List of works - Shawn Levy

A Molecular Genetic Basis Explaining Altered Bacterial Behavior in Space

scientific article

A cell-based systems biology assessment of human blood to monitor immune responses after influenza vaccination

scientific article

A comparison of microRNA expression profiles from splenic hemangiosarcoma, splenic nodular hyperplasia, and normal spleens of dogs

scientific article

A comprehensive evaluation of multicategory classification methods for microarray gene expression cancer diagnosis.

scientific article

A genome-scale map of expression for a mouse brain section obtained using voxelation

scientific article published on 15 May 2007

A genome-wide association analysis implicates SOX6 as a candidate gene for wrist bone mass

article

A high-throughput molecular data resource for cutaneous neurofibromas.

scientific article

A microarray analysis of temporal gene expression profiles in thermally injured human skin

scientific article published on 24 September 2009

A neurodegeneration-specific gene-expression signature of acutely isolated microglia from an amyotrophic lateral sclerosis mouse model

scientific article

A reference panel of 64,976 haplotypes for genotype imputation

scientific article

ADCK4 mutations promote steroid-resistant nephrotic syndrome through CoQ10 biosynthesis disruption

scientific article

ARHGDIA mutations cause nephrotic syndrome via defective RHO GTPase signaling

scientific article published on 8 July 2013

Advancements in Next-Generation Sequencing

scientific article published on 9 June 2016

Age and Nursing Affect the Neonatal Porcine Uterine Transcriptome.

scientific article published on 2 December 2015

Anatomical methods for voxelation of the mammalian brain

scientific article

Antiproliferative agents alter vascular plasminogen activator inhibitor-1 expression: a potential prothrombotic mechanism of drug-eluting stents

scientific article published on 7 December 2006

Candidate exome capture identifies mutation of SDCCAG8 as the cause of a retinal-renal ciliopathy

scientific article

Cell-Based Systems Biology Analysis of Human AS03-Adjuvanted H5N1 Avian Influenza Vaccine Responses: A Phase I Randomized Controlled Trial

scientific article

Chaotic mixer improves microarray hybridization

scientific article published in February 2004

Characterizing the impact of smoking and lung cancer on the airway transcriptome using RNA-Seq

scientific article

Circular RNAs are down-regulated in KRAS mutant colon cancer cells and can be transferred to exosomes.

scientific article

Complementary RNA amplification methods enhance microarray identification of transcripts expressed in the C. elegans nervous system

scientific article

De novo gene mutations highlight patterns of genetic and neural complexity in schizophrenia.

scientific article

Deep sequencing of RYR3 gene identifies rare and common variants associated with increased carotid intima-media thickness (cIMT) in HIV-infected individuals

scientific article published on 11 December 2014

Defects of CRB2 cause steroid-resistant nephrotic syndrome.

scientific article published on 31 December 2014

Differential Gene Expression Landscape of Co-Existing Cervical Pre-Cancer Lesions Using RNA-seq

scientific article

Effects of relative humidity and buffer additives on the contact printing of microarrays by quill pins

scientific article published in September 2003

Estimated number of adult survivors of childhood cancer in United States with cancer-predisposing germline variants

scientific article published on 17 November 2019

Exome Sequencing of Familial Bipolar Disorder

scientific article

Exome analysis of a family with pleiotropic congenital heart disease.

scientific article published on 15 February 2012

Exome capture reveals ZNF423 and CEP164 mutations, linking renal ciliopathies to DNA damage response signaling

scientific article

Exome sequencing and genetic testing for MODY.

scientific article

Exome sequencing in amyotrophic lateral sclerosis identifies risk genes and pathways

scientific article published on 19 February 2015

Exome sequencing supports a de novo mutational paradigm for schizophrenia.

scientific article

Experimentally derived metastasis gene expression profile predicts recurrence and death in patients with colon cancer.

scientific article

Expression and sequence analysis of the mouse adenine nucleotide translocase 1 and 2 genes.

scientific article published in August 2000

Extremely rare variants reveal patterns of germline mutation rate heterogeneity in humans

scientific article published in Nature Communications

FAN1 mutations cause karyomegalic interstitial nephritis, linking chronic kidney failure to defective DNA damage repair

scientific article

Familial diarrhea syndrome caused by an activating GUCY2C mutation

scientific article

Gene expression differences associated with human papillomavirus status in head and neck squamous cell carcinoma

scientific article

Gene expression profiles as markers of aggressive disease-EGFR as a factor

scientific article published on January 2007

Gene expression profiles identify epithelial-to-mesenchymal transition and activation of nuclear factor-kappaB signaling as characteristics of a high-risk head and neck squamous cell carcinoma

scientific article

Gene expression profiling of a mouse model of pancreatic islet dysmorphogenesis

scientific article (publication date: 2008)

Gene signature distinguishes patients with chronic ulcerative colitis harboring remote neoplastic lesions.

scientific article published on March 2013

Genetic Risk for Subsequent Neoplasms Among Long-Term Survivors of Childhood Cancer

scientific article published on 30 May 2018

Genetic heterogeneity of diffuse large B-cell lymphoma

scientific article published on 4 January 2013

Genome-wide association analyses identify SPOCK as a key novel gene underlying age at menarche

scientific article

Genome-wide association analyses suggested a novel mechanism for smoking behavior regulated by IL15

scientific article

Genome-wide association and follow-up replication studies identified ADAMTS18 and TGFBR3 as bone mass candidate genes in different ethnic groups

scientific article published on 26 February 2009

Genome-wide association and replication studies identified TRHR as an important gene for lean body mass

scientific article published on 05 March 2009

Genome-wide association scans identified CTNNBL1 as a novel gene for obesity.

scientific article

Genome-wide association study identifies 30 loci associated with bipolar disorder.

scientific article

Genome-wide association study identifies a new breast cancer susceptibility locus at 6q25.1.

scientific article published on 15 February 2009

Genome-wide association study identifies two novel loci containing FLNB and SBF2 genes underlying stature variation

scientific article

Genome-wide association study of exercise behavior in Dutch and American adults

scientific article

Genome-wide association study of more than 40,000 bipolar disorder cases provides new insights into the underlying biology

scientific article published in June 2021

Genomic Methods and Microbiological Technologies for Profiling Novel and Extreme Environments for the Extreme Microbiome Project (XMP)

scientific article

Genomic and proteomic analysis of mammary tumors arising in transgenic mice

scientific article published in November 2005

Genomics and proteomics: emerging technologies in clinical cancer research.

scientific article published on 2 October 2006

Geospatial Resolution of Human and Bacterial Diversity with City-Scale Metagenomics

scientific article

Geospatial Resolution of Human and Bacterial Diversity with City-Scale Metagenomics

article

Identification of PLCL1 gene for hip bone size variation in females in a genome-wide association study

scientific article

In search of rare variants: preliminary results from whole genome sequencing of 1,325 individuals with psychophysiological endophenotypes

scientific article

Increased epidermal growth factor receptor gene copy number is associated with poor prognosis in head and neck squamous cell carcinomas.

scientific article

Increased protein-coding mutations in the mitochondrial genome of African American women with preeclampsia

scientific article

International Standards for Genomes, Transcriptomes, and Metagenomes

scientific article published on 17 March 2017

Islet microenvironment, modulated by vascular endothelial growth factor-A signaling, promotes β cell regeneration

scientific article

KANK deficiency leads to podocyte dysfunction and nephrotic syndrome

scientific article published on 11 May 2015

KRAS-dependent sorting of miRNA to exosomes

scientific article

MITOCHIP assessment of differential gene expression in the skeletal muscle of Ant1 knockout mice: coordinate regulation of OXPHOS, antioxidant, and apoptotic genes

scientific article

Malignant transformation of colonic epithelial cells by a colon-derived long noncoding RNA.

scientific article published on 14 September 2013

Maternal germ-line transmission of mutant mtDNAs from embryonic stem cell-derived chimeric mice.

scientific article published in December 2000

Microarray Analysis of Neointima

scientific article published on 01 December 2002

Modern Methods for Delineating Metagenomic Complexity

scientific article

Multi-platform assessment of transcriptome profiling using RNA-seq in the ABRF next-generation sequencing study.

scientific article

Mutations in EMP2 cause childhood-onset nephrotic syndrome

scientific article

Mutations in the colony stimulating factor 1 receptor (CSF1R) gene cause hereditary diffuse leukoencephalopathy with spheroids

scientific article published on 25 December 2011

Next-generation genotype imputation service and methods

scientific article published on 29 August 2016

Novel rare variants in congenital cardiac arrhythmia genes are frequent in drug-induced torsades de pointes.

scientific article

Oncogenic Ras and transforming growth factor-beta synergistically regulate AU-rich element-containing mRNAs during epithelial to mesenchymal transition.

scientific article published on July 2008

Ovarian gene expression in the absence of FIGLA, an oocyte-specific transcription factor

scientific article

Patterns and rates of exonic de novo mutations in autism spectrum disorders

scientific article

Performance assessment of DNA sequencing platforms in the ABRF Next-Generation Sequencing Study

scientific article published on 09 September 2021

Polymorphisms in IL-1beta, vitamin D receptor Fok1, and Toll-like receptor 2 are associated with extrapulmonary tuberculosis

scientific article

Powerful bivariate genome-wide association analyses suggest the SOX6 gene influencing both obesity and osteoporosis phenotypes in males

scientific journal article

Profiling genes related to mitochondrial function in mice treated with N-methyl-4-phenyl-1,2,3,6-tetrahydropyridine

scientific article published in August 2003

Progressive increase in mtDNA 3243A>G heteroplasmy causes abrupt transcriptional reprogramming

scientific article

Shotgun transcriptome, spatial omics, and isothermal profiling of SARS-CoV-2 infection reveals unique host responses, viral diversification, and drug interactions

scientific article published on 12 March 2021

Single-cell sperm transcriptomes and variants from fathers of children with and without autism spectrum disorder

scientific article published on 21 February 2020

Strong association of de novo copy number mutations with sporadic schizophrenia

scientific article

Systemic Tissue and Cellular Disruption from SARS-CoV-2 Infection revealed in COVID-19 Autopsies and Spatial Omics Tissue Maps

scientific article published on 9 March 2021

Targeted next-generation sequencing reveals MODY in up to 6.5% of antibody-negative diabetes cases listed in the Norwegian Childhood Diabetes Registry

scientific article published on 2 December 2016

The ADP/ATP translocator is not essential for the mitochondrial permeability transition pore

scientific article (publication date: 29 January 2004)

The Genetic Basis of Hepatosplenic T-cell Lymphoma.

scientific article published on 25 January 2017

The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements

scientific article

The genetic landscape of mutations in Burkitt lymphoma

scientific article

The genomic landscape of mantle cell lymphoma is related to the epigenetically determined chromatin state of normal B cells

scientific article

The mammalian LINC complex regulates genome transcriptional responses to substrate rigidity

scientific article published on December 2016

The pan-ErbB negative regulator Lrig1 is an intestinal stem cell marker that functions as a tumor suppressor

scientific article

The use of next generation sequencing technology to study the effect of radiation therapy on mitochondrial DNA mutation

scientific article

Transcriptional recapitulation and subversion of embryonic colon development by mouse colon tumor models and human colon cancer

scientific article published on January 2007

Transfer of chloramphenicol-resistant mitochondrial DNA into the chimeric mouse

scientific article

Vascular endothelial growth factor coordinates islet innervation via vascular scaffolding

scientific article

Whole genome distribution and ethnic differentiation of copy number variation in Caucasian and Asian populations

scientific article

Whole-exome resequencing distinguishes cystic kidney diseases from phenocopies in renal ciliopathies

scientific article

ZMYND10 is mutated in primary ciliary dyskinesia and interacts with LRRC6

scientific article

List of works by Shawn Levy

A Molecular Genetic Basis Explaining Altered Bacterial Behavior in Space

A cell-based systems biology assessment of human blood to monitor immune responses after influenza vaccination

A comparison of microRNA expression profiles from splenic hemangiosarcoma, splenic nodular hyperplasia, and normal spleens of dogs

A comprehensive evaluation of multicategory classification methods for microarray gene expression cancer diagnosis.

A genome-scale map of expression for a mouse brain section obtained using voxelation

A genome-wide association analysis implicates SOX6 as a candidate gene for wrist bone mass

A high-throughput molecular data resource for cutaneous neurofibromas.

A microarray analysis of temporal gene expression profiles in thermally injured human skin

A neurodegeneration-specific gene-expression signature of acutely isolated microglia from an amyotrophic lateral sclerosis mouse model

A reference panel of 64,976 haplotypes for genotype imputation

ADCK4 mutations promote steroid-resistant nephrotic syndrome through CoQ10 biosynthesis disruption

ARHGDIA mutations cause nephrotic syndrome via defective RHO GTPase signaling

Advancements in Next-Generation Sequencing

Age and Nursing Affect the Neonatal Porcine Uterine Transcriptome.

Anatomical methods for voxelation of the mammalian brain

Antiproliferative agents alter vascular plasminogen activator inhibitor-1 expression: a potential prothrombotic mechanism of drug-eluting stents

Candidate exome capture identifies mutation of SDCCAG8 as the cause of a retinal-renal ciliopathy

Cell-Based Systems Biology Analysis of Human AS03-Adjuvanted H5N1 Avian Influenza Vaccine Responses: A Phase I Randomized Controlled Trial

Chaotic mixer improves microarray hybridization

Characterizing the impact of smoking and lung cancer on the airway transcriptome using RNA-Seq

Circular RNAs are down-regulated in KRAS mutant colon cancer cells and can be transferred to exosomes.

Complementary RNA amplification methods enhance microarray identification of transcripts expressed in the C. elegans nervous system

De novo gene mutations highlight patterns of genetic and neural complexity in schizophrenia.

Deep sequencing of RYR3 gene identifies rare and common variants associated with increased carotid intima-media thickness (cIMT) in HIV-infected individuals

Defects of CRB2 cause steroid-resistant nephrotic syndrome.

Differential Gene Expression Landscape of Co-Existing Cervical Pre-Cancer Lesions Using RNA-seq

Effects of relative humidity and buffer additives on the contact printing of microarrays by quill pins

Estimated number of adult survivors of childhood cancer in United States with cancer-predisposing germline variants

Exome Sequencing of Familial Bipolar Disorder

Exome analysis of a family with pleiotropic congenital heart disease.

Exome capture reveals ZNF423 and CEP164 mutations, linking renal ciliopathies to DNA damage response signaling

Exome sequencing and genetic testing for MODY.

Exome sequencing in amyotrophic lateral sclerosis identifies risk genes and pathways

Exome sequencing supports a de novo mutational paradigm for schizophrenia.

Experimentally derived metastasis gene expression profile predicts recurrence and death in patients with colon cancer.

Expression and sequence analysis of the mouse adenine nucleotide translocase 1 and 2 genes.

Extremely rare variants reveal patterns of germline mutation rate heterogeneity in humans

FAN1 mutations cause karyomegalic interstitial nephritis, linking chronic kidney failure to defective DNA damage repair

Familial diarrhea syndrome caused by an activating GUCY2C mutation

Gene expression differences associated with human papillomavirus status in head and neck squamous cell carcinoma

Gene expression profiles as markers of aggressive disease-EGFR as a factor

Gene expression profiles identify epithelial-to-mesenchymal transition and activation of nuclear factor-kappaB signaling as characteristics of a high-risk head and neck squamous cell carcinoma

Gene expression profiling of a mouse model of pancreatic islet dysmorphogenesis

Gene signature distinguishes patients with chronic ulcerative colitis harboring remote neoplastic lesions.

Genetic Risk for Subsequent Neoplasms Among Long-Term Survivors of Childhood Cancer

Genetic heterogeneity of diffuse large B-cell lymphoma

Genome-wide association analyses identify SPOCK as a key novel gene underlying age at menarche

Genome-wide association analyses suggested a novel mechanism for smoking behavior regulated by IL15

Genome-wide association and follow-up replication studies identified ADAMTS18 and TGFBR3 as bone mass candidate genes in different ethnic groups

Genome-wide association and replication studies identified TRHR as an important gene for lean body mass

Genome-wide association scans identified CTNNBL1 as a novel gene for obesity.

Genome-wide association study identifies 30 loci associated with bipolar disorder.

Genome-wide association study identifies a new breast cancer susceptibility locus at 6q25.1.

Genome-wide association study identifies two novel loci containing FLNB and SBF2 genes underlying stature variation

Genome-wide association study of exercise behavior in Dutch and American adults

Genome-wide association study of more than 40,000 bipolar disorder cases provides new insights into the underlying biology

Genomic Methods and Microbiological Technologies for Profiling Novel and Extreme Environments for the Extreme Microbiome Project (XMP)

Genomic and proteomic analysis of mammary tumors arising in transgenic mice

Genomics and proteomics: emerging technologies in clinical cancer research.

Geospatial Resolution of Human and Bacterial Diversity with City-Scale Metagenomics

Geospatial Resolution of Human and Bacterial Diversity with City-Scale Metagenomics

Identification of PLCL1 gene for hip bone size variation in females in a genome-wide association study

In search of rare variants: preliminary results from whole genome sequencing of 1,325 individuals with psychophysiological endophenotypes

Increased epidermal growth factor receptor gene copy number is associated with poor prognosis in head and neck squamous cell carcinomas.

Increased protein-coding mutations in the mitochondrial genome of African American women with preeclampsia

International Standards for Genomes, Transcriptomes, and Metagenomes

Islet microenvironment, modulated by vascular endothelial growth factor-A signaling, promotes β cell regeneration

KANK deficiency leads to podocyte dysfunction and nephrotic syndrome

KRAS-dependent sorting of miRNA to exosomes

MITOCHIP assessment of differential gene expression in the skeletal muscle of Ant1 knockout mice: coordinate regulation of OXPHOS, antioxidant, and apoptotic genes

Malignant transformation of colonic epithelial cells by a colon-derived long noncoding RNA.

Maternal germ-line transmission of mutant mtDNAs from embryonic stem cell-derived chimeric mice.

Microarray Analysis of Neointima

Modern Methods for Delineating Metagenomic Complexity

Multi-platform assessment of transcriptome profiling using RNA-seq in the ABRF next-generation sequencing study.

Mutations in EMP2 cause childhood-onset nephrotic syndrome

Mutations in the colony stimulating factor 1 receptor (CSF1R) gene cause hereditary diffuse leukoencephalopathy with spheroids

Next-generation genotype imputation service and methods

Novel rare variants in congenital cardiac arrhythmia genes are frequent in drug-induced torsades de pointes.