Transcriptomics paving the way for improved diagnostics and precision medicine of acute leukemia

Properties of FDA-approved small molecule protein kinase inhibitors: a 2021 update

(2021) Robert Roskoski   PHARMACOLOGICAL RESEARCH

Single‐cell sequencing in translational cancer research and challenges to meet clinical diagnostic needs

(2021) Ulrich Pfisterer et al.   GENES CHROMOSOMES & CANCER

Genome Sequencing as an Alternative to Cytogenetic Analysis in Myeloid Cancers

(2021) Eric J. Duncavage et al.   NEW ENGLAND JOURNAL OF MEDICINE

Biological and therapeutic implications of a unique subtype of NPM1 mutated AML

(2021) Arvind Singh Mer et al.   Nature Communications

Genomes for Kids: The scope of pathogenic mutations in pediatric cancer revealed by comprehensive DNA and RNA sequencing

(2021) Scott Newman et al.   Cancer Discovery

Comprehensive diagnostics of acute myeloid leukemia by whole transcriptome RNA sequencing

(2020) Wibowo Arindrarto et al.   LEUKEMIA

Extensive Remodeling of the Immune Microenvironment in B Cell Acute Lymphoblastic Leukemia

(2020) Matthew T. Witkowski et al.   CANCER CELL

WGS and WTS in leukaemia: A tool for diagnostics?

(2020) Manja Meggendorfer et al.   BEST PRACTICE & RESEARCH CLINICAL HAEMATOLOGY

Multidimensional study of the heterogeneity of leukemia cells in t(8;21) acute myelogenous leukemia identifies the subtype with poor outcome

(2020) Lu Jiang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Single cell transcriptomics comes of age

(2020) Sarah Aldridge et al.   Nature Communications

Clonal evolution of acute myeloid leukemia revealed by high-throughput single-cell genomics

(2020) Kiyomi Morita et al.   Nature Communications

Precision medicine in acute lymphoblastic leukemia

(2020) Ching-Hon Pui   Frontiers of Medicine

Single cell characterization of B-lymphoid differentiation and leukemic cell states during chemotherapy in ETV6-RUNX1-positive pediatric leukemia identifies drug-targetable transcription factor activities

(2020) Juha Mehtonen et al.   Genome Medicine

PAX5-driven subtypes of B-progenitor acute lymphoblastic leukemia

(2019) Zhaohui Gu et al.   NATURE GENETICS

Integrative single-cell analysis

(2019) Tim Stuart et al.   NATURE REVIEWS GENETICS

Single-Cell RNA-Seq Reveals AML Hierarchies Relevant to Disease Progression and Immunity

(2019) Peter van Galen et al.   CELL

Revisiting NTRKs as an emerging oncogene in hematological malignancies

(2019) Sunil K. Joshi et al.   LEUKEMIA

A general approach for detecting expressed mutations in AML cells using single cell RNA-sequencing

(2019) Allegra A. Petti et al.   Nature Communications

The Biology of B-Progenitor Acute Lymphoblastic Leukemia

(2019) Kathryn G. Roberts et al.   Cold Spring Harbor Perspectives in Medicine

Single-cell multiomic analysis identifies regulatory programs in mixed-phenotype acute leukemia

(2019) Jeffrey M. Granja et al.   NATURE BIOTECHNOLOGY

PAX5 P80R mutation identifies a novel subtype of B-cell precursor acute lymphoblastic leukemia with favorable outcome

(2018) Marie Passet et al.   BLOOD

Functional genomic landscape of acute myeloid leukaemia

(2018) Jeffrey W. Tyner et al.   NATURE

Transcriptional landscape of B cell precursor acute lymphoblastic leukemia based on an international study of 1,223 cases

(2018) Jian-Feng Li et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

ETV6/RUNX1 -like acute lymphoblastic leukemia: A novel B-cell precursor leukemia subtype associated with the CD27/CD44 immunophenotype

(2017) Marketa Zaliova et al.   GENES CHROMOSOMES & CANCER

Genomics of Acute Myeloid Leukemia Diagnosis and Pathways

(2017) Lars Bullinger et al.   JOURNAL OF CLINICAL ONCOLOGY

High Frequency and Poor Outcome of Philadelphia Chromosome–Like Acute Lymphoblastic Leukemia in Adults

(2017) Kathryn G. Roberts et al.   JOURNAL OF CLINICAL ONCOLOGY

Pediatric non–Down syndrome acute megakaryoblastic leukemia is characterized by distinct genomic subsets with varying outcomes

(2017) Jasmijn D E de Rooij et al.   NATURE GENETICS

Recurrent SPI1 (PU.1) fusions in high-risk pediatric T cell acute lymphoblastic leukemia

(2017) Masafumi Seki et al.   NATURE GENETICS

The genomic landscape of pediatric and young adult T-lineage acute lymphoblastic leukemia

(2017) Yu Liu et al.   NATURE GENETICS

The molecular landscape of pediatric acute myeloid leukemia reveals recurrent structural alterations and age-specific mutational interactions

(2017) Hamid Bolouri et al.   NATURE MEDICINE

Simultaneous epitope and transcriptome measurement in single cells

(2017) Marlon Stoeckius et al.   NATURE METHODS

Diagnosis and management of AML in adults: 2017 ELN recommendations from an international expert panel

(2016) Hartmut Döhner et al.   BLOOD

The 2016 revision to the World Health Organization classification of myeloid neoplasms and acute leukemia

(2016) D. A. Arber et al.   BLOOD

Whole-transcriptome sequencing identifies a distinct subtype of acute lymphoblastic leukemia with predominant genomic abnormalities ofEP300andCREBBP

(2016) Maoxiang Qian et al.   GENOME RESEARCH

ZNF384 -related fusion genes define a subgroup of childhood B-cell precursor acute lymphoblastic leukemia with a characteristic immunotype

(2016) Shinsuke Hirabayashi et al.   HAEMATOLOGICA

Recurrent DUX4 fusions in B cell acute lymphoblastic leukemia of adolescents and young adults

(2016) Takahiko Yasuda et al.   NATURE GENETICS

Deregulation of DUX4 and ERG in acute lymphoblastic leukemia

(2016) Jinghui Zhang et al.   NATURE GENETICS

Single-cell genome sequencing: current state of the science

(2016) Charles Gawad et al.   NATURE REVIEWS GENETICS

Genomic Classification and Prognosis in Acute Myeloid Leukemia

(2016) Elli Papaemmanuil et al.   NEW ENGLAND JOURNAL OF MEDICINE

Frequency and outcome of pediatric acute lymphoblastic leukemia withZNF384gene rearrangements including a novel translocation resulting in anARID1B/ZNF384gene fusion

(2016) Mary Shago et al.   PEDIATRIC BLOOD & CANCER

Identification of ETV6-RUNX1-like and DUX4-rearranged subtypes in paediatric B-cell precursor acute lymphoblastic leukaemia

(2016) Henrik Lilljebjörn et al.   Nature Communications

Genomic analyses identify recurrent MEF2D fusions in acute lymphoblastic leukaemia

(2016) Zhaohui Gu et al.   Nature Communications

ZNF384 -related fusion genes define a subgroup of childhood B-cell precursor acute lymphoblastic leukemia with a characteristic immunotype

(2016) Shinsuke Hirabayashi et al.   HAEMATOLOGICA

Genomic Profiling of Adult and Pediatric B-cell Acute Lymphoblastic Leukemia

(2016) Yuan-Fang Liu et al.   EBioMedicine

Single-cell chromatin accessibility reveals principles of regulatory variation

(2015) Jason D. Buenrostro et al.   NATURE

Acute Myeloid Leukemia

(2015) Hartmut Döhner et al.   NEW ENGLAND JOURNAL OF MEDICINE

Targetable Kinase-Activating Lesions in Ph-like Acute Lymphoblastic Leukemia

(2015) Kathryn G. Roberts et al.   NEW ENGLAND JOURNAL OF MEDICINE

An oncogenic super-enhancer formed through somatic mutation of a noncoding intergenic element

(2014) M. R. Mansour et al.   SCIENCE

Genomic and Epigenomic Landscapes of Adult De Novo Acute Myeloid Leukemia

(2013)   NEW ENGLAND JOURNAL OF MEDICINE

An Inv(16)(p13.3q24.3)-Encoded CBFA2T3-GLIS2 Fusion Protein Defines an Aggressive Subtype of Pediatric Acute Megakaryoblastic Leukemia

(2012) Tanja A. Gruber et al.   CANCER CELL

VarScan 2: Somatic mutation and copy number alteration discovery in cancer by exome sequencing

(2012) D. C. Koboldt et al.   GENOME RESEARCH

ChimeraScan: a tool for identifying chimeric transcription in sequencing data

(2011) Matthew K. Iyer et al.   BIOINFORMATICS

Integrated Transcript and Genome Analyses Reveal NKX2-1 and MEF2C as Potential Oncogenes in T Cell Acute Lymphoblastic Leukemia

(2011) Irene Homminga et al.   CANCER CELL

Identification of novel cluster groups in pediatric high-risk B-precursor acute lymphoblastic leukemia with gene expression profiling: correlation with genome-wide DNA copy number alterations, clinical characteristics, and outcome

(2010) R. C. Harvey et al.   BLOOD

Prognostic impact, concurrent genetic mutations, and gene expression features of AML with CEBPA mutations in a cohort of 1182 cytogenetically normal AML patients: further evidence for CEBPA double mutant AML as a distinctive disease entity

(2010) E. Taskesen et al.   BLOOD

Double CEBPA mutations, but not single CEBPA mutations, define a subgroup of acute myeloid leukemia with a distinctive gene expression profile that is uniquely associated with a favorable outcome

(2009) B. J. Wouters et al.   BLOOD

Early T-cell precursor leukaemia: a subtype of very high-risk acute lymphoblastic leukaemia

(2009) Elaine Coustan-Smith et al.   LANCET ONCOLOGY

A subtype of childhood acute lymphoblastic leukaemia with poor treatment outcome: a genome-wide classification study

(2009) Monique L Den Boer et al.   LANCET ONCOLOGY

Deletion ofIKZF1and Prognosis in Acute Lymphoblastic Leukemia

(2009) Charles G. Mullighan et al.   NEW ENGLAND JOURNAL OF MEDICINE

The recurrent SET-NUP214 fusion as a new HOXA activation mechanism in pediatric T-cell acute lymphoblastic leukemia

(2008) P. Van Vlierberghe et al.   BLOOD

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS