marc P. Stemmler et al.   NATURE CELL BIOLOGY

GENCODE reference annotation for the human and mouse genomes

(2018) Adam Frankish et al.   NUCLEIC ACIDS RESEARCH

SCENIC: single-cell regulatory network inference and clustering

(2017) Sara Aibar et al.   NATURE METHODS

APPRIS 2017: principal isoforms for multiple gene sets

(2017) Jose Manuel Rodriguez et al.   NUCLEIC ACIDS RESEARCH

QuPath: Open source software for digital pathology image analysis

(2017) Peter Bankhead et al.   Scientific Reports

Prrx1 isoform switching regulates pancreatic cancer invasion and metastatic colonization

(2016) Shigetsugu Takano et al.   GENES & DEVELOPMENT

Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq

(2016) I. Tirosh et al.   SCIENCE

cMyc Regulates the Size of the Premigratory Neural Crest Stem Cell Pool

(2016) Laura Kerosuo et al.   Cell Reports

Decoding the regulatory landscape of melanoma reveals TEADS as regulators of the invasive cell state

(2015) Annelien Verfaillie et al.   Nature Communications

New Functional Signatures for Understanding Melanoma Biology from Tumor Cell Lineage-Specific Analysis

(2015) Florian Rambow et al.   Cell Reports

Whole-Brain Imaging with Single-Cell Resolution Using Chemical Cocktails and Computational Analysis

(2014) Etsuo A. Susaki et al.   CELL

ColonyArea: An ImageJ Plugin to Automatically Quantify Colony Formation in Clonogenic Assays

(2014) Camilo Guzmán et al.   PLoS One

Metastatic Colonization Requires the Repression of the Epithelial-Mesenchymal Transition Inducer Prrx1

(2012) Oscar H. Ocaña et al.   CANCER CELL

Systematic classification of melanoma cells by phenotype-specific gene expression mapping

(2012) Daniel S. Widmer et al.   Pigment Cell & Melanoma Research

A fast, lock-free approach for efficient parallel counting of occurrences of k-mers

(2011) Guillaume Marçais et al.   BIOINFORMATICS

A Temporarily Distinct Subpopulation of Slow-Cycling Melanoma Cells Is Required for Continuous Tumor Growth

(2010) Alexander Roesch et al.   CELL

Intestinal Crypt Homeostasis Results from Neutral Competition between Symmetrically Dividing Lgr5 Stem Cells

(2010) Hugo J. Snippert et al.   CELL

Human melanoma-initiating cells express neural crest nerve growth factor receptor CD271

(2010) Alexander D. Boiko et al.   NATURE

Cancer stem cells versus phenotype-switching in melanoma

(2010) Keith S. Hoek et al.   Pigment Cell & Melanoma Research

Mice expressing GFP and CreER in osteochondro progenitor cells in the periosteum

(2009) Aya Kawanami et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

BrafV600E cooperates with Pten loss to induce metastatic melanoma

(2009) David Dankort et al.   NATURE GENETICS

In vivo Switching of Human Melanoma Cells between Proliferative and Invasive States

(2008) K. S. Hoek et al.   CANCER RESEARCH

Identification of cells initiating human melanomas

(2008) Tobias Schatton et al.   NATURE

Efficient tumour formation by single human melanoma cells

(2008) Elsa Quintana et al.   NATURE

Improved assay-dependent searching of nucleic acid sequence databases

(2008) J. D. Gans et al.   NUCLEIC ACIDS RESEARCH