World's Best Scientists 2026 revealed!

D-Index & Metrics

Biology and Biochemistry

D-Index
60
Citations
15210
World Ranking
11823
National Ranking
5085

Overview

Andrew D. Smith is affiliated with the University of Southern California in the United States. Their research primarily spans the fields of Biochemistry, Genetics and Molecular Biology, and Medicine, with notable work in the subfields of Molecular Biology, Infectious Diseases, Cancer Research, Epidemiology, and Pediatrics, Perinatology and Child Health.

Themes frequently explored in their research include Epigenetics and DNA Methylation, RNA modifications and cancer, Antifungal resistance and susceptibility, Fungal Infections and Studies, Cancer related to Hypoxia and Metabolism, Cancer-related gene regulation, and Genomics and Phylogenetic Studies.

Some of the frequent publication venues where Smith's work appears are bioRxiv (Cold Spring Harbor Laboratory), Scientific Reports, Microbiology Spectrum, G3 Genes Genomes Genetics, and the AIAA Propulsion and Energy 2020 Forum.

Smith has collaborated extensively with several researchers, including Guilherme De Sena Brandine, Saket Choudhary, Vasanthakrishna Mundodi, David Kadosh, and Nicholas J. Loman.

Representative recent papers include:

  • Improvements to the ARTIC multiplex PCR method for SARS-CoV-2 genome sequencing using nanopore, 2020, bioRxiv (Cold Spring Harbor Laboratory)
  • Falco: high-speed FastQC emulation for quality control of sequencing data, 2021, F1000Research
  • ATAC-Me Captures Prolonged DNA Methylation of Dynamic Chromatin Accessibility Loci during Cell Fate Transitions, 2020, Molecular Cell
  • Spatial transcriptional mapping of the human nephrogenic program, 2021, Developmental Cell
  • Hexokinase 2 is dispensable for photoreceptor development but is required for survival during aging and outer retinal stress, 2020, Cell Death and Disease

Best Publications

  • Multiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samples

    Joshua Quick;Nathan D Grubaugh;Steven T Pullan;Ingra M Claro

  • Analysis of the Vertebrate Insulator Protein CTCF-Binding Sites in the Human Genome

    Tae Hoon Kim;Ziedulla K. Abdullaev;Andrew D. Smith;Keith A. Ching

  • An integrative genomics approach identifies Hypoxia Inducible Factor-1 (HIF-1)-target genes that form the core response to hypoxia

    Yair Benita;Hirotoshi Kikuchi;Andrew D. M. Smith;Michael Q. Zhang

  • Using quality scores and longer reads improves accuracy of Solexa read mapping

    Andrew D. M. Smith;Zhenyu Xuan;Michael Q. Zhang

  • Improvements to the ARTIC multiplex PCR method for SARS-CoV-2 genome sequencing using nanopore

    John R Tyson;Phillip James;David Stoddart;Natalie Sparks

  • Sperm methylation profiles reveal features of epigenetic inheritance and evolution in primates

    Antoine Molaro;Emily Hodges;Fang Fang;Qiang Song

  • A model of breast cancer heterogeneity reveals vascular mimicry as a driver of metastasis

    Elvin Wagenblast;Mar Soto;Sara Gutiérrez-Ángel;Christina A. Hartl

  • A Reference Methylome Database and Analysis Pipeline to Facilitate Integrative and Comparative Epigenomics

    Qiang Song;Benjamin Decato;Elizabeth E. Hong;Meng Zhou

  • Predicting the molecular complexity of sequencing libraries

    Timothy Daley;Andrew D Smith

  • Directional DNA Methylation Changes and Complex Intermediate States Accompany Lineage Specificity in the Adult Hematopoietic Compartment

    Emily Hodges;Antoine Molaro;Antoine Molaro;Camila O. Dos Santos;Camila O. Dos Santos;Pramod Thekkat;Pramod Thekkat

  • Site identification in high-throughput RNA–protein interaction data

    Philip J. Uren;Emad Bahrami-Samani;Suzanne C. Burns;Mei Qiao

  • Before It Gets Started: Regulating Translation at the 5' UTR.

    Patricia R. Araujo;Kihoon Yoon;Daijin Ko;Andrew D. Smith

  • The maize methylome influences mRNA splice sites and reveals widespread paramutation-like switches guided by small RNA.

    Michael Regulski;Zhenyuan Lu;Jude Kendall;Mark T.A. Donoghue

  • High definition profiling of mammalian DNA methylation by array capture and single molecule bisulfite sequencing

    Emily Hodges;Andrew D. Smith;Andrew D. Smith;Jude Kendall;Zhenyu Xuan

  • Molecular characterization of the transition from acute to chronic kidney injury following ischemia/reperfusion

    Jing Liu;Sanjeev Kumar;Sanjeev Kumar;Egor Dolzhenko;Gregory F. Alvarado

  • An evolutionarily conserved gene family encodes proton-selective ion channels

    Yu-Hsiang Tu;Alexander J. Cooper;Bochuan Teng;Rui B. Chang

  • Diverse endonucleolytic cleavage sites in the mammalian transcriptome depend upon microRNAs, Drosha, and additional nucleases.

    Fedor V. Karginov;Sihem Cheloufi;Sihem Cheloufi;Sihem Cheloufi;Mark M.W. Chong;Alexander Stark

  • Falco: high-speed FastQC emulation for quality control of sequencing data.

    Guilherme de Sena Brandine;Andrew D Smith

  • CLIMB (the Cloud Infrastructure for Microbial Bioinformatics): an online resource for the medical microbiology community

    Thomas R. Connor;Nicholas J Loman;Simon Thompson;Andy Smith

  • Updates to the RMAP short-read mapping software

    Andrew D. Smith;Wen-Yu Chung;Emily Hodges;Jude Kendall

Frequent Co-Authors

Gregory J. Hannon
Gregory J. Hannon University of Cambridge
Luiz O. F. Penalva
Luiz O. F. Penalva The University of Texas Health Science Center at San Antonio
Michael Q. Zhang
Michael Q. Zhang The University of Texas at Dallas
James W. Hicks
James W. Hicks University of Southern California
Andrew P. McMahon
Andrew P. McMahon University of Southern California
Douglas T. Carrell
Douglas T. Carrell University of Utah
W. Richard McCombie
W. Richard McCombie Cold Spring Harbor Laboratory
Jill A. McMahon
Jill A. McMahon University of Southern California
Bing Ren
Bing Ren New York Genome Center
Eleazar Eskin
Eleazar Eskin University of California, Los Angeles

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