Integrative molecular and clinical profiling of acral melanoma links focal amplification of 22q11.21 to metastasis

Integrated mutational landscape analysis of uterine leiomyosarcomas

(2021) Jungmin Choi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

T follicular helper cells: linking cancer immunotherapy and immune-related adverse events

(2021) Dirk Baumjohann et al.   Journal for ImmunoTherapy of Cancer

Single-cell transcriptional diversity is a hallmark of developmental potential

(2020) Gunsagar S. Gulati et al.   SCIENCE

Copy number gains of the putative CRKL oncogene in laryngeal squamous cell carcinoma result in strong nuclear expression of the protein and influence cell proliferation and migration

(2020) Magdalena Kostrzewska-Poczekaj et al.   Scientific Reports

Novel role for CRK adaptor proteins as essential components of SRC/FAK signaling for epithelial–mesenchymal transition and colorectal cancer aggressiveness

(2020) Fabian C. Franke et al.   INTERNATIONAL JOURNAL OF CANCER

Survival after checkpoint inhibitors for metastatic acral, mucosal and uveal melanoma

(2020) Nicholas D. Klemen et al.   Journal for ImmunoTherapy of Cancer

Racial and Ethnic Differences in the Clinical Presentation and Outcomes of Acral Lentiginous Melanoma

(2020) S. Behbahani et al.   BRITISH JOURNAL OF DERMATOLOGY

Cancer Stem Cell Plasticity – A Deadly Deal

(2020) Archana P. Thankamony et al.   Frontiers in Molecular Biosciences

Effects of extracellular matrix viscoelasticity on cellular behaviour

(2020) Ovijit Chaudhuri et al.   NATURE

Whole-genome sequencing of acral melanoma reveals genomic complexity and diversity

(2020) Felicity Newell et al.   Nature Communications

Targeted genomic profiling of acral melanoma

(2019) Iwei Yeh et al.   JNCI-Journal of the National Cancer Institute

Determining cell type abundance and expression from bulk tissues with digital cytometry

(2019) Aaron M. Newman et al.   NATURE BIOTECHNOLOGY

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

LZTR1 facilitates polyubiquitination and degradation of RAS-GTPases

(2019) Taiki Abe et al.   CELL DEATH AND DIFFERENTIATION

Molecular and phenotypic spectrum of Noonan syndrome in Chinese patients

(2019) Xin Li et al.   CLINICAL GENETICS

Distinct Genomic Features in a Retrospective Cohort of Mucosal, Acral and Vulvovaginal Melanomas

(2019) Katherine Shi et al.   JOURNAL OF THE AMERICAN ACADEMY OF DERMATOLOGY

Clinical and genetic analysis of melanomas arising in acral sites

(2019) Anne Zaremba et al.   EUROPEAN JOURNAL OF CANCER

LZTR1: Genotype Expansion in Noonan Syndrome

(2019) María Güemes et al.   Hormone Research in Paediatrics

Autosomal recessive Noonan syndrome associated with biallelic LZTR1 variants

(2018) Jennifer J Johnston et al.   GENETICS IN MEDICINE

Genetic Alterations in Primary Acral Melanoma and Acral Melanocytic Nevus in Korea: Common Mutated Genes Show Distinct Cytomorphological Features

(2018) Ki Rang Moon et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

Schwannomatosis: a genetic and epidemiological study

(2018) D Gareth Evans et al.   JOURNAL OF NEUROLOGY NEUROSURGERY AND PSYCHIATRY

TERT copy gain predicts the outcome of high-dose interferon α-2b therapy in acral melanoma

(2018) Sifan Yu et al.   OncoTargets and Therapy

The role of the unfolded protein response in cancer progression: From oncogenesis to chemoresistance

(2018) Emma Madden et al.   BIOLOGY OF THE CELL

Delineation of LZTR1 mutation-positive patients with Noonan syndrome and identification of LZTR1 binding to RAF1–PPP1CB complexes

(2018) Ikumi Umeki et al.   HUMAN GENETICS

Dominant Noonan syndrome-causing LZTR1 mutations specifically affect the kelch domain substrate-recognition surface and enhance RAS-MAPK signaling

(2018) Marialetizia Motta et al.   HUMAN MOLECULAR GENETICS

GENCODE reference annotation for the human and mouse genomes

(2018) Adam Frankish et al.   NUCLEIC ACIDS RESEARCH

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(2018) Fiona Cunningham et al.   NUCLEIC ACIDS RESEARCH

COSMIC: the Catalogue Of Somatic Mutations In Cancer

(2018) John G Tate et al.   NUCLEIC ACIDS RESEARCH

Mutations in LZTR1 drive human disease by dysregulating RAS ubiquitination

(2018) M. Steklov et al.   SCIENCE

LZTR1 is a regulator of RAS ubiquitination and signaling

(2018) Johannes W. Bigenzahn et al.   SCIENCE

Mutational profiling of acral melanomas in Korean populations

(2017) Joon Ho Shim et al.   EXPERIMENTAL DERMATOLOGY

Integrated genomic analyses reveal frequent TERT aberrations in acral melanoma

(2017) Winnie S. Liang et al.   GENOME RESEARCH

Isolation, identification, and characterization of cancer stem cells: A review

(2017) Mohammad Reza Abbaszadegan et al.   JOURNAL OF CELLULAR PHYSIOLOGY

Acral lentiginous melanoma versus other melanoma: A single-center analysis in Japan

(2017) Maiko Wada et al.   JOURNAL OF DERMATOLOGY

KIT D816V Induces SRC-Mediated Tyrosine Phosphorylation of MITF and Altered Transcription Program in Melanoma

(2017) Bengt Phung et al.   MOLECULAR CANCER RESEARCH

Whole-genome landscapes of major melanoma subtypes

(2017) Nicholas K. Hayward et al.   NATURE

Single-cell mRNA quantification and differential analysis with Census

(2017) Xiaojie Qiu et al.   NATURE METHODS

Salmon provides fast and bias-aware quantification of transcript expression

(2017) Rob Patro et al.   NATURE METHODS

Single-cell entropy for accurate estimation of differentiation potency from a cell’s transcriptome

(2017) Andrew E. Teschendorff et al.   Nature Communications

Clinicopathological significance of intratumoral and peritumoral lymphocytes and lymphocyte score based on the histologic subtypes of cutaneous melanoma

(2017) Cheol Keun Park et al.   Oncotarget

Association of Genetic Predisposition With Solitary Schwannoma or Meningioma in Children and Young Adults

(2017) Omar N. Pathmanaban et al.   JAMA Neurology

A clinicopathological analysis of 153 acral melanomas and the relevance of mechanical stress

(2017) Yi-Shuan Sheen et al.   Scientific Reports

Complex heatmaps reveal patterns and correlations in multidimensional genomic data

(2016) Zuguang Gu et al.   BIOINFORMATICS

Dual CCNE1/PIK3CA targeting is synergistic in CCNE1-amplified/PIK3CA-mutated uterine serous carcinomas in vitro and in vivo

(2016) Emiliano Cocco et al.   BRITISH JOURNAL OF CANCER

Acral melanocytic lesions in the United States: Prevalence, awareness, and dermoscopic patterns in skin-of-color and non-Hispanic white patients

(2016) Reshmi Madankumar et al.   JOURNAL OF THE AMERICAN ACADEMY OF DERMATOLOGY

Molecular profiling, including TERT promoter mutations, of acral lentiginous melanomas

(2016) Vinicius de Lima Vazquez et al.   MELANOMA RESEARCH

Analysis of protein-coding genetic variation in 60,706 humans

(2016) Monkol Lek et al.   NATURE

The genomic landscape of cutaneous melanoma

(2016) Tongwu Zhang et al.   Pigment Cell & Melanoma Research

Genomic characterization of sarcomatoid transformation in clear cell renal cell carcinoma

(2016) Mark Bi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mutational landscape of uterine and ovarian carcinosarcomas implicates histone genes in epithelial–mesenchymal transition

(2016) Siming Zhao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genomic Classification of Cutaneous Melanoma

(2015) Rehan Akbani et al.   CELL

Analysis of mTOR Gene Aberrations in Melanoma Patients and Evaluation of Their Sensitivity to PI3K-AKT-mTOR Pathway Inhibitors

(2015) Y. Kong et al.   CLINICAL CANCER RESEARCH

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(2015) Leo Y. Luo et al.   Journal of Genetics and Genomics

Exome sequencing identifies recurrent mutations in NF1 and RASopathy genes in sun-exposed melanomas

(2015) Michael Krauthammer et al.   NATURE GENETICS

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

Robust enumeration of cell subsets from tissue expression profiles

(2015) Aaron M Newman et al.   NATURE METHODS

The Molecular Signatures Database Hallmark Gene Set Collection

(2015) Arthur Liberzon et al.   Cell Systems

CRKL promotes lung cancer cell invasion through ERK-MMP9 pathway

(2014) Fu Lin et al.   MOLECULAR CARCINOGENESIS

The mutational burden of acral melanoma revealed by whole-genome sequencing and comparative analysis

(2014) Simon J. Furney et al.   Pigment Cell & Melanoma Research

Mutational heterogeneity in cancer and the search for new cancer-associated genes

(2013) Michael S. Lawrence et al.   NATURE

The integrated landscape of driver genomic alterations in glioblastoma

(2013) Veronique Frattini et al.   NATURE GENETICS

Genome engineering using the CRISPR-Cas9 system

(2013) F Ann Ran et al.   Nature Protocols

Landscape of somatic single-nucleotide and copy-number mutations in uterine serous carcinoma

(2013) S. Zhao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The sva package for removing batch effects and other unwanted variation in high-throughput experiments

(2012) Jeffrey T. Leek et al.   BIOINFORMATICS

A Landscape of Driver Mutations in Melanoma

(2012) Eran Hodis et al.   CELL

Genetic alterations in RAS-regulated pathway in acral lentiginous melanoma

(2012) Joan A. Puig-Butillé et al.   EXPERIMENTAL DERMATOLOGY

Absolute quantification of somatic DNA alterations in human cancer

(2012) Scott L Carter et al.   NATURE BIOTECHNOLOGY

Exome sequencing identifies recurrent somatic RAC1 mutations in melanoma

(2012) Michael Krauthammer et al.   NATURE GENETICS

Genomic characterisation of acral melanoma cell lines

(2012) Simon J. Furney et al.   Pigment Cell & Melanoma Research

The cBio Cancer Genomics Portal: An Open Platform for Exploring Multidimensional Cancer Genomics Data: Figure 1.

(2012) Ethan Cerami et al.   Cancer Discovery

Role of Rho GTPases and their regulators in cancer progression

(2011) Rajamani Rathinam   Frontiers in Bioscience-Landmark

The pINDUCER lentiviral toolkit for inducible RNA interference in vitro and in vivo

(2011) Kristen L. Meerbrey et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Amplification of CRKL Induces Transformation and Epidermal Growth Factor Receptor Inhibitor Resistance in Human Non-Small Cell Lung Cancers

(2011) H. W. Cheung et al.   Cancer Discovery

GISTIC2.0 facilitates sensitive and confident localization of the targets of focal somatic copy-number alteration in human cancers

(2011) Craig H Mermel et al.   GENOME BIOLOGY

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

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

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

PLX4032, a selective BRAFV600E kinase inhibitor, activates the ERK pathway and enhances cell migration and proliferation of BRAFWT melanoma cells

(2010) Ruth Halaban et al.   Pigment Cell & Melanoma Research

Acral Lentiginous Melanoma

(2009) Porcia T. Bradford et al.   ARCHIVES OF DERMATOLOGY

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Mapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt

(2009) Steffen Durinck et al.   Nature Protocols

Genomic and functional analysis identifies CRKL as an oncogene amplified in lung cancer

(2009) Y H Kim et al.   ONCOGENE

KIT Gene Mutations and Copy Number in Melanoma Subtypes

(2008) C. Beadling et al.   CLINICAL CANCER RESEARCH

Regulatory networks define phenotypic classes of human stem cell lines

(2008) Franz-Josef Müller et al.   NATURE

Identification of cells initiating human melanomas

(2008) Tobias Schatton et al.   NATURE

Increased Melanogenesis is a Risk Factor for Oxidative DNA Damage— Study on Cultured Melanocytes and Atypical Nevus Cells

(2008) Nico P. M. Smit et al.   PHOTOCHEMISTRY AND PHOTOBIOLOGY