Search filters

List of works by Pardis C. Sabeti

868. Prospective Pathogen Detection in Patients With Central Nervous System Inflammation Using Metagenomic Sequencing

A MicroRNA Linking Human Positive Selection and Metabolic Disorders

scientific article published on 13 October 2020

A composite of multiple signals distinguishes causal variants in regions of positive selection

scientific article

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

scientific article published on 29 October 2008

A genetic basis of variation in eccrine sweat gland and hair follicle density

scientific article

A genome-wide map of diversity in Plasmodium falciparum

scientific article published on 10 December 2006

A global map of genetic diversity in Babesia microti reveals strong population structure and identifies variants associated with clinical relapse

scientific article published on 13 June 2016

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

scientific article published on 20 June 2011

A high-resolution HLA and SNP haplotype map for disease association studies in the extended human MHC.

scientific article published on 24 September 2006

A malaria fingerprint in the human genome?

scientific article published on 16 April 2008

A second generation human haplotype map of over 3.1 million SNPs

scientific article

A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2

article published in 2021

A variant in long palate, lung and nasal epithelium clone 1 is associated with cholera in a Bangladeshi population

scientific article

A year of genomic surveillance reveals how the SARS-CoV-2 pandemic unfolded in Africa

research article

A53 Systematic application of metagenomics NGS to identify and sequence viral pathogens in infections of the central nervous system.

scientific article

Accessing rare activities from random RNA sequences: the importance of the length of molecules in the starting pool ⬇️

scientific article published on October 1, 1997

Acute Kidney Injury and Mortality in Pediatric Lassa fever versus Question of Access to Dialysis

scientific article published on 08 November 2020

Acute Lassa Virus Encephalitis with Lassa Virus in the Cerebrospinal Fluid but Absent in the Blood: A Case Report with a Positive Outcome

Allelic heterogeneity of G6PD deficiency in West Africa and severe malaria susceptibility

scientific article

An Outbreak of Ebola Virus Disease in the Lassa Fever Zone

scientific article published on 11 July 2016

An emergent Ebola virus nucleoprotein variant influences virion budding, oligomerization, transcription and replication

An empirical study of the maximal and total information coefficients and leading measures of dependence

scholarly article published in March 2018

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

scientific article published in 2022

Analysis of CD8 T cell response during the 2013-2016 Ebola epidemic in West Africa

article published in the Proceedings of the National Academy of Sciences of the United States of America

Ancient and recent adaptive evolution of primate non-homologous end joining genes

scientific article

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

scientific article

Benchmarking Metagenomics Tools for Taxonomic Classification

scientific article published on 01 August 2019

CD40L association with protection from severe malaria

scientific article published in August 2002

COIL: a methodology for evaluating malarial complexity of infection using likelihood from single nucleotide polymorphism data

scientific article

COVID-19 tissue atlases reveal SARS-CoV-2 pathology and cellular targets ⬇️

journal article from 'Nature' published in 2021

CRISPR-based surveillance for COVID-19 using genomically-comprehensive machine learning design

scientific article (preprint)

Capturing diverse microbial sequence with comprehensive and scalable probe design

scholarly article published 12 March 2018

Capturing sequence diversity in metagenomes with comprehensive and scalable probe design

scientific article published on 04 February 2019

Cerebral Microvascular Injury in Severe COVID-19

scientific article published on 24 July 2020

Characterization of Plasmodium falciparum structure in Nigeria with malaria SNPs barcode

scholarly article published by Pardis C. Sabeti in 2018

Cleaning up the record on the maximal information coefficient and equitability

scientific article published on August 2014

Clinical Sequencing Uncovers Origins and Evolution of Lassa Virus

scientific article

Clinical and laboratory predictors of Lassa fever outcome in a dedicated treatment facility in Nigeria: a retrospective, observational cohort study

scientific article

Clinical illness and outcomes in patients with Ebola in Sierra Leone

scientific article

Co-circulating mumps lineages at multiple geographic scales

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

scientific article published on 11 February 2020

Comment on "Ongoing adaptive evolution of ASPM, a brain size determinant in Homo sapiens".

scientific article published on April 2007

Common deletion polymorphisms in the human genome.

scientific article

Comparative evidence for the independent evolution of hair and sweat gland traits in primates

scientific article published on 07 November 2018

Comparative genomics of Balto, a famous historic dog, captures lost diversity of 1920s sled dogs ⬇️

Comparative transmissibility of SARS-CoV-2 variants Delta and Alpha in New England, USA

scientific article published on 11 March 2022

Correction: Lassa hemorrhagic fever in a late term pregnancy from northern Sierra Leone with a positive maternal outcome: case report

scientific article published on 25 October 2011

Corrigendum: Caseload and Case Fatality of Lassa Fever in Nigeria, 2001-2018: A Specialist Center's Experience and Its Implications

scientific article published on 13 September 2019

Cosi2: an efficient simulator of exact and approximate coalescent with selection

scientific article published on 22 August 2014

Data sharing: Make outbreak research open access

scientific article

Deciphering the ancient and complex evolutionary history of human arylamine N-acetyltransferase genes

scientific article

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

scientific article published on 17 August 2020

Derived immune and ancestral pigmentation alleles in a 7,000-year-old Mesolithic European

scientific article

Detecting natural selection in genomic data

scientific article

Detecting novel associations in large data sets

scientific article

Detecting recent positive selection in the human genome from haplotype structure

scientific article

Development of a SNP barcode to genotype Babesia microti infections

article

Development of a qualitative real-time RT-PCR assay for the detection of SARS-CoV-2: A guide and case study in setting up an emergency-use, laboratory-developed molecular assay

scientific article published on 01 September 2020

Development of a single nucleotide polymorphism barcode to genotype Plasmodium vivax infections

scientific article

Direct Identification of Hundreds of Expression-Modulating Variants using a Multiplexed Reporter Assay

scientific article

Direct Identification of Hundreds of Expression-Modulating Variants using a Multiplexed Reporter Assay

scientific article published on 01 February 2018

Discovery of novel rhabdoviruses in the blood of healthy individuals from West Africa

scientific article

Discrete SARS-CoV-2 antibody titers track with functional humoral stability

scientific article published on 15 February 2021

Distinct lineages of Ebola virus in Guinea during the 2014 West African epidemic

scientific article

EDARV370A associated facial characteristics in Uyghur population revealing further pleiotropic effects

scientific article

Ebola Virus Epidemiology and Evolution in Nigeria

scientific article published on 04 July 2016

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

scientific article

Ebola Virus Glycoprotein with Increased Infectivity Dominated the 2013-2016 Epidemic

scientific article published on November 2016

Enhanced methods for unbiased deep sequencing of Lassa and Ebola RNA viruses from clinical and biological samples

scientific article

Epidemiological and immunological features of obesity and SARS-CoV-2

scientific article published on 13 November 2020

Epidemiology. Emerging disease or diagnosis?

scientific article published on November 2012

Essentials of filoviral load quantification

scientific article published on 10 June 2016

Evaluation of the potential impact of Ebola virus genomic drift on the efficacy of sequence-based candidate therapeutics

scientific article

Evidence of Ebola Virus Replication and High Concentration in Semen of a Patient During Recovery

scientific article published on 3 June 2017

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

scientific article

Evolutionary constraint and innovation across hundreds of placental mammals

scientific article published on 28 April 2023

FRESCo: finding regions of excess synonymous constraint in diverse viruses

scientific article

Factors related to increasing prevalence of resistance to ciprofloxacin and other antimicrobial drugs in Neisseria gonorrhoeae, United States

scientific article

Fatal Case of Chronic Jamestown Canyon Virus Encephalitis Diagnosed by Metagenomic Sequencing in Patient Receiving Rituximab

scientific article published on 01 December 2020

Field evaluation of a Pan-Lassa rapid diagnostic test during the 2018 Nigerian Lassa fever outbreak

scientific article published on 26 May 2020

Field validation of recombinant antigen immunoassays for diagnosis of Lassa fever

scientific article published on 12 April 2018

Field-deployable viral diagnostics using CRISPR-Cas13.

scientific article published in April 2018

Filovirus RefSeq entries: evaluation and selection of filovirus type variants, type sequences, and names

scientific article published on 26 September 2014

Fine-mapping the Favored Mutation in a Positive Selective Sweep

GB virus C coinfections in west African Ebola patients

scientific article

Genetic signatures of strong recent positive selection at the lactase gene

scientific article

Genetic surveillance detects both clonal and epidemic transmission of malaria following enhanced intervention in Senegal

scientific article

Genome sequencing reveals Zika virus diversity and spread in the Americas

scientific article (publication date: 18 February 2017)

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

scientific article published on 15 December 2008

Genome-wide comparison of African-ancestry populations from CARe and other cohorts reveals signals of natural selection

scientific article

Genome-wide detection and characterization of positive selection in human populations

scientific article

Genome-wide identification of microRNAs regulating cholesterol and triglyceride homeostasis

scientific article published on 26 October 2015

Genome-wide scans provide evidence for positive selection of genes implicated in Lassa fever

scientific article published on March 2012

Genome-wide scans reveal variants at EDAR predominantly affecting hair straightness in Han Chinese and Uyghur populations

scientific article

Genomic Analysis of Lassa Virus during an Increase in Cases in Nigeria in 2018

article by Katherine J Siddle et al published 17 October 2018 in The New England Journal of Medicine

Genomic Analysis of Viral Outbreaks

scientific article published on 3 August 2016

Genomic analysis identifies targets of convergent positive selection in drug-resistant Mycobacterium tuberculosis

scientific article published on September 2013

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

scientific article

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

scientific article

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

scientific article

High crossreactivity of human T cell responses between Lassa virus lineages

scientific article published on 06 March 2020

High depth, whole-genome sequencing of cholera isolates from Haiti and the Dominican Republic.

scientific article

Human cerebral malaria and Plasmodium falciparum genotypes in Malawi

scientific article published on 7 February 2012

Human evolutionary genomics: ethical and interpretive issues

scientific article published on 20 January 2012

ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus

scientific article (publication date: 29 January 2015)

ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus

scientific article

Identification and functional validation of the novel antimalarial resistance locus PF10_0355 in Plasmodium falciparum

scientific article

Identification of Common CD8+ T cell Epitopes from Lassa Fever Survivors in Nigeria and Sierra Leone

scientific article published on 08 April 2020

Identification of two independent risk factors for lupus within the MHC in United Kingdom families

scientific article

Identifying gene expression programs of cell-type identity and cellular activity with single-cell RNA-Seq

scientific article published on 08 July 2019

Identifying recent adaptations in large-scale genomic data

scientific article

Identifying the favored mutation in a positive selective sweep.

scientific article published on 19 February 2018

In vivo Ebola virus infection leads to a strong innate response in circulating immune cells

scientific article published on 05 September 2016

Insights into mammalian TE diversity through the curation of 248 genome assemblies ⬇️

Integrated sample inactivation, amplification, and Cas13-based detection of SARS-CoV-2

scientific article published on 28 May 2020

Integrating common and rare genetic variation in diverse human populations

scientific article (publication date: 2 September 2010)

Integrating gene annotation with orthology inference at scale ⬇️

scientific article published on 28 April 2023

Interactive medical case. A Liberian health care worker with fever

scientific article published on January 2015

Investigating the etiologies of non-malarial febrile illness in Senegal using metagenomic sequencing

scholarly article

Is G6PD A- deficiency associated with recurrent stillbirths in The Gambia?

scientific article published on 01 July 2004

Jamestown Canyon virus in Massachusetts: Clinical case series and vector screening

scientific article published on 17 April 2020

LB1609 The evolutionary trajectory of primate skin appendage traits

scholarly article

Lassa Virus Genetics

scientific article published on 17 May 2020

Lassa fever in post-conflict sierra leone

scientific article

Lassa hemorrhagic fever in a late term pregnancy from northern Sierra Leone with a positive maternal outcome: case report

scientific article (publication date: 15 August 2011)

Linkage disequilibrium in the human genome

scientific article (publication date: 10 May 2001)

Machine learning and mHealth techniques to improve prognostication and clinical management of patients with Ebola virus disease

article

Machine-learning Prognostic Models from the 2014-16 Ebola Outbreak: Data-harmonization Challenges, Validation Strategies, and mHealth Applications

scientific article published on 01 May 2019

Malaria life cycle intensifies both natural selection and random genetic drift

scientific article

Many ways to die, one way to arrive: how selection acts through pregnancy

scientific article published on 06 April 2013

Massively multiplexed nucleic acid detection using Cas13

scientific article published on 29 April 2020

Message from the ISCB: ISCB Ebola award for important future research on the computational biology of Ebola virus

scientific article published on 2 February 2015

Metagenomic Sequencing of an Echovirus 30 Genome From Cerebrospinal Fluid of a Patient With Aseptic Meningitis and Orchitis

scientific article published on 28 July 2017

Metagenomic sequencing of HIV-1 in the blood and female genital tract reveals little quasispecies diversity during acute infection

article

Mining data from 1000 genomes to identify the causal variant in regions under positive selection.

scientific article published on 11 October 2010

Modeling recent human evolution in mice by expression of a selected EDAR variant

scientific article

Molecular diagnostics for lassa fever at Irrua specialist teaching hospital, Nigeria: lessons learnt from two years of laboratory operation

scientific article published in 2012

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

scientific article

Most neutralizing human monoclonal antibodies target novel epitopes requiring both Lassa virus glycoprotein subunits

scientific article

Multiple circulating infections can mimic the early stages of viral hemorrhagic fevers and possible human exposure to filoviruses in Sierra Leone prior to the 2014 outbreak

scientific article

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

scientific article

Multiplexed detection of bacterial nucleic acids using Cas13 in droplet microarrays

Natural selection and infectious disease in human populations

scientific article published on 29 April 2014

Natural selection in a bangladeshi population from the cholera-endemic ganges river delta

scientific article

Negative Selection by Spiral Inertial Microfluidics Improves Viral Recovery and Sequencing from Blood

scientific article published on 14 March 2018

Neuropathological Features of Covid-19

scientific article published on 12 June 2020

New filovirus disease classification and nomenclature

article

Nomenclature- and database-compatible names for the two Ebola virus variants that emerged in Guinea and the Democratic Republic of the Congo in 2014.

scientific article

Nucleic acid detection with CRISPR-Cas13a/C2c2

scientific article

Overlooking the importance of immunoassays - Authors' reply

scientific article published on 19 September 2016

Pardis Sabeti: How we'll fight the next deadly virus

TEDWomen 2015

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

scientific article published on 10 December 2020

Phylogenetic analysis of SARS-CoV-2 in the Boston area highlights the role of recurrent importation and superspreading events

scientific article published on 25 August 2020

Polymorphisms in Plasmodium falciparum chloroquine resistance transporter (Pfcrt) and multidrug-resistant gene 1 (Pfmdr-1) in Nigerian children 10 years post-adoption of artemisinin-based combination treatments

scientific article published on 23 December 2020

Polymorphisms in the gene that encodes the iron transport protein ferroportin 1 influence susceptibility to tuberculosis

scientific article published on 21 February 2012

Population genetic study of the brain-derived neurotrophic factor (BDNF) gene

scientific article

Positive natural selection in the human lineage

scientific article (publication date: 16 June 2006)

Positive selection of a CD36 nonsense variant in sub-saharan Africa, but no association with severe malaria phenotypes

scientific article published on 29 April 2009

Positive selection of a pre-expansion CAG repeat of the human SCA2 gene

scientific article

Positive selection on a high-sensitivity allele of the human bitter-taste receptor TAS2R16.

scientific article published in July 2005

Powassan Virus Neuropathology and Genomic Diversity in Patients With Fatal Encephalitis

scientific article published on 29 August 2020

Predicting gene expression in massively parallel reporter assays: A comparative study

scientific article published on 21 February 2017

Prevalence of Lassa Virus Disease (LVD) in Nigerian children with fever or fever and convulsions in an endemic area

scientific article

Preventing Outbreaks through Interactive, Experiential Real-Life Simulations

scientific article published on 02 September 2020

Programmable Inhibition and Detection of RNA Viruses Using Cas13

scientific article published on 10 October 2019

Rapid detection of Powassan virus in a patient with encephalitis by metagenomic sequencing

scientific article published on 13 September 2017

Rapid, Field-Deployable Method for Genotyping and Discovery of Single-Nucleotide Polymorphisms Associated with Drug Resistance in Plasmodium falciparum ⬇️

scientific article published on March 19, 2012

Real-time Metagenomic Analysis of Undiagnosed Fever Cases Unveils a Yellow Fever Outbreak in Edo State, Nigeria

scientific article published on 21 February 2020

Reporter Assays for Ebola Virus Nucleoprotein Oligomerization, Virion-Like Particle Budding, and Minigenome Activity Reveal the Importance of Nucleoprotein Amino Acid Position 111

scientific article published on 15 January 2020

Research capacity. Enabling the genomic revolution in Africa

scientific article published in June 2014

Retrospective Cohort Study of Lassa Fever in Pregnancy, Southern Nigeria

scientific article published on 01 August 2019

Roots, Not Parachutes: Research Collaborations Combat Outbreaks

scientific article

SARS-CoV-2 Spike protein variant D614G increases infectivity and retains sensitivity to antibodies that target the receptor binding domain

scientific article published on 04 July 2020

SARS-CoV-2 infected cells present HLA-I peptides from canonical and out-of-frame ORFs

scientific article published on 02 October 2020

Searching for signals of evolutionary selection in 168 genes related to immune function

scientific article published on 14 December 2005

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

scientific article

Signatures of strong population differentiation shape extended haplotypes across the human CD28, CTLA4, and ICOS costimulatory genes

scholarly article

Single-Cell Profiling of Ebola Virus Disease In Vivo Reveals Viral and Host Dynamics

scientific article published on 02 November 2020

Spread of an inactive form of caspase-12 in humans is due to recent positive selection

scientific article

Standards for sequencing viral genomes in the era of high-throughput sequencing

scientific article published on 17 June 2014

Strand-specific RNA sequencing in Plasmodium falciparum malaria identifies developmentally regulated long non-coding RNA and circular RNA.

scientific article published on 13 June 2015

Streamlined inactivation, amplification, and Cas13-based detection of SARS-CoV-2

scientific article published on 20 November 2020

Structural and Functional Analysis of the D614G SARS-CoV-2 Spike Protein Variant

scientific article published on 15 September 2020

Susceptibility-weighted imaging reveals cerebral microvascular injury in severe COVID-19

scientific article

The Landscape of Human Evolution ⬇️

scientific article published on February 11, 2011

The Origins and Future of Sentinel: An Early-Warning System for Pandemic Preemption and Response

scientific article published in 2021

The adaptive variant EDARV370A is associated with straight hair in East Asians ⬇️

scientific article published on June 23, 2013

The case for selection at CCR5-Delta32

scientific article published in November 2005

The contribution of historical processes to contemporary extinction risk in placental mammals ⬇️

The effects of natural selection and recombination on genetic diversity in humans : an investigation of Plasmodium falciparum malaria in African populations

doctoral thesis by Pardis Christine Sabeti

The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance

research article preprint

The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance

scientific article published on 7 October 2022

The functional and evolutionary impacts of human-specific deletions in conserved elements ⬇️

Three-dimensional genome rewiring in loci with human accelerated regions ⬇️

scientific article published on 28 April 2023

Transforming Clinical Data into Actionable Prognosis Models: Machine-Learning Framework and Field-Deployable App to Predict Outcome of Ebola Patients

scientific article (publication date: March 2016)

Unbiased Deep Sequencing of RNA Viruses from Clinical Samples

scientific article

Variants of the CD40 ligand gene are not associated with increased susceptibility to tuberculosis in West Africa

scientific article

Virus genomes reveal factors that spread and sustained the Ebola epidemic

scientific article (publication date: 12 April 2017)

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

article published in 2016

Zika virus evolution and spread in the Americas

scientific article

Paulina is supported by:

About Paulina

Help