Dissecting intratumour heterogeneity of nodal B-cell lymphomas at the transcriptional, genetic and drug-response levels

Systematic Investigation of Microenvironmental Drug Resistance Mechanisms in Chronic Lymphocytic Leukemia

(2019) Peter-Martin Bruch et al.   BLOOD

Chemoresistance Evolution in Triple-Negative Breast Cancer Delineated by Single-Cell Sequencing

(2018) Charissa Kim et al.   CELL

Tumor Cell-Intrinsic Factors Underlie Heterogeneity of Immune Cell Infiltration and Response to Immunotherapy

(2018) Jinyang Li et al.   IMMUNITY

Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors

(2018) Laleh Haghverdi et al.   NATURE BIOTECHNOLOGY

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

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Molecular subtypes of diffuse large B cell lymphoma are associated with distinct pathogenic mechanisms and outcomes

(2018) Bjoern Chapuy et al.   NATURE MEDICINE

Circulating Tfh1 (cTfh1) cell numbers and PD1 expression are elevated in low-grade B-cell non-Hodgkin’s lymphoma and cTfh gene expression is perturbed in marginal zone lymphoma

(2018) Elliot T. Byford et al.   PLoS One

NRG1 Fusions in KRAS Wild-type Pancreatic Cancer

(2018) Christoph Heining et al.   Cancer Discovery

Prospective Isolation and Characterization of Genetically and Functionally Distinct AML Subclones

(2018) Bauke de Boer et al.   CANCER CELL

Human germinal center transcriptional programs are de-synchronized in B cell lymphoma

(2018) Pierre Milpied et al.   NATURE IMMUNOLOGY

Differential IL-2 expression defines developmental fates of follicular versus nonfollicular helper T cells

(2018) Daniel DiToro et al.   SCIENCE

Single-cell RNA-Seq of lymphoma cancers reveals malignant B cell types and co-expression of T cell immune checkpoints

(2018) Noemi Andor et al.   BLOOD

Single-cell reconstruction of the early maternal–fetal interface in humans

(2018) Roser Vento-Tormo et al.   NATURE

Single cell dissection of plasma cell heterogeneity in symptomatic and asymptomatic myeloma

(2018) Guy Ledergor et al.   NATURE MEDICINE

Drug-perturbation-based stratification of blood cancer

(2017) Sascha Dietrich et al.   JOURNAL OF CLINICAL INVESTIGATION

QuPath: Open source software for digital pathology image analysis

(2017) Peter Bankhead et al.   Scientific Reports

IL-4 enhances expression and function of surface IgM in CLL cells

(2016) M. M. Aguilar-Hernandez et al.   BLOOD

One microenvironment does not fit all: heterogeneity beyond cancer cells

(2016) Ik Sun Kim et al.   CANCER AND METASTASIS REVIEWS

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

(2016) I. Tirosh et al.   SCIENCE

CNVkit: Genome-Wide Copy Number Detection and Visualization from Targeted DNA Sequencing

(2016) Eric Talevich et al.   PLoS Computational Biology

IL4 from T Follicular Helper Cells Downregulates Antitumor Immunity

(2016) Hidekazu Shirota et al.   Cancer Immunology Research

Outcomes of transformed follicular lymphoma in the modern era: a report from the National LymphoCare Study (NLCS)

(2015) N. D. Wagner-Johnston et al.   BLOOD

ICOS maintains the T follicular helper cell phenotype by down-regulating Krüppel-like factor 2

(2015) Jan P. Weber et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Advances and Applications of Single-Cell Sequencing Technologies

(2015) Yong Wang et al.   MOLECULAR CELL

The Molecular Signatures Database Hallmark Gene Set Collection

(2015) Arthur Liberzon et al.   Cell Systems

Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma

(2014) A. P. Patel et al.   SCIENCE

Discovery and Characterization of Super-Enhancer-Associated Dependencies in Diffuse Large B Cell Lymphoma

(2013) Bjoern Chapuy et al.   CANCER CELL

The causes and consequences of genetic heterogeneity in cancer evolution

(2013) Rebecca A. Burrell et al.   NATURE

Quantitative single-cell RNA-seq with unique molecular identifiers

(2013) Saiful Islam et al.   NATURE METHODS

Chronic Lymphocytic Leukemia Cells Are Activated and Proliferate in Response to Specific T Helper Cells

(2013) Audun Os et al.   Cell Reports

Intratumor Heterogeneity: Evolution through Space and Time

(2012) C. Swanton   CANCER RESEARCH

Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells

(2012) Daniel Ramsköld et al.   NATURE BIOTECHNOLOGY

Single Cell Profiling of Circulating Tumor Cells: Transcriptional Heterogeneity and Diversity from Breast Cancer Cell Lines

(2012) Ashley A. Powell et al.   PLoS One

Flow Cytometric Analysis of Surface Light Chain Expression Patterns in B-Cell Lymphomas Using Monoclonal and Polyclonal Antibodies

(2011) Pedro Horna et al.   AMERICAN JOURNAL OF CLINICAL PATHOLOGY

Molecular signatures database (MSigDB) 3.0

(2011) A. Liberzon et al.   BIOINFORMATICS

Combined Genetic Inactivation of β2-Microglobulin and CD58 Reveals Frequent Escape from Immune Recognition in Diffuse Large B Cell Lymphoma

(2011) Madhavi Challa-Malladi et al.   CANCER CELL

BET Bromodomain Inhibition as a Therapeutic Strategy to Target c-Myc

(2011) Jake E. Delmore et al.   CELL

Tumour evolution inferred by single-cell sequencing

(2011) Nicholas Navin et al.   NATURE

Cancer Immunoediting: Integrating Immunity's Roles in Cancer Suppression and Promotion

(2011) R. D. Schreiber et al.   SCIENCE

CD200 (OX-2 Membrane Glycoprotein) is Expressed by Follicular T Helper Cells and in Angioimmunoblastic T-cell Lymphoma

(2010) David M. Dorfman et al.   AMERICAN JOURNAL OF SURGICAL PATHOLOGY

ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data

(2010) K. Wang et al.   NUCLEIC ACIDS RESEARCH

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

IL-21 and T follicular helper cells

(2009) R. Spolski et al.   INTERNATIONAL IMMUNOLOGY