Steve Miller, MD
Clinical Professor
Laboratory Medicine
School of Medicine

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Publications (38)

Top publication keywords:
Sequence Analysis, DNABrain AbscessGenome, BacterialDNA, BacterialNontuberculous MycobacteriaBurkholderiaceaeMedical Laboratory ScienceHigh-Throughput Nucleotide SequencingSolitary Pulmonary NoduleCommunicable DiseasesMetagenomeMycobacterium Infections, NontuberculousMetagenomicsCystic FibrosisBurkholderia Infections

• In host evolution of beta lactam resistance during active treatment for Pseudomonas aeruginosa bacteremia.
  Frontiers in cellular and infection microbiology 2023 Spottiswoode N, Hao S, Sanchez-Guerrero E, Detweiler AM, Mekonen H, Neff N, Macmillan H, Schwartz BS, Engel J, DeRisi JL, Miller SA, Langelier CR
• Metagenomic prediction of antimicrobial resistance in critically ill patients with lower respiratory tract infections.
  Genome medicine 2022 Serpa PH, Deng X, Abdelghany M, Crawford E, Malcolm K, Caldera S, Fung M, McGeever A, Kalantar KL, Lyden A, Ghale R, Deiss T, Neff N, Miller SA, Doernberg SB, Chiu CY, DeRisi JL, Calfee CS, Langelier …
• Detection of Neoplasms by Metagenomic Next-Generation Sequencing of Cerebrospinal Fluid (S27.004).
  Neurology 2022 Wei Gu, Andreas Rauschecker, Elaine Hsu, Kelsey Zorn, Yasemin Sucu, Scot Federman, Shaun Arevalo, Hannah Sample, Eric Nguyen, Eric Talevich, Bardia Nourbakhsh, Carl Gold, Bruce Cree, Vanja Douglas, …
• Prolonged silent carriage, genomic virulence potential and transmission between staff and patients characterize a neonatal intensive care unit (NICU) outbreak of methicillin-resistant Staphylococcus aureus (MRSA).
  Infection control and hospital epidemiology 2022 Madera S, McNeil N, Serpa PH, Kamm J, Pak C, Caughell C, Nichols A, Dynerman D, Li LM, Sanchez-Guerrero E, Phelps MS, Detweiler AM, Neff N, Reyes H, Miller SA, Yokoe DS, DeRisi JL, Ramirez-Avila L, …
• Navigating Clinical Utilization of Direct-from-Specimen Metagenomic Pathogen Detection: Clinical Applications, Limitations, and Testing Recommendations.
  Clinical chemistry 2020 Filkins LM, Bryson AL, Miller SA, Mitchell SL

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• Randomized Trial of Lactin-V to Prevent Recurrence of Bacterial Vaginosis.
  Obstetrical & Gynecological Survey 2020 Craig R. Cohen, Michael R. Wierzbicki, Audrey L. French, Sheldon Morris, Sara Newmann, Hilary Reno, Lauri Green, Steve Miller, Jonathan Powell, Thomas Parks, Anke Hemmerling
• Point-Counterpoint: Should We Be Performing Metagenomic Next-Generation Sequencing for Infectious Disease Diagnosis in the Clinical Laboratory?
  Journal of clinical microbiology 2020 Miller S, Chiu C, Rodino KG, Miller MB
• 236. The Comparative Utility Of Metagenomic Next-Generation Sequencing and Universal PCR for Pathogen Detection on Cerebrospinal Fluid: A Retrospective Analysis From a Tertiary Care Center.
  Open Forum Infectious Diseases 2019 Andrew D Kerkhoff, Michelle Matzko, Charles Chiu, Steve Miller, Jennifer M Babik
• 839. Effect of Clostridioides difficile (C. difficile) Toxin Test Reporting on Clinical Treatment and Outcomes of Toxin-Negative PCR-Positive Patients at Five California Hospitals.
  Open Forum Infectious Diseases 2019 Christopher R Polage, Jonathan Grein, Margie Morgan, Sarah B Doernberg, Steve Miller, Raymond Chinn, Cathy Woerle, Jennifer Yim, Cassiana Bittencourt, Sneha Krishna, Nicolle Anne Ocampo, Laurel Gibbs,…
• Clinical metagenomics.
  Nature reviews. Genetics 2019 Chiu CY, Miller SA
• 2291. A Real-Time Sequencing Approach for Simultaneous Metagenomic and Transcriptomic-Based Diagnosis of Infectious Diseases.
  Open Forum Infectious Diseases 2018 Benjamin Briggs, Scot Federman, Xian Ding Deng, Wei Gu, Guixia Yu, Claudia Sanchez San Martin, Steve Miller, Charles Y Chiu
• 2563. Clinical Metagenomic Next-Generation Sequencing for Diagnosis of Meningitis and Encephalitis.
  Open Forum Infectious Diseases 2018 Michael Wilson, Hannah Sample, Kelsey Zorn, Samia N Naccache, Steve Miller, Charles Y Chiu
• Metagenomic Next-Generation Sequencing for Pathogen Detection and Identification.
  Advanced Techniques in Diagnostic Microbiology 2018 Steve Miller, Charles Chiu
• Neurobrucellosis: Unexpected Answer From Metagenomic Next-Generation Sequencing.
  Journal of the Pediatric Infectious Diseases Society 2017 Mongkolrattanothai K, Naccache SN, Bender JM, Samayoa E, Pham E, Yu G, Dien Bard J, Miller S, Aldrovandi G, Chiu CY
• First Draft Genome Sequences of Neisseria sp. Strain 83E34 and Neisseria sp. Strain 74A18, Previously Identified as CDC Eugonic Fermenter 4b Species.
  Genome announcements 2016 Greninger AL, Streithorst J, Chiu CY, Miller S
• Complete genome sequence of sequential Pandoraea apista isolates from the same cystic fibrosis patient supports a model of chronic colonization with in vivo strain evolution over time.
  Diagnostic microbiology and infectious disease 2016 Greninger AL, Streithorst J, Golden JA, Chiu CY, Miller S
• Monitoring for Viral Infections in Transplant Patients.
  Clinical Microbiology Newsletter 2016 Steve Miller
• Clinical Experience Using Broad-Range Polymerase Chain Reaction-Based Sequencing for Pathogen Identification.
  Open Forum Infectious Diseases 2015 Rachel Rutishauser, Steve Miller
• Draft Genome Sequence of Mycobacterium heckeshornense Strain RLE.
  Genome announcements 2015 Greninger AL, Cunningham G, Chiu CY, Miller S
• Draft Genome Sequence of Mycobacterium heraklionense Strain Davo.
  Genome announcements 2015 Greninger AL, Cunningham G, Chiu CY, Miller S
• Draft Genome Sequence of Mycobacterium elephantis Strain Lipa.
  Genome announcements 2015 Greninger AL, Cunningham G, Yu JM, Hsu ED, Chiu CY, Miller S
• Draft Genome Sequence of Mycobacterium arupense Strain GUC1.
  Genome announcements 2015 Greninger AL, Cunningham G, Yu JM, Hsu ED, Chiu CY, Miller S
• Draft Genome Sequence of Mycobacterium obuense Strain UC1, Isolated from Patient Sputum.
  Genome announcements 2015 Greninger AL, Cunningham G, Hsu ED, Yu JM, Chiu CY, Miller S
• Chapter 11 Solid and Suspension Microarrays for Microbial Diagnostics.
  2015 Steve Miller, Ulas Karaoz, Eoin Brodie, Sherry Dunbar
• Two Rapidly Growing Mycobacterial Species Isolated from a Brain Abscess: First Whole-Genome Sequences of Mycobacterium immunogenum and Mycobacterium llatzerense.
  Journal of clinical microbiology 2015 Greninger AL, Langelier C, Cunningham G, Keh C, Melgar M, Chiu CY, Miller S
• Diagnosis of neuroinvasive astrovirus infection in an immunocompromised adult with encephalitis by unbiased next-generation sequencing.
  Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2015 Naccache SN, Peggs KS, Mattes FM, Phadke R, Garson JA, Grant P, Samayoa E, Federman S, Miller S, Lunn MP, Gant V, Chiu CY
• A cloud-compatible bioinformatics pipeline for ultrarapid pathogen identification from next-generation sequencing of clinical samples.
  Genome research 2014 Naccache SN, Federman S, Veeraraghavan N, Zaharia M, Lee D, Samayoa E, Bouquet J, Greninger AL, Luk KC, Enge B, Wadford DA, Messenger SL, Genrich GL, Pellegrino K, Grard G, Leroy E, Schneider BS, Fair…
• Actionable diagnosis of neuroleptospirosis by next-generation sequencing.
  The New England journal of medicine 2014 Wilson MR, Naccache SN, Samayoa E, Biagtan M, Bashir H, Yu G, Salamat SM, Somasekar S, Federman S, Miller S, Sokolic R, Garabedian E, Candotti F, Buckley RH, Reed KD, Meyer TL, Seroogy CM, Galloway R,…
• First report of tenosynovitis in an immunocompetent person caused by Mycobacterium heraklionense.
  JMM Case Reports 2014 Malak Abedalthagafi, Oren Rosenberg, Steve Miller
• Evaluation of Glutamate Dehydrogenase Immunoassay Screening with Toxin Confirmation for the Diagnosis of Clostridium difficile Infection.
  Lab Medicine 2013 Steve Miller, Arun Wiita, Carolyn Wright, Helen Reyes, Catherine Liu
• Using a pan-viral microarray assay (Virochip) to screen clinical samples for viral pathogens.
  Journal of visualized experiments : JoVE 2011 Chen EC, Miller SA, DeRisi JL, Chiu CY
• Pandemic (H1N1) 2009 infection in patients with hematologic malignancy.
  Emerging infectious diseases 2010 Liu C, Schwartz BS, Vallabhaneni S, Nixon M, Chin-Hong PV, Miller SA, Chiu C, Damon L, Drew WL
• Cytologic evaluation can predict microbial culture results for infectious causes of pulmonary nodules in patients undergoing fine needle aspiration biopsy.
  Diagnostic microbiology and infectious disease 2010 Miller SA, van Zante A, Schwartz BS
• Detection of vancomycin-intermediate Staphylococcus aureus with the updated Trek-Sensititre System and the MicroScan System. Comparison with results from the conventional Etest and CLSI standardized MIC methods.
  American journal of clinical pathology 2010 Nadarajah R, Post LR, Liu C, Miller SA, Sahm DF, Brooks GF
• Thoracic CT findings of novel influenza A (H1N1) infection in immunocompromised patients.
  Emergency radiology 2010 Elicker BM, Schwartz BS, Liu C, Chen EC, Miller SA, Chiu CY, Webb WR
• Clinical Comparison of 99th Percentile and 10% Coefficient of Variation Cutoff Values for Four Commercially Available Troponin I Assays.
  Lab Medicine 2009 Michael Bonham, Steve Miller
• Evaluation of a new-generation line-probe assay that detects 5' untranslated and core regions to genotype and subtype hepatitis C virus.
  American journal of clinical pathology 2007 Nadarajah R, Khan GY, Miller SA, Brooks GF
• Gene expression patterns during adaptation of a helminth parasite to different environmental niches.
  Genome biology 2007 Jolly ER, Chin CS, Miller S, Bahgat MM, Lim KC, DeRisi J, McKerrow JH