Daniel J. Park

发表

Genome sequencing reveals Zika virus diversity and spread in the Americas

Karthik Gangavarapu, Hayden C. Metsky, Catherine A. Freije, 2017, bioRxiv.

Ebola Virus Epidemiology, Transmission, and Evolution during Seven Months in Sierra Leone

Trevor Bedford, Pardis C. Sabeti, Christopher Tomkins-Tinch, 2015, Cell.

Identifying Recent Adaptations in Large-Scale Genomic Data

Eric S. Lander, Pardis C. Sabeti, Ilya Shlyakhter, 2013, Cell.

Benchmarking Metagenomics Tools for Taxonomic Classification

Pardis C. Sabeti, Pardis C Sabeti, D. Park, 2019, Cell.

Filovirus RefSeq Entries: Evaluation and Selection of Filovirus Type Variants, Type Sequences, and Names

Jens H. Kuhn, Ralf G. Dietzgen, J. Rodney Brister, 2014, Viruses.

Genomic analysis of Lassa virus from the 2018 surge in Nigeria

Catherine A. Freije, Pardis C. Sabeti, Stephen F. Schaffner, 2018, The New England journal of medicine.

Monitoring of Ebola Virus Makona Evolution through Establishment of Advanced Genomic Capability in Liberia

Pardis C. Sabeti, Joseph W. Diclaro, Jens H. Kuhn, 2015, Emerging infectious diseases.

Ebola Virus Epidemiology and Evolution in Nigeria

Pardis C. Sabeti, Christopher Tomkins-Tinch, Christian B. Matranga, 2016, The Journal of infectious diseases.

Inferring Viral Transmission Pathways from Within-Host Variation

P. Varilly, P. Sabeti, Daniel J. Park, 2023, medRxiv.

Outbreak of SARS-CoV-2 Infections, Including COVID-19 Vaccine Breakthrough Infections, Associated with Large Public Gatherings — Barnstable County, Massachusetts, July 2021

Catherine M. Brown, Molly Dunn, D. Park, 2021, MMWR. Morbidity and mortality weekly report.

Evolution and Spread of Ebola Virus in Liberia, 2014-2015.

Pardis C Sabeti, Merle L. Gilbert, Jeffrey R. Kugelman, 2015, Cell host & microbe.

Accelerating bioinformatics implementation in public health

Sage M. Wright, J. Sevinsky, D. Park, 2023, Microbial genomics.

Harnessing genomics and genome biology to understand malaria biology

S. Schaffner, D. Wirth, S. Volkman, 2012, Nature Reviews Genetics.

Application of genomics to field investigations of malaria by the international centers of excellence for malaria research.

D. Hartl, D. Ndiaye, D. Wirth, 2012, Acta tropica.

Identification and Functional Validation of the Novel Antimalarial Resistance Locus PF10_0355 in Plasmodium falciparum

Daniel L. K. Yamins, Pardis C Sabeti, H. Kang, 2011, PLoS genetics.

Use of high-density tiling microarrays to identify mutations globally and elucidate mechanisms of drug resistance in Plasmodium falciparum

Serge Batalov, Yingyao Zhou, Yingyao Zhou, 2009, Genome Biology.

Identification the in

Pardis C Sabeti, Wiegand, B. Birren, 2011 .

Genome-wide SNP genotyping highlights the role of natural selection in Plasmodium falciparum population divergence

Philip Montgomery, David Rosen, Eric S Lander, 2008, Genome Biology.

Powassan Virus Neuropathology and Genomic Diversity in Patients With Fatal Encephalitis

Pardis C Sabeti, D. Park, I. Solomon, 2020, Open forum infectious diseases.

A global transcriptional analysis of Plasmodium falciparum malaria reveals a novel family of telomere-associated lncRNAs

Kate M Broadbent, Ulf Ribacke, John L Rinn, 2011, Genome Biology.

Combining genomics and epidemiology to track mumps virus transmission in the United States

Hayden C. Metsky, Yonatan H Grad, Hayden C Metsky, 2020, PLoS biology.

Co-circulating mumps lineages at multiple geographic scales

Hayden C. Metsky, Pardis C Sabeti, S. Schaffner, 2018, bioRxiv.

Genomic epidemiology reveals multiple introductions of Zika virus into the United States

Hayden C. Metsky, A. L. Tan, Pardis C Sabeti, 2017, Nature.

Virus genomes reveal factors that spread and sustained the Ebola epidemic

Rachel S. G. Sealfon, Pardis C Sabeti, Merle L. Gilbert, 2017, Nature.

Multiple introductions of Zika virus into the United States revealed through genomic epidemiology

Hayden C. Metsky, A. L. Tan, Pardis C Sabeti, 2017, bioRxiv.

Virus genomes reveal the factors that spread and sustained the West African Ebola epidemic

Rachel S. G. Sealfon, Pardis C Sabeti, Nuno R. Faria, 2016, bioRxiv.

Genomic surveillance elucidates Ebola virus origin and transmission during the 2014 outbreak

Rachel S. G. Sealfon, Pardis C Sabeti, Donald S. Grant, 2014, Science.

Use of a Phage-Based Assay for Phenotypic Detection of Mycobacteria Directly from Sputum

F. Drobniewski, S. Wilson, Daniel J. Park, 2003, Journal of Clinical Microbiology.

Development of an amplicon-based sequencing approach in response to the global emergence of mpox

P. Hemarajata, J. Sevinsky, D. Park, 2023, PLoS biology.

Development of an amplicon-based sequencing approach in response to the global emergence of human monkeypox virus

D. Sobral, P. Hemarajata, J. Sevinsky, 2022, medRxiv.

Malaria life cycle intensifies both natural selection and random genetic drift

Pardis C Sabeti, D. Hartl, D. Ndiaye, 2013, Proceedings of the National Academy of Sciences of the United States of America.

Multiplexed CRISPR-based microfluidic platform for clinical testing of respiratory viruses and identification of SARS-CoV-2 variants

Pardis C Sabeti, Cheri M Ackerman, Sri Gowtham Thakku, 2022, Nature Medicine.

Clinical illness and outcomes in patients with Ebola in Sierra Leone.

Rachel S. G. Sealfon, Pardis C Sabeti, Donald S. Grant, 2014, The New England journal of medicine.

Population genomic sequencing of Coccidioides fungi reveals recent hybridization and transposon control.

Daniel Bessette, Jason E Stajich, Qiandong Zeng, 2010, Genome research.

Sequence-based association and selection scans identify drug resistance loci in the Plasmodium falciparum malaria parasite

Pardis C Sabeti, S. Schaffner, D. Hartl, 2012, Proceedings of the National Academy of Sciences.

Genetic Diversity and Protective Efficacy of the RTS,S/AS01 Malaria Vaccine.

Trevor Bedford, Kevin Marsh, Elizabeth M. Ryan, 2015, The New England journal of medicine.

Analysis of pfhrp2 genetic diversity in Senegal and implications for use of rapid diagnostic tests

O. Sarr, O. Ndir, D. Ndiaye, 2014, Malaria Journal.

DNA spike-ins enable confident interpretation of SARS-CoV-2 genomic data from amplicon-based sequencing

P. Sabeti, Steven K. Reilly, D. Park, 2021, bioRxiv.

Evaluation of the Potential Impact of Ebola Virus Genomic Drift on the Efficacy of Sequence-Based Candidate Therapeutics

Rachel S. G. Sealfon, Pardis C Sabeti, Jeffrey R. Kugelman, 2015, mBio.

recent hybridization and transposon control fungi reveals Coccidioides Population genomic sequencing of Material

David I Heiman, Q. Zeng, B. Birren, 2010 .

Human cerebral malaria and Plasmodium falciparum genotypes in Malawi

Pardis C Sabeti, S. Schaffner, M. Molyneux, 2012, Malaria Journal.

SNP Genotyping Defines Complex Gene-Flow Boundaries Among African Malaria Vector Mosquitoes

F. C. Kafatos, E. Lander, D. Wirth, 2010, Science.

Analysis of 6.4 million SARS-CoV-2 genomes identifies mutations associated with fitness

Pardis C Sabeti, S. Schaffner, Nikolaos Barkas, 2022, Science.

Synthetic DNA spike-ins (SDSIs) enable sample tracking and detection of inter-sample contamination in SARS-CoV-2 sequencing workflows

Pardis C Sabeti, R. Tewhey, Steven K. Reilly, 2021, Nature Microbiology.

Metagenomic surveillance uncovers diverse and novel viral taxa in febrile patients from Nigeria

Pardis C Sabeti, S. Schaffner, S. Frost, 2023, Nature communications.

Enhanced Virus Detection and Metagenomic Sequencing in Patients with Meningitis and Encephalitis

Pardis C Sabeti, E. Rosenberg, Tracey A. Cho, 2020, bioRxiv.

RSV Surge in the USA and Viral Lineages, 2022

Katherine C DeRuff, S. Schaffner, J. Luban, 2023, The New England journal of medicine.

Metagenomic Sequencing of HIV-1 in the Blood and Female Genital Tract Reveals Little Quasispecies Diversity during Acute Infection

Todd M. Allen, Pardis C Sabeti, S. Schaffner, 2018, Journal of Virology.

Benchmark datasets for SARS-CoV-2 surveillance bioinformatics

M. Shakya, P. Chain, C. Lo, 2022, PeerJ.

Nomenclature- and Database-Compatible Names for the Two Ebola Virus Variants that Emerged in Guinea and the Democratic Republic of the Congo in 2014

Rachel S. G. Sealfon, Pardis C Sabeti, Jeffrey R. Kugelman, 2014, Viruses.

Multimodal surveillance of SARS-CoV-2 at a university enables development of a robust outbreak response framework

Lily A. Chylek, Belinda B. Flynn, S. Schaffner, 2022, Med.

A general SNP-based molecular barcode for Plasmodium falciparum identification and tracking

Pardis C Sabeti, D. Wirth, E. Angelino, 2008, Malaria Journal.

Development of a Single Nucleotide Polymorphism Barcode to Genotype Plasmodium vivax Infections

Juliana M. Sá, Pardis C Sabeti, S. Schaffner, 2015, PLoS neglected tropical diseases.

Molecular epidemiology of Plasmodium falciparum by multiplexed amplicon deep sequencing in Senegal

D. Ndiaye, S. Volkman, D. Park, 2020, Malaria Journal.

SNP Genotyping Identifies New Signatures of Selection in a Deep Sample of West African Plasmodium falciparum Malaria Parasites

S. Schaffner, D. Conway, D. Ndiaye, 2012, Molecular biology and evolution.

Genomic sequencing of Plasmodium falciparum malaria parasites from Senegal reveals the demographic history of the population.

Hsiao-Han Chang, Pardis C Sabeti, Souleymane Mboup, 2012, Molecular biology and evolution.

Amplicon deep sequencing of kelch13 in Plasmodium falciparum isolates from Senegal

D. Ndiaye, S. Volkman, D. Neafsey, 2020, Malaria Journal.

Phylogenetic analysis of SARS-CoV-2 in Boston highlights the impact of superspreading events

Melis N. Anahtar, Katherine C DeRuff, Pardis C Sabeti, 2020, Science.

Deployable CRISPR-Cas13a diagnostic tools to detect and report Ebola and Lassa virus cases in real-time

Hayden C. Metsky, Pardis C Sabeti, Donald S. Grant, 2020, Nature Communications.