S. Davis

发表

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

William Stafford Noble, Nancy R. Zhang, Stephen C. J. Parker, 2007, Nature.

High-Resolution Mapping and Characterization of Open Chromatin across the Genome

Z. Weng, T. Furey, E. H. Margulies, 2008, Cell.

BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis

Bart De Moor, Yves Moreau, Steffen Durinck, 2005, Bioinform..

Database of mRNA gene expression profiles of multiple human organs.

J. Khan, Jun S. Wei, S. Davis, 2005, Genome research.

GEOquery: a bridge between the Gene Expression Omnibus (GEO) and BioConductor

Sean R. Davis, Paul S. Meltzer, P. Meltzer, 2007, Bioinform..

The exomes of the NCI-60 panel: a genomic resource for cancer biology and systems pharmacology.

P. Meltzer, W. Reinhold, Y. Pommier, 2013, Cancer research.

NCBI GEO: archive for functional genomics data sets—update

Sean R. Davis, Tanya Barrett, Michelle Holko, 2012, Nucleic Acids Res..

A Molecular Function Map of Ewing's Sarcoma

P. Meltzer, S. Davis, R. Kofler, 2009, PloS one.

DNase-chip: a high-resolution method to identify DNase I hypersensitive sites using tiled microarrays

T. Wolfsberg, F. Collins, P. Meltzer, 2006, Nature Methods.

TNF-α modulates genome-wide redistribution of ΔNp63α/TAp73 and NF-κB c-REL interactive binding on TP53 and AP-1 motifs to promote an oncogenic gene program in squamous cancer

Joshua M. Stuart, P. Meltzer, W. Xiao, 2016, Oncogene.

Gene expression profiling of human sarcomas: insights into sarcoma biology.

P. Meltzer, A. Glatfelter, C. Antonescu, 2005, Cancer research.

Genome-wide depletion of replication initiation events in highly transcribed regions.

William C Reinhold, Sven Bilke, Mirit I Aladjem, 2011, Genome research.

Rare Structural Variants Disrupt Multiple Genes in Neurodevelopmental Pathways in Schizophrenia

A. Singleton, C. Baker, E. Eichler, 2008, Science.

Exome sequencing identifies GRIN2A as frequently mutated in melanoma

S. Davis, Jimmy Lin, Xiaomu Wei, 2011, Nature Genetics.

Genome-wide mapping of DNase hypersensitive sites using massively parallel signature sequencing (MPSS).

M. Daly, E. H. Margulies, T. Wolfsberg, 2005, Genome research.

Genome-wide methylation patterns in papillary thyroid cancer are distinct based on histological subtype and tumor genotype.

P. Meltzer, S. Davis, Yonghong Wang, 2014, The Journal of clinical endocrinology and metabolism.

From Patient Engagement to Precision Oncology: Leveraging Informatics to Advance Cancer Care

Umit Topaloglu, Arlene E. Chung, Sean Davis, 2020, Yearbook of Medical Informatics.

Synthetic lethality between CCNE1 amplification and loss of BRCA1

W. Hahn, B. Weir, D. Etemadmoghadam, 2013, Proceedings of the National Academy of Sciences.

Interferon-γ links ultraviolet radiation to melanomagenesis in mice.

Sean Davis, Elaine Fuchs, Glenn Merlino, 2011, Nature.

Assessment of Automated Image Analysis of Breast Cancer Tissue Microarrays for Epidemiologic Studies

Sean Davis, Jonine D Figueroa, Paul D P Pharoah, 2010, Cancer Epidemiology, Biomarkers & Prevention.

The breast lumps that aren't cancer.

S. Davis, 1983, RN.

Oncogenic ETS fusions deregulate E2F3 target genes in Ewing sarcoma and prostate cancer

P. Meltzer, S. Davis, S. Bilke, 2013, Genome research.

Large-scale profiling of archival lymph nodes reveals pervasive remodeling of the follicular lymphoma methylome.

P. Meltzer, E. Jaffe, J. Hipp, 2009, Cancer research.

Vorinostat Inhibits Brain Metastatic Colonization in a Model of Triple-Negative Breast Cancer and Induces DNA Double-Strand Breaks

P. Meltzer, S. Steinberg, K. Camphausen, 2009, Clinical Cancer Research.

Rb1 loss modifies but does not initiate alveolar rhabdomyosarcoma

Noah E. Berlow, Matthew N. Svalina, P. Meltzer, 2013, Skeletal Muscle.

Archival fine-needle aspiration cytopathology (FNAC) samples: untapped resource for clinical molecular profiling.

P. Meltzer, G. Giaccone, S. Davis, 2010, The Journal of molecular diagnostics : JMD.

RARRES2 functions as a tumor suppressor by promoting β-catenin phosphorylation/degradation and inhibiting p38 phosphorylation in adrenocortical carcinoma

S. Davis, M. Merino, E. Kebebew, 2016, Oncogene.

Whole-genome sequencing identifies a recurrent functional synonymous mutation in melanoma

Stephen C. J. Parker, Valer Gotea, Hannah Carter, 2013, Proceedings of the National Academy of Sciences.

Cancer Therapy : Preclinical Vorinostat Inhibits Brain Metastatic Colonization in a Model of Triple-Negative Breast Cancer and Induces DNA Double-Strand Breaks

P. Meltzer, S. Steinberg, K. Camphausen, 2009 .

Epigenomic alterations and gene expression profiles in respiratory epithelia exposed to cigarette smoke condensate

S. Davis, R. Walker, M. Zhang, 2010, Oncogene.

Modeling synovial sarcoma: timing is everything.

P. Meltzer, S. Davis, 2007, Cancer cell.

Kinetic complexity of the global response to glucocorticoid receptor action.

P. Meltzer, S. Davis, R. Walker, 2009, Endocrinology.

A Polymorphism in IRF4 Affects Human Pigmentation through a Tyrosinase-Dependent MITF/TFAP2A Pathway

Theresa Guo, Paul S. Meltzer, Kari Stefansson, 2013, Cell.

Melanoblast transcriptome analysis reveals pathways promoting melanoma metastasis

P. Meltzer, S. Davis, Howard H. Yang, 2020, Nature Communications.

Melanoblast transcriptome analysis reveals novel pathways promoting melanoma metastasis

P. Meltzer, S. Davis, Howard H. Yang, 2019, bioRxiv.

NCI-60 Whole Exome Sequencing and Pharmacological CellMiner Analyses

P. Meltzer, K. Kohn, W. Reinhold, 2014, PloS one.

Interaction of the Glucocorticoid Receptor with the Chromatin Landscape

J. Stamatoyannopoulos, P. Meltzer, S. Davis, 2008, Molecular cell.

Exclusion of the 750‐kb genetically unstable region at Xq27 as a candidate locus for prostate malignancy in HPCX1‐linked families

P. Meltzer, W. Reinhold, S. Davis, 2012, Genes, chromosomes & cancer.

ASXL3 Is a Novel Pluripotency Factor in Human Respiratory Epithelial Cells and a Potential Therapeutic Target in Small Cell Lung Cancer.

S. Davis, Yonghong Wang, T. Ried, 2017, Cancer research.

RCircos: an R package for Circos 2D track plots

Hongen Zhang, Sean R. Davis, Paul S. Meltzer, 2013, BMC Bioinformatics.

Chromothripsis and focal copy number alterations determine poor outcome in malignant melanoma.

Sean Davis, Thomas Ried, Jordi Camps, 2013, Cancer research.

High prevalence of MAP2K1 mutations in variant and IGHV4-34 expressing hairy-cell leukemia

Paul S. Meltzer, Laura Roth, Joshua J. Waterfall, 2013, Nature Genetics.

Pan-cancer genome and transcriptome analyses of 1,699 pediatric leukemias and solid tumors

Xin Zhou, Charles Gawad, Li Dong, 2018, Nature.

caOmicsV: an R package for visualizing multidimensional cancer genomic data

P. Meltzer, S. Davis, Hongen Zhang, 2016, BMC Bioinformatics.

Genome-Wide Analysis of Menin Binding Provides Insights into MEN1 Tumorigenesis

Sean Davis, Francis S Collins, Peter C Scacheri, 2006, PLoS genetics.

Detection of Novel Amplicons in Prostate Cancer by Comprehensive Genomic Profiling of Prostate Cancer Cell Lines Using Oligonucleotide-Based ArrayCGH

P. Meltzer, S. Davis, B. Wullich, 2007, PloS one.

Point Mutations in Exon 1B of APC Reveal Gastric Adenocarcinoma and Proximal Polyposis of the Stomach as a Familial Adenomatous Polyposis Variant.

P. Meltzer, L. Coin, S. Davis, 2016, American journal of human genetics.

CHEK2 genomic and proteomic analyses reveal genetic inactivation or endogenous activation across the 60 cell lines of the US National Cancer Institute

P. Meltzer, W. Reinhold, Y. Pommier, 2012, Oncogene.

Identification of an inhibitor of the EWS-FLI1 oncogenic transcription factor by high-throughput screening.

Qing-Rong Chen, Sean Davis, Javed Khan, 2011, Journal of the National Cancer Institute.

Interferon-γ links UV to melanocyte activation and promotes melanomagenesis

P. Meltzer, S. Davis, E. Fuchs, 2010, Nature.

Analysis of the matrix metalloproteinase family reveals that MMP8 is often mutated in melanoma

Chenwei Wang, S. Davis, A. Weeraratna, 2009, Nature Genetics.

Suppressor role of activating transcription factor 2 (ATF2) in skin cancer

P. Meltzer, S. Davis, N. Jones, 2008, Proceedings of the National Academy of Sciences.

Dual inhibition of HDAC and EGFR signaling with CUDC-101 induces potent suppression of tumor growth and metastasis in anaplastic thyroid cancer

S. Davis, R. Smallridge, Zhuyin Li, 2015, Oncotarget.

A methyl-deviator epigenotype of estrogen receptor-positive breast carcinoma is associated with malignant biology.

P. Meltzer, Jian-Bing Fan, S. Davis, 2011, The American journal of pathology.

Whole Genome and Transcriptome Sequencing of a B3 Thymoma

Yi-Song Wang, G. Giaccone, S. Davis, 2013, PloS one.

Lineage of origin in rhabdomyosarcoma informs pharmacological response

P. Meltzer, M. Capecchi, S. Davis, 2014, Genes & development.

Statistics for ChIP-chip and DNase hypersensitivity experiments on NimbleGen arrays.

Sean Davis, Peter C Scacheri, Gregory E Crawford, 2006, Methods in enzymology.

Canine tumor cross-species genomics uncovers targets linked to osteosarcoma progression

P. Meltzer, S. Davis, T. Triche, 2009, BMC Genomics.

Characterization of Genomic Alterations in Radiation-Associated Breast Cancer among Childhood Cancer Survivors, Using Comparative Genomic Hybridization (CGH) Arrays

P. Meltzer, S. Davis, Yonghong Wang, 2015, PloS one.

A Genome-Wide Scan Identifies Variants in NFIB Associated with Metastasis in Patients with Osteosarcoma.

David M. Thomas, Dina Halai, Sean Davis, 2015, Cancer discovery.

Integrated analysis of DNA methylation, immunohistochemistry and mRNA expression, data identifies a methylation expression index (MEI) robustly associated with survival of ER-positive breast cancer patients

P. Meltzer, M. García-Closas, S. Davis, 2015, Breast Cancer Research and Treatment.

Inhibition of Survivin with YM155 Induces Durable Tumor Response in Anaplastic Thyroid Cancer

S. Davis, Zhuyin Li, M. Shen, 2015, Clinical Cancer Research.

Advanced Bone Formation in Mice with a Dominant-negative Mutation in the Thyroid Hormone Receptor β Gene due to Activation of Wnt/β-Catenin Protein Signaling*

P. Meltzer, S. Davis, R. Walker, 2012, The Journal of Biological Chemistry.

Zoom-in comparative genomic hybridisation arrays for the characterisation of variable breakpoint contiguous gene syndromes

J. Ellison, P. Meltzer, S. Davis, 2006, Journal of Medical Genetics.

Comparative exome sequencing of metastatic lesions provides insights into the mutational progression of melanoma

Jamie K Teer, Sean Davis, Xiaomu Wei, 2012, BMC Genomics.

miR30a inhibits LOX expression and anaplastic thyroid cancer progression.

S. Davis, R. Smallridge, E. Kebebew, 2015, Cancer research.

Inhibition of survivin with YM 155 induces durable tumor response in anaplastic thyroid cancer

S. Davis, Zhuyin Li, M. Shen, 2015 .

Genetic Control of the Murine Cell‐Mediated Immune Response In Vivo

S. Davis, 1975, Scandinavian journal of immunology.

Evidence for an unanticipated relationship between undifferentiated pleomorphic sarcoma and embryonal rhabdomyosarcoma.

Benjamin R Arenkiel, Ranadip Pal, Qing-Rong Chen, 2011, Cancer cell.

Molecular Grading of Ductal Carcinoma In situ of the Breast

Sean Davis, Rosemary L Balleine, Paul S Meltzer, 2008, Clinical Cancer Research.

Prohibitin expression is associated with high grade breast cancer but is not a driver of amplification at 17q21.33

P. Meltzer, K. Byth, S. Davis, 2013, Pathology.

Harnessing genomics to identify environmental determinants of heritable disease.

M. Hurles, J. Lupski, P. Awadalla, 2013, Mutation research.

Whole Genome Sequencing of Newly Established Pancreatic Cancer Lines Identifies Novel Somatic Mutation (c.2587G>A) in Axon Guidance Receptor Plexin A1 as Enhancer of Proliferation and Invasion

P. Meltzer, S. Davis, M. Pineda, 2016, PloS one.

SRAdb: query and use public next-generation sequencing data from within R

Sean R. Davis, Paul S. Meltzer, Robert M. Stephens, 2013, BMC Bioinformatics.

Autoreactive T Cells and Chronic Fungal Infection Drive Esophageal Carcinogenesis.

S. Davis, Q. Zhan, Yongmei Song, 2017, Cell host & microbe.

Public data and open source tools for multi-assay genomic investigation of disease

Aedín C. Culhane, David Gomez-Cabrero, Zhaleh Safikhani, 2015, Briefings Bioinform..

TRAIL induces apoptosis in triple-negative breast cancer cells with a mesenchymal phenotype

P. Meltzer, S. Davis, J. Pumphrey, 2008, Breast Cancer Research and Treatment.

Upregulation of IFN-Inducible and Damage-Response Pathways in Chronic Graft-versus-Host Disease

S. Davis, W. Telford, D. Stroncek, 2016, The Journal of Immunology.

Genome-wide methylation profiling in archival formalin-fixed paraffin-embedded tissue samples.

P. Meltzer, Yidong Chen, S. Davis, 2012, Methods in molecular biology.

Preferential Localization of Human Origins of DNA Replication at the 5′-Ends of Expressed Genes and at Evolutionarily Conserved DNA Sequences

Mirit I. Aladjem, Sean Davis, Paul S. Meltzer, 2011, PloS one.

Antagonistic Cross-Regulation between Sox9 and Sox10 Controls an Anti-tumorigenic Program in Melanoma

P. Meltzer, S. Davis, H. Moch, 2015, PLoS genetics.

In Vivo Role of Alternative Splicing and Serine Phosphorylation of the Microphthalmia-Associated Transcription Factor

P. Meltzer, S. Davis, D. Maric, 2012, Genetics.

Constitutive Fms‐like tyrosine kinase 3 activation results in specific changes in gene expression in myeloid leukaemic cells

P. Meltzer, S. Davis, M. Levis, 2007, British journal of haematology.

massively parallel signature sequencing (MPSS) Genome-wide mapping of DNase hypersensitive sites using

M. Daly, T. Wolfsberg, S. Luo, 2006 .

Ewing's sarcoma: general insights from a rare model.

P. Meltzer, S. Davis, 2006, Cancer cell.

Melanoblast transcriptome analysis reveals pathways promoting melanoma metastasis

P. Meltzer, S. Davis, Howard H. Yang, 2020, Nature Communications.

Minimal-trauma fracture in women with breast cancer surviving for at least 5 years from diagnosis

S. Davis, S. Davis, P. Fradkin, 2015, Osteoporosis International.

Intended follow up of women with breast cancer at low risk of recurrence and at least 5 years from diagnosis

S. Davis, S. Davis, P. Fradkin, 2014, Internal medicine journal.

Abstract 4193: TNF-α dynamically modulates genome-wide cross-regulation of cRel, ΔNp63 and TAp73 promoter binding and gene expression in head and neck cancer: TP53 and NFκB ChIP-Seq in HNSCC

P. Meltzer, W. Xiao, S. Davis, 2012 .

Analyses of Resected Human Brain Metastases of Breast Cancer Reveal the Association between Up-Regulation of Hexokinase 2 and Poor Prognosis

Sean Davis, Seth M Steinberg, Paul S Meltzer, 2009, Molecular Cancer Research.

An Introduction to the methylumi package

S. Davis, S. Bilke, 2016 .

Downregulation of IGFBP2 is associated with resistance to IGF1R therapy in rhabdomyosarcoma

P. Meltzer, S. Davis, R. Walker, 2014, Oncogene.

High frequencies of leukemia stem cells in poor-outcome childhood precursor-B acute lymphoblastic leukemias

P. Meltzer, S. Davis, R. Walker, 2010, Leukemia.

Interferon-γ links UV to melanocyte activation and promotes melanomagenesis

P. Meltzer, S. Davis, E. Fuchs, 2010, Nature.

COMPLETE GENOME SEQUENCING OF A HUMAN B3 THYMOMA

Yi-Song Wang, G. Giaccone, S. Davis, 2011 .

Rb1 loss modifies but does not initiate alveolar rhabdomyosarcoma

Noah E. Berlow, Matthew N. Svalina, P. Meltzer, 2013, Skeletal Muscle.

Age-Modulated Immuno-Metabolic Proteome Profiles of Deceased Donor Kidneys Predict 12-Month Posttransplant Outcome

S. Davis, B. Kessler, I. Vendrell, 2023, medRxiv.

CHEK2 genomic and proteomic analyses reveal genetic inactivation or endogenous activation across the 60 cell lines of the US National Cancer Institute

P. Meltzer, W. Reinhold, Y. Pommier, 2012, Oncogene.

SRAdb: query and use public next-generation sequencing data from within R

P. Meltzer, R. Stephens, S. Davis, 2013, BMC Bioinformatics.

GEOmetadb: powerful alternative search engine for the Gene Expression Omnibus

Yidong Chen, Sean R. Davis, Paul S. Meltzer, 2008, Bioinform..

BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis

B. Moor, S. Durinck, A. Brazma, 2005, Bioinform..

BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis

B. Moor, S. Durinck, A. Brazma, 2005 .

Ten simple rules for large-scale data processing

Alexandra J. Lee, Jaclyn N. Taroni, S. Davis, 2022, PLoS Comput. Biol..

The exomes of the NCI-60 panel: a genomic resource for cancer biology and systems pharmacology.

P. Meltzer, W. Reinhold, Y. Pommier, 2013, Cancer research.

Rare Structural Variants Disrupt Multiple Genes in Neurodevelopmental Pathways in Schizophrenia

A. Singleton, E. Eichler, J. Sebat, 2008, Science.

Exclusion of the 750‐kb genetically unstable region at Xq27 as a candidate locus for prostate malignancy in HPCX1‐linked families

P. Meltzer, W. Reinhold, S. Davis, 2012, Genes, chromosomes & cancer.

Dual inhibition of HDAC and EGFR signaling with CUDC-101 induces potent suppression of tumor growth and metastasis in anaplastic thyroid cancer

S. Davis, R. Smallridge, Zhuyin Li, 2015, OncoTarget.

Genome-wide methylation patterns in papillary thyroid cancer are distinct based on histological subtype and tumor genotype.

P. Meltzer, S. Davis, Yonghong Wang, 2014, The Journal of clinical endocrinology and metabolism.

Abstract 4856: Using embryonic melanoblast transcriptome analysis to identify novel mechanisms promoting metastatic melanoma

P. Meltzer, S. Davis, G. Merlino, 2012 .

Archival fine-needle aspiration cytopathology (FNAC) samples: untapped resource for clinical molecular profiling.

P. Meltzer, G. Giaccone, S. Davis, 2010, Journal of Molecular Diagnostics.

A methyl-deviator epigenotype of estrogen receptor-positive breast carcinoma is associated with malignant biology.

P. Meltzer, S. Davis, S. Bilke, 2011, The American journal of pathology.