Publications



Chronic Cigarette Smoke-Induced Epigenomic Changes Precede Sensitization of Bronchial Epithelial Cells to Single-Step Transformation by KRAS Mutations.
Cancer Cell 2017 Sep;32(3):360-376.e6
Department of Oncology, The Sidney Kimmel Comprehensive Cancer Center, The Johns Hopkins University School of Medicine, Baltimore, MD 21287, USA. Electronic address:


The Effect of Preservative and Temperature on the Analysis of Circulating Tumor DNA.
Clin Cancer Res 2017 May 8;23(10):2471-2477. Epub 2016 Nov 8.
The Sidney Kimmel Comprehensive Cancer Center, Johns Hopkins University School of Medicine, Baltimore, Maryland.







Genomic analyses of gynaecologic carcinosarcomas reveal frequent mutations in chromatin remodelling genes.
Nat Commun 2014 Sep 19;5:5006. Epub 2014 Sep 19.
The Sidney Kimmel Comprehensive Cancer Center, Johns Hopkins University School of Medicine, Baltimore, Maryland 21287, USA.


Ganitumab (AMG 479) inhibits IGF-II-dependent ovarian cancer growth and potentiates platinum-based chemotherapy.
Clin Cancer Res 2014 Jun 11;20(11):2947-58. Epub 2014 Apr 11.
Authors' Affiliations: Oncology Research Therapeutic Area, Genomics Analysis Unit, Department of Pathology, Amgen Inc., Thousand Oaks; Division of Hematology-Oncology, Department of Medicine, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California; and The Ludwig Center and the Howard Hughes Medical Institute, Kimmel Cancer Center, Johns Hopkins Medical Institutions, Baltimore, Maryland.

Integrated next-generation sequencing and avatar mouse models for personalized cancer treatment.
Clin Cancer Res 2014 May 14;20(9):2476-84. Epub 2014 Mar 14.
Authors' Affiliations: Spanish National Cancer Research Centre (CNIO), Madrid, Spain; Champions Oncology, Baltimore, Maryland; Personal Genome Diagnostics, Inc., Baltimore, Maryland; Laboratorio Dianas Terapéuticas, Hospital Universitario Madrid-Sanchinarro, Madrid, Spain; Centro Integral Oncológico Clara Campal, Hospital Universitario Madrid-Sanchinarro, Madrid, Spain; Ludwig Center for Cancer Genetics and Therapeutics, Johns Hopkins Kimmel Cancer Center, Baltimore, Maryland.







Integrated genomic analyses identify ARID1A and ARID1B alterations in the childhood cancer neuroblastoma.
Nat Genet 2013 Jan 2;45(1):12-7. Epub 2012 Dec 2.
Ludwig Center for Cancer Genetics and Therapeutics, The Sidney Kimmel Comprehensive Cancer Center at Johns Hopkins, Baltimore, Maryland, USA.


Detection of chromosomal alterations in the circulation of cancer patients with whole-genome sequencing.
Sci Transl Med 2012 Nov;4(162):162ra154
Ludwig Center for Cancer Genetics and Howard Hughes Medical Institutions, Johns Hopkins Kimmel Cancer Center, Baltimore, MD 21287, USA.

Comparative genomic analysis of esophageal adenocarcinoma and squamous cell carcinoma.
Cancer Discov 2012 Oct 9;2(10):899-905. Epub 2012 Aug 9.
Ludwig Center for Cancer Genetics and Therapeutics and Howard Hughes Medical Institutions, Johns Hopkins University School of Medicine, Baltimore, Maryland 21287, USA.




Mutations in CIC and FUBP1 contribute to human oligodendroglioma.
Science 2011 Sep 4;333(6048):1453-5. Epub 2011 Aug 4.
Ludwig Center for Cancer Genetics and Howard Hughes Medical Institutions, Johns Hopkins Kimmel Cancer Center, Baltimore, MD 21287, USA.




Expression of p16 and retinoblastoma determines response to CDK4/6 inhibition in ovarian cancer.
Clin Cancer Res 2011 Mar 28;17(6):1591-602. Epub 2011 Jan 28.
Division of Hematology-Oncology, Department of Biomathematics and Biostatistics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, California, USA.


Frequent mutations of chromatin remodeling gene ARID1A in ovarian clear cell carcinoma.
Science 2010 Oct 8;330(6001):228-31. Epub 2010 Sep 8.
Ludwig Center for Cancer Genetics and Therapeutics and Howard Hughes Medical Institute, Johns Hopkins Kimmel Cancer Center, Baltimore, MD 21231, USA.

Distant metastasis occurs late during the genetic evolution of pancreatic cancer.
Nature 2010 Oct;467(7319):1114-7
Department of Pathology, The Sol Goldman Pancreatic Cancer Research Center, Johns Hopkins Medical Institutions, Baltimore, Maryland 21231, USA.

International network of cancer genome projects.
Nature 2010 Apr;464(7291):993-8

Heteroplasmic mitochondrial DNA mutations in normal and tumour cells.
Nature 2010 Mar 3;464(7288):610-4. Epub 2010 Mar 3.
The Ludwig Center for Cancer Genetics and Therapeutics and The Howard Hughes Medical Institute at The Johns Hopkins Kimmel Cancer Center, Baltimore, Maryland 21231, USA.

Genetic inactivation of AKT1, AKT2, and PDPK1 in human colorectal cancer cells clarifies their roles in tumor growth regulation.
Proc Natl Acad Sci U S A 2010 Feb 20;107(6):2598-603. Epub 2010 Jan 20.
The Ludwig Center for Cancer Genetics and Therapeutics and Howard Hughes Medical Institute, Johns Hopkins Kimmel Cancer Center, Baltimore, MD 21231, USA.

Development of personalized tumor biomarkers using massively parallel sequencing.
Sci Transl Med 2010 Feb;2(20):20ra14
Ludwig Center for Cancer Genetics and Therapeutics and Howard Hughes Medical Institute, Johns Hopkins Kimmel Cancer Center, Baltimore, MD 21231, USA.

Glucose deprivation contributes to the development of KRAS pathway mutations in tumor cells.
Science 2009 Sep 6;325(5947):1555-9. Epub 2009 Aug 6.
Ludwig Center for Cancer Genetics and Therapeutics and Howard Hughes Medical Institute, Johns Hopkins Kimmel Cancer Center, Baltimore, MD 21231, USA.

Sensitive digital quantification of DNA methylation in clinical samples.
Nat Biotechnol 2009 Sep 16;27(9):858-63. Epub 2009 Aug 16.
The Ludwig Center for Cancer Genetics and Therapeutics, Howard Hughes Medical Institute and Sidney Kimmel Cancer Center at the Johns Hopkins Medical Institutions, Baltimore, Maryland, USA.



Identification of microbial DNA in human cancer.
BMC Med Genomics 2009 May 8;2:22. Epub 2009 May 8.
Preston Robert Tisch Brain Tumor Center, Pediatric Brain Tumor Foundation Institute, Department of Pathology, Duke University Medical Center, Durham, North Carolina 27710, USA.



IDH1 and IDH2 mutations in gliomas.
N Engl J Med 2009 Feb;360(8):765-73
Department of Pathology, Pediatric Brain Tumor Foundation Institute, Duke University Medical Center, Durham, NC 27710, USA.




Chromatid cohesion defects may underlie chromosome instability in human colorectal cancers.
Proc Natl Acad Sci U S A 2008 Mar 25;105(9):3443-8. Epub 2008 Feb 25.
The Ludwig Center and Howard Hughes Medical Institute at the Sidney Kimmel Comprehensive Cancer Center at Johns Hopkins, Baltimore, MD 21231, USA.

Comparative lesion sequencing provides insights into tumor evolution.
Proc Natl Acad Sci U S A 2008 Mar 12;105(11):4283-8. Epub 2008 Mar 12.
The Ludwig Center for Cancer Genetics and Therapeutics, Department of Biostatistics, Howard Hughes Medical Institute, and Sidney Kimmel Cancer Center at The Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.


A multidimensional analysis of genes mutated in breast and colorectal cancers.
Genome Res 2007 Sep 10;17(9):1304-18. Epub 2007 Aug 10.
Ludwig Center for Cancer Genetics and Therapeutics, and The Howard Hughes Medical Institute at The Johns Hopkins Kimmel Cancer Center, Baltimore, Maryland 21231, USA.

Identification of STAT3 as a substrate of receptor protein tyrosine phosphatase T.
Proc Natl Acad Sci U S A 2007 Mar 21;104(10):4060-4. Epub 2007 Feb 21.
Department of Genetics and Case Comprehensive Cancer Center, Case Western Reserve University, 10900 Euclid Avenue, Cleveland, OH 44106, USA.

The genome and transcriptomes of the anti-tumor agent Clostridium novyi-NT.
Nat Biotechnol 2006 Dec 19;24(12):1573-80. Epub 2006 Nov 19.
The Howard Hughes Medical Institute, The Ludwig Center for Cancer Genetics & Therapeutics, The Sidney Kimmel Comprehensive Cancer Center, Department of Pharmacology and Molecular Sciences, Johns Hopkins Medical Institutions, Baltimore, Maryland 21231, USA.

Somatic mutations of GUCY2F, EPHA3, and NTRK3 in human cancers.
Hum Mutat 2006 Oct;27(10):1060-1
The Ludwig Center for Cancer Genetics and Therapeutics, The Howard Hughes Medical Institute, Johns Hopkins Kimmel Cancer Center, Baltimore, Maryland 21231, USA.



The colorectal microRNAome.
Proc Natl Acad Sci U S A 2006 Mar 27;103(10):3687-92. Epub 2006 Feb 27.
The Sidney Kimmel Comprehensive Cancer Center and Howard Hughes Medical Institute, Johns Hopkins University Medical Institutions, Baltimore, MD 21231, USA.

Colorectal cancer: mutations in a signalling pathway.
Nature 2005 Aug;436(7052):792
The Sidney Kimmel Comprehensive Cancer Center and The Howard Hughes Medical Institute, The Johns Hopkins University Medical Institutions, Baltimore, Maryland 21231, USA.

Mutant PIK3CA promotes cell growth and invasion of human cancer cells.
Cancer Cell 2005 Jun;7(6):561-73
The Sidney Kimmel Comprehensive Cancer Center and The Howard Hughes Medical Institute, The Johns Hopkins University Medical Institutions, Baltimore, MD 21231, USA.



Circulating tumor DNA analysis as a real-time method for monitoring tumor burden in melanoma patients undergoing treatment with immune checkpoint blockade.
J Immunother Cancer 2014 16;2(1):42. Epub 2014 Dec 16.
Department of Oncology, Johns Hopkins University School of Medicine and Sidney Kimmel Comprehensive Cancer Center, Baltimore, MD USA ; Ludwig Center for Cancer Genetics and Therapeutics and the Swim Across America Laboratory, Johns Hopkins University School of Medicine and Sidney Kimmel Comprehensive Cancer Center, Baltimore, MD USA.

Genomic and Immunological Tumor Profiling Identifies Targetable Pathways and Extensive CD8+/PDL1+ Immune Infiltration in Inflammatory Breast Cancer Tumors.
Mol Cancer Ther 2016 07 19;15(7):1746-56. Epub 2016 Apr 19.
Translational R&D Oncology Group, Quintiles, Westmont, Illinois. Department of Pharmacology, University of Illinois at Chicago, Chicago, Illinois.


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