Chaz Langelier, MD, PhD
Associate Professor
Medicine
School of Medicine

One focus area involves developing new diagnostic techniques that combine metagenomic sequencing and machine learning to simultaneously profile both host and microbiome from clinical samples. A second focus area involves studying the host response to infections and identifying disease sub-phenotypes that correlate with outcomes. Genomic epidemiology is a third focus area, and our group carries out real-time assessment of hospital outbreaks and surveillance for emerging respiratory pathogens.

• Biological Effects of Corticosteroids on Pneumococcal Pneumonia in Mice and Humans.
  Research square 2024 Taenaka H, Wick KD, Sarma A, Matsumoto S, Ghale R, Fang X, Maishan M, Gotts JE, Langelier CR, Calfee CS, Matthay MA
• Host-Microbe Multiomic Profiling Reveals Age-Dependent COVID-19 Immunopathology.
  medRxiv : the preprint server for health sciences 2024 Van Phan H, Tsitsiklis A, Maguire CP, Haddad EK, Becker PM, Kim-Schulze S, Lee B, Chen J, Hoch A, Pickering H, Van Zalm P, Altman MC, Augustine AD, Calfee CS, Bosinger S, Cairns C, Eckalbar W, Guan L,…
• Respiratory Metagenomics: Ready for Prime Time?
  American journal of respiratory and critical care medicine 2024 Lydon E, Langelier CR
• IgM N-glycosylation correlates with COVID-19 severity and rate of complement deposition.
  Nature communications 2024 Haslund-Gourley BS, Woloszczuk K, Hou J, Connors J, Cusimano G, Bell M, Taramangalam B, Fourati S, Mege N, Bernui M, Altman MC, Krammer F, van Bakel H, IMPACC Network, Maecker HT, Rouphael N, Diray-…
• Host and Microbe Blood Metagenomics Reveals Key Pathways Characterizing Critical Illness Phenotypes.
  American journal of respiratory and critical care medicine 2024 Neyton LPA, Sinha P, Sarma A, Mick E, Kalantar K, Chen S, Wu N, Delucchi K, Zhuo H, Bos LDJ, Jauregui A, Gomez A, Hendrickson CM, Kangelaris KN, Leligdowicz A, Liu KD, Matthay MA, Langelier CR, Calfee…
• Features of acute COVID-19 associated with post-acute sequelae of SARS-CoV-2 phenotypes: results from the IMPACC study.
  Nature communications 2024 Ozonoff A, Jayavelu ND, Liu S, Melamed E, Milliren CE, Qi J, Geng LN, McComsey GA, Cairns CB, Baden LR, Schaenman J, Shaw AC, Samaha H, Seyfert-Margolis V, Krammer F, Rosen LB, Steen H, Syphurs C, …
• Host-Microbe Multi-omic Profiling Identifies a Unique Program of COVID-19 Inflammatory Dysregulation in Solid Organ Transplant Recipients.
  Research square 2023 Langelier C, Pickering H, Schaenman J, Phan H, Maguire C, Tsitsiklis A, Rouphael N, Higuita N, Atkinson M, Breckenridge S, Fung M, Messer W, IMPACC Network, Salehi-Rad R, Altman M, Becker P, Bosinger …
• Cell-Specific Transposable Element Gene Expression Analysis Identifies Associations with Systemic Lupus Erythematosus Phenotypes.
  bioRxiv : the preprint server for biology 2023 Cutts Z, Patterson S, Maliskova L, Taylor KE, Ye C, Dall'Era M, Yazdany J, Criswell L, Fragiadakis GK, Langelier C, Capra JA, Sirota M, Lanata CM
• Integrated longitudinal multi-omics study identifies immune programs associated with COVID-19 severity and mortality in 1152 hospitalized participants.
  bioRxiv : the preprint server for biology 2023 Gygi JP, Maguire C, Patel RK, Shinde P, Konstorum A, Shannon CP, Xu L, Hoch A, Jayavelu ND, Network I, Haddad EK, Reed EF, Kraft M, McComsey GA, Metcalf J, Ozonoff A, Esserman D, Cairns CB, Rouphael N…
• Viral Detection by Reverse Transcriptase Polymerase Chain Reaction in Upper Respiratory Tract and Metagenomic RNA Sequencing in Lower Respiratory Tract in Critically Ill Children With Suspected Lower Respiratory Tract Infection.
  Pediatric critical care medicine : a journal of the Society of Critical Care Medicine and the World Federation of Pediatric Intensive and Critical Care Societies 2023 Osborne CM, Langelier C, Kamm J, Williamson K, Ambroggio L, Reeder RW, Locandro C, Kirk Harris J, Wagner BD, Maddux AB, Caldera S, Lyden A, Soesanto V, Simões EAF, Leroue MK, Carpenter TC, Hall MW, …
• The antibiotic resistance reservoir of the lung microbiome expands with age.
  Research square 2023 Chu VT, Tsitsiklis A, Mick E, Ambroggio L, Kalantar KL, Glascock A, Osborne CM, Wagner BD, Matthay MA, DeRisi JL, Calfee CS, Mourani PM, Langelier CR
• A myeloid program associated with COVID-19 severity is decreased by therapeutic blockade of IL-6 signaling.
  iScience 2023 Hackney JA, Shivram H, Vander Heiden J, Overall C, Orozco L, Gao X, Kim E, West N, Qamra A, Chang D, Chakrabarti A, Choy DF, Combes AJ, Courau T, Fragiadakis GK, Rao AA, Ray A, Tsui J, Hu K, Kuhn NF, …
• 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
• Identifying molecular phenotypes in sepsis: an analysis of two prospective observational cohorts and secondary analysis of two randomised controlled trials.
  The Lancet. Respiratory medicine 2023 Sinha P, Kerchberger VE, Willmore A, Chambers J, Zhuo H, Abbott J, Jones C, Wickersham N, Wu N, Neyton L, Langelier CR, Mick E, He J, Jauregui A, Churpek MM, Gomez AD, Hendrickson CM, Kangelaris KN, …
• Posttransfusion Sepsis Attributable to Bacterial Contamination in Platelet Collection Set Manufacturing Facility, United States.
  Emerging infectious diseases 2023 Kracalik I, Kent AG, Villa CH, Gable P, Annambhotla P, McAllister G, Yokoe D, Langelier CR, Oakeson K, Noble-Wang J, Illoh O, Halpin AL, Eder AF, Basavaraju SV
• Distinct pulmonary and systemic effects of dexamethasone in severe COVID-19.
  Research square 2023 Neyton LPA, Patel RK, Sarma A, UCSF COMET Consortium, Willmore A, Haller SC, Kangelaris KN, Eckalbar WL, Erle DJ, Krummel MF, Hendrickson CM, Woodruff PG, Langelier CR, Calfee CS, Fragiadakis GK
• Clinical and biological heterogeneity of multisystem inflammatory syndrome in adults following SARS-CoV-2 infection: a case series.
  Frontiers in medicine 2023 Barth KE, Spottiswoode N, Hurabielle C, Subbaraj L, COMET Consortium, Calfee CS, Matthay MA, French S, Connolly A, Hewitt SM, Vannella KM, Barnett C, Langelier CR, Patterson S
• Whole-genome sequencing rule-out of suspected hospital-onset Rhizopus outbreaks.
  Infection control and hospital epidemiology 2023 Chu VT, Nafees S, Waltari E, McNeil N, Caughell C, Sanchez-Guerrero E, Wang L, Stanley K, Cunningham G, Wong J, Phelps M, Tato CM, Miller S, DeRisi JL, Yokoe DS, Ramirez-Avila L, Langelier CR
• Multi-omic longitudinal study reveals immune correlates of clinical course among hospitalized COVID-19 patients.
  Cell reports. Medicine 2023 Diray-Arce J, Fourati S, Doni Jayavelu N, Patel R, Maguire C, Chang AC, Dandekar R, Qi J, Lee BH, van Zalm P, Schroeder A, Chen E, Konstorum A, Brito A, Gygi JP, Kho A, Chen J, Pawar S, Gonzalez-…
• Metagenomic Sequencing in the ICU for Precision Diagnosis of Critical Infectious Illnesses.
  Critical care (London, England) 2023 Neyton LPA, Langelier CR, Calfee CS
• Aerosolized nicotine from e-cigarettes alters gene expression, increases lung protein permeability, and impairs viral clearance in murine influenza infection.
  Frontiers in immunology 2023 Maishan M, Sarma A, Chun LF, Caldera S, Fang X, Abbott J, Christenson SA, Langelier CR, Calfee CS, Gotts JE, Matthay MA
• SARS-CoV-2 infection of airway organoids reveals conserved use of Tetraspanin-8 by Ancestral, Delta, and Omicron variants.
  Stem cell reports 2023 Hysenaj L, Little S, Kulhanek K, Magnen M, Bahl K, Gbenedio OM, Prinz M, Rodriguez L, Andersen C, Rao AA, Shen A, Lone JC, Lupin-Jimenez LC, Bonser LR, Serwas NK, Mick E, Khalid MM, Taha TY, Kumar R, …
• Tobacco smoke exposure, the lower airways microbiome and outcomes of ventilated children.
  Pediatric research 2023 Leroue MK, Williamson KM, Curtin PC, Sontag MK, Wagner BD, Ambroggio L, Bixby M, Busgang SA, Murphy SE, Peterson LA, Vevang KR, Sipe CJ, Kirk Harris J, Reeder RW, Locandro C, Carpenter TC, Maddux AB, …
• Workshop-based learning and networking: a scalable model for research capacity strengthening in low- and middle-income countries.
  Global health action 2022 Perier C, Nasinghe E, Charles I, Ssetaba LJ, Ahyong V, Bangs D, Beatty PR, Czudnochowski N, Diallo A, Dugan E, Fabius JM, Fong Baker H, Gardner J, Isaacs S, Joanah B, Kalantar K, Kateete D, Knight M, …
• NKG2D receptor activation drives primary graft dysfunction severity and poor lung transplantation outcomes.
  JCI insight 2022 Calabrese DR, Tsao T, Magnen M, Valet C, Gao Y, Mallavia B, Tian JJ, Aminian EA, Wang KM, Shemesh A, Punzalan EB, Sarma A, Calfee CS, Christenson SA, Langelier CR, Hays SR, Golden JA, Leard LE, …
• Prevalence of type-1 interferon autoantibodies in adults with non-COVID-19 acute respiratory failure.
  Respiratory research 2022 Ghale R, Spottiswoode N, Anderson MS, Mitchell A, Wang G, Calfee CS, DeRisi JL, Langelier CR
• A 2-Gene Host Signature for Improved Accuracy of COVID-19 Diagnosis Agnostic to Viral Variants.
  mSystems 2022 Albright J, Mick E, Sanchez-Guerrero E, Kamm J, Mitchell A, Detweiler AM, Neff N, Tsitsiklis A, Hayakawa Serpa P, Ratnasiri K, Havlir D, Kistler A, DeRisi JL, Pisco AO, Langelier CR
• COVID-19-associated Lung Microvascular Endotheliopathy: A "From the Bench" Perspective.
  American journal of respiratory and critical care medicine 2022 Joffre J, Rodriguez L, Matthay ZA, Lloyd E, Fields AT, Bainton RJ, Kurien P, Sil A, Calfee CS, Woodruff PG, Erle DJ, Hendrickson C, Krummel MF, Langelier CR, Matthay MA, Kornblith LZ, Hellman J, COVID…
• Plasma SARS-CoV-2 nucleocapsid antigen levels are associated with progression to severe disease in hospitalized COVID-19.
  Critical care (London, England) 2022 Wick KD, Leligdowicz A, Willmore A, Carrillo SA, Ghale R, Jauregui A, Chak SS, Nguyen V, Lee D, Jones C, Dewar R, Lane HC, Kangelaris KN, Hendrickson CM, Liu KD, Sinha P, Erle DJ, 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 …
• Upper airway gene expression shows a more robust adaptive immune response to SARS-CoV-2 in children.
  Nature communications 2022 Mick E, Tsitsiklis A, Spottiswoode N, Caldera S, Serpa PH, Detweiler AM, Neff N, Pisco AO, Li LM, Retallack H, Ratnasiri K, Williamson KM, Soesanto V, Simões EAF, Smith C, Abuogi L, Kistler A, Wagner …
• Physical Activity Associates With Lower Systemic Inflammatory Gene Expression in Rheumatoid Arthritis.
  The Journal of rheumatology 2022 Patterson SL, Sun S, Rychkov D, Katz P, Tsitsiklis A, Nakamura MC, Serpa PH, Langelier CR, Sirota M
• Impact of e-cigarette aerosol on primary human alveolar epithelial type 2 cells.
  American journal of physiology. Lung cellular and molecular physiology 2022 Wick KD, Fang X, Maishan M, Matsumoto S, Spottiswoode N, Sarma A, Simoneau C, Khakoo M, Langelier C, Calfee CS, Gotts JE, Matthay MA
• Mass cytometry reveals a conserved immune trajectory of recovery in hospitalized COVID-19 patients.
  Immunity 2022 Burnett CE, Okholm TLH, Tenvooren I, Marquez DM, Tamaki S, Munoz Sandoval P, Willmore A, UCSF COMET Consortium, Hendrickson CM, Kangelaris KN, Langelier CR, Krummel MF, Woodruff PG, Calfee CS, Erle DJ…
• Immediate myeloid depot for SARS-CoV-2 in the human lung.
  Research square 2022 Magnen M, You R, Rao AA, Davis RT, Rodriguez L, Simoneau CR, Hysenaj L, Hu KH, UCSF COMET Consortium, Love C, Woodruff PG, Erle DJ, Hendrickson CM, Calfee CS, Matthay MA, Roose JP, Sil A, Ott M, …
• Immediate myeloid depot for SARS-CoV-2 in the human lung.
  bioRxiv : the preprint server for biology 2022 Magnen M, You R, Rao AA, Davis RT, Rodriguez L, Simoneau CR, Hysenaj L, Hu KH, UCSF COMET Consortium, Love C, Woodruff PG, Erle DJ, Hendrickson CM, Calfee CS, Matthay MA, Roose JP, Sil A, Ott M, …
• COVID-19 in vaccinated versus unvaccinated hematologic malignancy patients.
  Transplant infectious disease : an official journal of the Transplantation Society 2022 DeVoe C, Pandey S, Shariff D, Arora S, Henrich TJ, Yokoe DS, Langelier CR, Servellita V, Chiu C, Miller S, Babik JM, Chin-Hong P, Fung M
• Etiology of Lower Respiratory Tract Infections in Children Requiring Mechanical Ventilation: A Multicenter Prospective Surveillance Study Incorporating Airway Metagenomics
  Lancet Microbe. 2022 • Tsitsiklis A, Osborne CM, Kamm J, Williamson K, Kalantar KL, Dudas G, Caldera S, Lyden A, Tan M, Neff, N, Soesanto V, Harris JK, Ambroggio L, Maddux AB, Carpenter, TC, Sontag MK, Reeder RW, Locandro…
• Pneumonia Surveillance in Ugandans with HIV Through the Lens of Culture-Independent Metatranscriptomics: A Cross Sectional Study
  Lancet Microbe 2022 Spottiswoode N, Bloomstein J, Caldera S, Sessolo A, Byanyima P, Zawedde J, Kalantar K, Kaswabuli S, Rutishauser RL, Davis L, Jan A, Moore J, Iwai S, Shenoy M, Sanyu I, DeRisi JL, Lynch SV, Worodria W.…
• Integrating central nervous system metagenomics and host response for diagnosis of tuberculosis meningitis and its mimics.
  Nature communications 2022 Ramachandran PS, Ramesh A, Creswell FV, Wapniarski A, Narendra R, Quinn CM, Tran EB, Rutakingirwa MK, Bangdiwala AS, Kagimu E, Kandole KT, Zorn KC, Tugume L, Kasibante J, Ssebambulidde K, Okirwoth M, …
• Pneumonia surveillance with culture-independent metatranscriptomics in HIV-positive adults in Uganda: a cross-sectional study.
  The Lancet. Microbe 2022 Spottiswoode N, Bloomstein JD, Caldera S, Sessolo A, McCauley K, Byanyima P, Zawedde J, Kalantar K, Kaswabuli S, Rutishauser RL, Lieng MK, Davis JL, Moore J, Jan A, Iwai S, Shenoy M, Sanyu I, DeRisi …
• 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, …
• A conserved immune trajectory of recovery in hospitalized COVID-19 patients.
  bioRxiv : the preprint server for biology 2022 Burnett CE, Okholm TLH, Tenvooren I, Marquez DM, Tamaki S, Sandoval PM, UCSF COMET Consortium, Calfee CS, Hendrickson CM, Kangelaris KN, Langelier CR, Krummel MF, Woodruff PG, Erle DJ, Ansel KM, …
• Lower respiratory tract infections in children requiring mechanical ventilation: a multicentre prospective surveillance study incorporating airway metagenomics.
  The Lancet. Microbe 2022 Tsitsiklis A, Osborne CM, Kamm J, Williamson K, Kalantar K, Dudas G, Caldera S, Lyden A, Tan M, Neff N, Soesanto V, Harris JK, Ambroggio L, Maddux AB, Carpenter TC, Reeder RW, Locandro C, Simões EAF, …
• Functional Transcriptomic Studies of Immune Responses and Endotoxin Tolerance in Early Human Sepsis.
  Shock (Augusta, Ga.) 2022 Leligdowicz A, Kamm J, Kalantar K, Jauregui A, Vessel K, Caldera S, Serpa PH, Abbott J, Fang X, Tian X, Prakash A, Kangelaris KN, Liu KD, Calfee CS, Langelier C, Matthay MA
• Impaired immune signaling and changes in the lung microbiome precede secondary bacterial pneumonia in COVID-19.
  medRxiv : the preprint server for health sciences 2021 Tsitsiklis A, Zha BS, Byrne A, DeVoe C, Rackaityte E, Levan S, Sunshine S, Mick E, Ghale R, Love C, Tarashansky AJ, Pisco A, Albright J, Jauregui A, Sarma A, Neff N, Serpa PH, Deiss TJ, Kistler A, …
• Cerebrospinal Fluid Pterins, Pterin-Dependent Neurotransmitters, and Mortality in Pediatric Cerebral Malaria.
  The Journal of infectious diseases 2021 Rubach MP, Mukemba JP, Florence SM, Lopansri BK, Hyland K, Simmons RA, Langelier C, Nakielny S, DeRisi JL, Yeo TW, Anstey NM, Weinberg JB, Mwaikambo ED, Granger DL
• Increased rates of secondary bacterial infections, including Enterococcus bacteremia, in patients hospitalized with coronavirus disease 2019 (COVID-19).
  Infection control and hospital epidemiology 2021 DeVoe C, Segal MR, Wang L, Stanley K, Madera S, Fan J, Schouest J, Graham-Ojo R, Nichols A, Prasad PA, Ghale R, Love C, Abe-Jones Y, Kangelaris KN, Patterson SL, Yokoe DS, Langelier CR
• Increased risk of severe clinical course of COVID-19 in carriers of HLA-C*04:01.
  EClinicalMedicine 2021 Weiner J, Suwalski P, Holtgrewe M, Rakitko A, Thibeault C, Müller M, Patriki D, Quedenau C, Krüger U, Ilinsky V, Popov I, Balnis J, Jaitovich A, Helbig ET, Lippert LJ, Stubbemann P, Real LM, Macías J,…
• Upper airway gene expression reveals a more robust innate and adaptive immune response to SARS-CoV-2 in children compared with older adults.
  Research square 2021 Mick E, Tsitsiklis A, Spottiswoode N, Caldera S, Serpa PH, Detweiler AM, Neff N, Pisco AO, Li LM, Retallack H, Ratnasiri K, Williamson KM, Soesanto V, Simões EAF, Kistler A, Wagner BD, DeRisi JL, …
• Type I interferon autoantibodies are associated with systemic immune alterations in patients with COVID-19.
  Science translational medicine 2021 van der Wijst MGP, Vazquez SE, Hartoularos GC, Bastard P, Grant T, Bueno R, Lee DS, Greenland JR, Sun Y, Perez R, Ogorodnikov A, Ward A, Mann SA, Lynch KL, Yun C, Havlir DV, Chamie G, Marquez C, …
• Metagenomic characterization of swine slurry in a North American swine farm operation.
  Scientific reports 2021 Ramesh A, Bailey ES, Ahyong V, Langelier C, Phelps M, Neff N, Sit R, Tato C, DeRisi JL, Greer AG, Gray GC
• Host-Microbe Metagenomics: a Lens To Refocus Our Perspective on Infectious and Inflammatory Diseases.
  mSystems 2021 Kalantar KL, Langelier CR
• Publisher Correction: Global absence and targeting of protective immune states in severe COVID-19.
  Nature 2021 Combes AJ, Courau T, Kuhn NF, Hu KH, Ray A, Chen WS, Chew NW, Cleary SJ, Kushnoor D, Reeder GC, Shen A, Tsui J, Hiam-Galvez KJ, Muñoz-Sandoval P, Zhu WS, Lee DS, Sun Y, You R, Magnen M, Rodriguez L, …
• The sputum transcriptome better predicts COPD exacerbations after the withdrawal of inhaled corticosteroids than sputum eosinophils.
  ERJ open research 2021 Ditz B, Sarma A, Kerstjens HAM, Liesker JJW, Bathoorn E, Vonk JM, Bernal V, Horvatovich P, Guryev V, Caldera S, Langelier C, Faiz A, Christenson SA, van den Berge M
• SARS-CoV-2 infection studies in lung organoids identify TSPAN8 as novel mediator.
  bioRxiv : the preprint server for biology 2021 Hysenaj L, Little S, Kulhanek K, Gbenedio OM, Rodriguez L, Shen A, Lone JC, Lupin-Jimenez LC, Bonser LR, Serwas NK, Bahl K, Mick E, Li JZ, Ding VW, Matsumoto S, Maishan M, Simoneau C, Fragiadakis G, …
• Intestinal Infection Is Associated With Impaired Lung Innate Immunity to Secondary Respiratory Infection.
  Open forum infectious diseases 2021 Trivedi S, Grossmann AH, Jensen O, Cody MJ, Wahlig TA, Hayakawa Serpa P, Langelier C, Warren KJ, Yost CC, Leung DT
• Impaired immune signaling and changes in the lung microbiome precede secondary bacterial pneumonia in COVID-19.
  Research square 2021 Tsitsiklis A, Zha BS, Byrne A, Devoe C, Levan S, Rackaityte E, Sunshine S, Mick E, Ghale R, Jauregui A, Sarma A, Neff N, Serpa PH, Deiss TJ, Kistler A, Carrillo S, Ansel KM, Leligdowicz A, Christenson…
• Genetic and non-genetic factors affecting the expression of COVID-19-relevant genes in the large airway epithelium.
  Genome medicine 2021 Kasela S, Ortega VE, Martorella M, Garudadri S, Nguyen J, Ampleford E, Pasanen A, Nerella S, Buschur KL, Barjaktarevic IZ, Barr RG, Bleecker ER, Bowler RP, Comellas AP, Cooper CB, Couper DJ, Criner GJ…
• Temporal airway microbiome changes related to ventilator-associated pneumonia in children.
  The European respiratory journal 2021 Mourani PM, Sontag MK, Williamson KM, Harris JK, Reeder R, Locandro C, Carpenter TC, Maddux AB, Ziegler K, Simões EAF, Osborne CM, Ambroggio L, Leroue MK, Robertson CE, Langelier C, DeRisi JL, Kamm J,…
• Longitudinal single-cell epitope and RNA-sequencing reveals the immunological impact of type 1 interferon autoantibodies in critical COVID-19: Anti-IFN antibodies in critical COVID-19 correlate with poor ISG response and upregulation of LAIR1 surface protein in PBMCs.
  bioRxiv : the preprint server for biology 2021 van der Wijst MGP, Vazquez SE, Hartoularos GC, Bastard P, Grant T, Bueno R, Lee DS, Greenland JR, Sun Y, Perez R, Ogorodnikov A, Ward A, Mann SA, Lynch KL, Yun C, Havlir DV, Chamie G, Marquez C, …
• Nasopharyngeal SARS-CoV-2 viral loads in young children do not differ significantly from those in older children and adults.
  Scientific reports 2021 Madera S, Crawford E, Langelier C, Tran NK, Thornborrow E, Miller S, DeRisi JL
• Global absence and targeting of protective immune states in severe COVID-19.
  Nature 2021 Combes AJ, Courau T, Kuhn NF, Hu KH, Ray A, Chen WS, Chew NW, Cleary SJ, Kushnoor D, Reeder GC, Shen A, Tsui J, Hiam-Galvez KJ, Muñoz-Sandoval P, Zhu WS, Lee DS, Sun Y, You R, Magnen M, Rodriguez L, …
• Antibiotic-Selected Gene Amplification Heightens Metal Resistance.
  mBio 2021 Hufnagel DA, Choby JE, Hao S, Johnson AF, Burd EM, Langelier C, Weiss DS
• COVID-19 ARDS is characterized by a dysregulated host response that differs from cytokine storm and is modified by dexamethasone.
  Research square 2021 Sarma A, Christenson SA, Mick E, DeVoe C, Deiss T, Pisco AO, Ghale R, Jauregui A, Byrne A, Moazed F, Spottiswoode N, Sinha P, Zha BS, Neff N, Tan M, Serpa PH, Ansel KM, Wilson JG, Leligdowicz A, …
• Amplification-free detection of SARS-CoV-2 with CRISPR-Cas13a and mobile phone microscopy.
  Cell 2020 Fozouni P, Son S, Díaz de León Derby M, Knott GJ, Gray CN, D'Ambrosio MV, Zhao C, Switz NA, Kumar GR, Stephens SI, Boehm D, Tsou CL, Shu J, Bhuiya A, Armstrong M, Harris AR, Chen PY, Osterloh JM, …
• Dose-Dependent Pulmonary Toxicity of Aerosolized Vitamin E Acetate.
  American journal of respiratory cell and molecular biology 2020 Matsumoto S, Fang X, Traber MG, Jones KD, Langelier C, Hayakawa Serpa P, Calfee CS, Matthay MA, Gotts JE
• Type-1 immunity and endogenous immune regulators predominate in the airway transcriptome during chronic lung allograft dysfunction.
  American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons 2020 Iasella CJ, Hoji A, Popescu I, Wei J, Snyder ME, Zhang Y, Xu W, Iouchmanov V, Koshy R, Brown M, Fung M, Langelier C, Lendermon EA, Dugger D, Shah R, Lee J, Johnson B, Golden J, Leard LE, Ellen …
• Upper airway gene expression reveals suppressed immune responses to SARS-CoV-2 compared with other respiratory viruses.
  Nature communications 2020 Mick E, Kamm J, Pisco AO, Ratnasiri K, Babik JM, Castañeda G, DeRisi JL, Detweiler AM, Hao SL, Kangelaris KN, Kumar GR, Li LM, Mann SA, Neff N, Prasad PA, Serpa PH, Shah SJ, Spottiswoode N, Tan M, …
• Global Absence and Targeting of Protective Immune States in Severe COVID-19.
  bioRxiv : the preprint server for biology 2020 Combes AJ, Courau T, Kuhn NF, Hu KH, Ray A, Chen WS, Cleary SJ, Chew NW, Kushnoor D, Reeder GC, Shen A, Tsui J, Hiam-Galvez KJ, Muñoz-Sandoval P, Zhu WS, Lee DS, Sun Y, You R, Magnen M, Rodriguez L, …
• Global Absence and Targeting of Protective Immune States in Severe COVID-19.
  Research square 2020 Combes AJ, Courau T, Kuhn NF, Hu KH, Ray A, Chen WS, Cleary SJ, Chew NW, Kushnoor D, Reeder GC, Shen A, Tsui J, Hiam-Galvez KJ, Muñoz-Sandoval P, Zhu WS, Lee DS, Sun Y, You R, Magnen M, Rodriguez L, …
• Rapid deployment of SARS-CoV-2 testing: The CLIAHUB.
  PLoS pathogens 2020 Crawford ED, Acosta I, Ahyong V, Anderson EC, Arevalo S, Asarnow D, Axelrod S, Ayscue P, Azimi CS, Azumaya CM, Bachl S, Bachmutsky I, Bhaduri A, Brown JB, Batson J, Behnert A, Boileau RM, Bollam SR, …
• Chronic lung allograft dysfunction small airways reveal a lymphocytic inflammation gene signature.
  American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons 2020 Dugger DT, Fung M, Hays SR, Singer JP, Kleinhenz ME, Leard LE, Golden JA, Shah RJ, Lee JS, Deiter F, Greenland NY, Jones KD, Langelier CR, Greenland JR
• Genomic Profiling of Evolving Daptomycin Resistance in a Patient with Recurrent Staphylococcus argenteus Sepsis.
  Antimicrobial agents and chemotherapy 2020 Hao S, Abdelghany M, Lyden A, Sit R, Tan M, Tato CM, DeRisi JL, Miller S, Doernberg SB, Langelier C
• Clinical features, diagnostics, and outcomes of patients presenting with acute respiratory illness: A retrospective cohort study of patients with and without COVID-19.
  EClinicalMedicine 2020 Shah SJ, Barish PN, Prasad PA, Kistler A, Neff N, Kamm J, Li LM, Chiu CY, Babik JM, Fang MC, Abe-Jones Y, Alipanah N, Alvarez FN, Botvinnik OB, Castaneda G, CZB CLIAhub Consortium, Dadasovich RM, …
• Investigating Transfusion-related Sepsis Using Culture-Independent Metagenomic Sequencing.
  Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Crawford E, Kamm J, Miller S, Li LM, Caldera S, Lyden A, Yokoe D, Nichols A, Tran NK, Barnard SE, Conner PM, Nambiar A, Zinter MS, Moayeri M, Serpa PH, Prince BC, Quan J, Sit R, Tan M, Phelps M, …
• Sepsis from an apheresis platelet contaminated with Acinetobacter calcoaceticus/baumannii complex bacteria and Staphylococcus saprophyticus after pathogen reduction.
  Transfusion 2020 Fridey JL, Stramer SL, Nambiar A, Moayeri M, Bakkour S, Langelier C, Crawford E, Lu T, Lanteri MC, Kamm J, Miller S, Wagner SJ, Benjamin RJ, Busch MP
• Draft Genome Sequence of an Extensively Drug-Resistant Salmonella enterica Serovar Typhi Strain from a Returned Traveler from Pakistan.
  Microbiology resource announcements 2020 Hao S, Veuthey T, Caldera S, Serpa PH, Haller B, Tan M, Neff N, Madera S, Langelier C
• Cystic Fibrosis Lung Transplant Recipients Have Suppressed Airway Interferon Responses during Pseudomonas Infection.
  Cell reports. Medicine 2020 Dugger DT, Fung M, Zlock L, Caldera S, Sharp L, Hays SR, Singer JP, Leard LE, Golden JA, Shah RJ, Kukreja J, Gordon E, Finkbeiner W, Kleinhenz ME, Langelier C, Greenland JR
• Clinical outcomes and serologic response in solid organ transplant recipients with COVID-19: A case series from the United States.
  American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons 2020 Fung M, Chiu CY, DeVoe C, Doernberg SB, Schwartz BS, Langelier C, Henrich TJ, Yokoe D, Davis J, Hays SR, Chandran S, Kukreja J, Ng D, Prostko J, Taylor R, Reyes K, Bainbridge E, Bond A, Chin-Hong P, …
• The ex vivo perfused human lung is resistant to injury by high-dose S. pneumoniae bacteremia.
  American journal of physiology. Lung cellular and molecular physiology 2020 Ross JT, Nesseler N, Leligdowicz A, Zemans RL, Mahida RY, Minus E, Langelier C, Gotts JE, Matthay MA
• The gut microbiome's role in the development, maintenance, and outcomes of sepsis.
  Critical care (London, England) 2020 Adelman MW, Woodworth MH, Langelier C, Busch LM, Kempker JA, Kraft CS, Martin GS
• Upper airway gene expression differentiates COVID-19 from other acute respiratory illnesses and reveals suppression of innate immune responses by SARS-CoV-2.
  medRxiv : the preprint server for health sciences 2020 Mick E, Kamm J, Pisco AO, Ratnasiri K, Babik JM, Calfee CS, Castañeda G, DeRisi JL, Detweiler AM, Hao S, Kangelaris KN, Kumar GR, Li LM, Mann SA, Neff N, Prasad PA, Serpa PH, Shah SJ, Spottiswoode N, …
• Clinical features, diagnostics, and outcomes of patients presenting with acute respiratory illness: a comparison of patients with and without COVID-19.
  medRxiv : the preprint server for health sciences 2020 Shah SJ, Barish PN, Prasad PA, Kistler AL, Neff N, Kamm J, Li LM, Chiu CY, Babick JM, Fang MC, Abe-Jones Y, Alipanah N, Alvarez FN, Botvinnik OB, Davis JM, Castenada GD, Consortium C, Dadasovich RM, …
• Central Nervous System Virus Infection in African Children with Cerebral Malaria.
  The American journal of tropical medicine and hygiene 2020 Postels DG, Osei-Tutu L, Seydel KB, Xu Q, Li C, Taylor TE, John CC, Mallewa M, Solomon T, Agbenyega T, Ansong D, Opoka RO, Khan LM, Ramachandran PS, Leon KE, DeRisi JL, Langelier C, Wilson MR
• Genomic and serologic characterization of enterovirus A71 brainstem encephalitis.
  Neurology(R) neuroimmunology & neuroinflammation 2020 Leon KE, Schubert RD, Casas-Alba D, Hawes IA, Ramachandran PS, Ramesh A, Pak JE, Wu W, Cheung CK, Crawford ED, Khan LM, Launes C, Sample HA, Zorn KC, Cabrerizo M, Valero-Rello A, Langelier C, Muñoz-…
• Detection of Pneumonia Pathogens from Plasma Cell-Free DNA.
  American journal of respiratory and critical care medicine 2020 Langelier C, Fung M, Caldera S, Deiss T, Lyden A, Prince BC, Serpa PH, Moazed F, Chin-Hong P, DeRisi JL, Calfee CS
• Unbiased Metagenomic Sequencing for Pediatric Meningitis in Bangladesh Reveals Neuroinvasive Chikungunya Virus Outbreak and Other Unrealized Pathogens.
  mBio 2019 Saha S, Ramesh A, Kalantar K, Malaker R, Hasanuzzaman M, Khan LM, Mayday MY, Sajib MSI, Li LM, Langelier C, Rahman H, Crawford ED, Tato CM, Islam M, Juan YF, de Bourcy C, Dimitrov B, Wang J, Tang J, …
• FLASH: a next-generation CRISPR diagnostic for multiplexed detection of antimicrobial resistance sequences.
  Nucleic acids research 2019 Quan J, Langelier C, Kuchta A, Batson J, Teyssier N, Lyden A, Caldera S, McGeever A, Dimitrov B, King R, Wilheim J, Murphy M, Ares LP, Travisano KA, Sit R, Amato R, Mumbengegwi DR, Smith JL, Bennett A…
• Microbiome and Antimicrobial Resistance Gene Dynamics in International Travelers.
  Emerging infectious diseases 2019 Langelier C, Graves M, Kalantar K, Caldera S, Durrant R, Fisher M, Backman R, Tanner W, DeRisi JL, Leung DT
• Metagenomic next-generation sequencing of samples from pediatric febrile illness in Tororo, Uganda.
  PloS one 2019 Ramesh A, Nakielny S, Hsu J, Kyohere M, Byaruhanga O, de Bourcy C, Egger R, Dimitrov B, Juan YF, Sheu J, Wang J, Kalantar K, Langelier C, Ruel T, Mpimbaza A, Wilson MR, Rosenthal PJ, DeRisi JL
• Sepsis Attributed to Bacterial Contamination of Platelets Associated with a Potential Common Source - Multiple States, 2018.
  MMWR. Morbidity and mortality weekly report 2019 Jones SA, Jones JM, Leung V, Nakashima AK, Oakeson KF, Smith AR, Hunter R, Kim JJ, Cumming M, McHale E, Young PP, Fridey JL, Kelley WE, Stramer SL, Wagner SJ, West FB, Herron R, Snyder E, Hendrickson …
• Clinical Metagenomic Sequencing for Diagnosis of Meningitis and Encephalitis.
  The New England journal of medicine 2019 Wilson MR, Sample HA, Zorn KC, Arevalo S, Yu G, Neuhaus J, Federman S, Stryke D, Briggs B, Langelier C, Berger A, Douglas V, Josephson SA, Chow FC, Fulton BD, DeRisi JL, Gelfand JM, Naccache SN, …
• Sentinel Case of Candida auris in the Western United States Following Prolonged Occult Colonization in a Returned Traveler from India.
  Microbial drug resistance (Larchmont, N.Y.) 2019 Woodworth MH, Dynerman D, Crawford ED, Doernberg SB, Ramirez-Avila L, Serpa PH, Nichols A, Li LM, Lyden A, Tato CM, Miller S, Derisi JL, Langelier C
• Detection of Cryptococcus DNA by Metagenomic Next-generation Sequencing in Symptomatic Cryptococcal Antigenemia.
  Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2019 Ramachandran PS, Cresswell FV, Meya DB, Langelier C, Crawford ED, DeRisi JL, Boulware DR, Wilson MR
• Pulmonary Metagenomic Sequencing Suggests Missed Infections in Immunocompromised Children.
  Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2019 Zinter MS, Dvorak CC, Mayday MY, Iwanaga K, Ly NP, McGarry ME, Church GD, Faricy LE, Rowan CM, Hume JR, Steiner ME, Crawford ED, Langelier C, Kalantar K, Chow ED, Miller S, Shimano K, Melton A, Yanik …
• Bergeyella cardium: Clinical Characteristics and Draft Genome of an Emerging Pathogen in Native and Prosthetic Valve Endocarditis.
  Open forum infectious diseases 2019 Mulliken JS, Langelier C, Budak JZ, Miller S, Dynerman D, Hao S, Li LM, Crawford E, Lyden A, Woodworth MH, DeRisi JL, Desmond E, Browne C, Luu A, Grandis DJ, Grossman W, Deuse T, Melcher GP
• Metagenomic comparison of tracheal aspirate and mini-bronchial alveolar lavage for assessment of respiratory microbiota.
  American journal of physiology. Lung cellular and molecular physiology 2019 Kalantar KL, Moazed F, Christenson SC, Wilson J, Deiss T, Belzer A, Vessel K, Caldera S, Jauregui A, Bolourchi S, DeRisi JL, Calfee CS, Langelier C
• A high five for TB screening
  Science Translational Medicine 2018 Langelier, C.
• Malaria and the Microbiome: A Systematic Review.
  Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2018 Ippolito MM, Denny JE, Langelier C, Sears CL, Schmidt NW
• Integrating host response and unbiased microbe detection for lower respiratory tract infection diagnosis in critically ill adults.
  Proceedings of the National Academy of Sciences of the United States of America 2018 Langelier C, Kalantar KL, Moazed F, Wilson MR, Crawford ED, Deiss T, Belzer A, Bolourchi S, Caldera S, Fung M, Jauregui A, Malcolm K, Lyden A, Khan L, Vessel K, Quan J, Zinter M, Chiu CY, Chow ED, …
• Breakthrough Invasive Fungal Infections on Isavuconazole Prophylaxis and Treatment: What Is Happening in the Real-World Setting?
  Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2018 Fung M, Schwartz BS, Doernberg SB, Langelier C, Lo M, Graff L, Tan M, Logan AC, Chin-Hong P, Babik JM
• The resistance potential of a quintessential commensal
  Science Translational Medicine 2018 Langelier, Chaz
• Chronic Meningitis Investigated via Metagenomic Next-Generation Sequencing.
  JAMA neurology 2018 Wilson MR, O'Donovan BD, Gelfand JM, Sample HA, Chow FC, Betjemann JP, Shah MP, Richie MB, Gorman MP, Hajj-Ali RA, Calabrese LH, Zorn KC, Chow ED, Greenlee JE, Blum JH, Green G, Khan LM, Banerji D, …
• A molecular warning system for invasive pneumococcus
  Science Translational Medicine 2018 Chaz Langelier
• A firsthand view of how secondhand smoke disrupts airway immunity
  Science Translational Medicine 2018 Chaz Langelier
• Lung Microbiota Is Related to Smoking Status and to Development of Acute Respiratory Distress Syndrome in Critically Ill Trauma Patients.
  American journal of respiratory and critical care medicine 2018 Panzer AR, Lynch SV, Langelier C, Christie JD, McCauley K, Nelson M, Cheung CK, Benowitz NL, Cohen MJ, Calfee CS
• A proactive charcoal approach shields the gut microbiome from systemic antibiotics
  Science Translational Medicine 2018 Chaz Langelier
• Metagenomic Sequencing Detects Respiratory Pathogens in Hematopoietic Cellular Transplant Patients.
  American journal of respiratory and critical care medicine 2018 Langelier C, Zinter MS, Kalantar K, Yanik GA, Christenson S, O'Donovan B, White C, Wilson M, Sapru A, Dvorak CC, Miller S, Chiu CY, DeRisi JL
• IFN-stimulated Gene Expression, Type 2 Inflammation, and Endoplasmic Reticulum Stress in Asthma.
  American journal of respiratory and critical care medicine 2018 Bhakta NR, Christenson SA, Nerella S, Solberg OD, Nguyen CP, Choy DF, Jung KL, Garudadri S, Bonser LR, Pollack JL, Zlock LT, Erle DJ, Langelier C, Derisi JL, Arron JR, Fahy JV, Woodruff PG
• Transcriptomic profiling reveals gene expression kinetics in patients with hypoxia and high altitude pulmonary edema.
  Gene 2018 Yuhong L, Tana W, Zhengzhong B, Feng T, Qin G, Yingzhong Y, Wei G, Yaping W, Langelier C, Rondina MT, Ge RL
• Complete Genome Sequence of a Divergent Human Rhinovirus C Isolate from an Infant with Severe Community-Acquired Pneumonia in Colorado, USA.
  Genome announcements 2017 Langelier C, White CV, Sontag MK, Mourani PM, DeRisi JL
• Use of isavuconazole in a patient with voriconazole-induced QTc prolongation.
  Transplant infectious disease : an official journal of the Transplantation Society 2017 Trang TP, Hanretty AM, Langelier C, Yang K
• Assessing biosynthetic potential of agricultural groundwater through metagenomic sequencing: A diverse anammox community dominates nitrate-rich groundwater.
  PloS one 2017 Ludington WB, Seher TD, Applegate O, Li X, Kliegman JI, Langelier C, Atwill ER, Harter T, DeRisi JL
• Antimicrobial Resistance: A Call to Action!
  Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2016 Brown L, Langelier C, Reid MJ, Rutishauser RL, Strnad L
• Raccoon Roundworm Infection Associated with Central Nervous System Disease and Ocular Disease - Six States, 2013-2015.
  MMWR. Morbidity and mortality weekly report 2016 Sircar AD, Abanyie F, Blumberg D, Chin-Hong P, Coulter KS, Cunningham D, Huskins WC, Langelier C, Reid M, Scott BJ, Shirley DA, Babik JM, Belova A, Sapp SG, McAuliffe I, Rivera HN, Yabsley MJ, …
• Baylisascaris procyonis-Associated Meningoencephalitis in a Previously Healthy Adult, California, USA.
  Emerging infectious diseases 2016 Langelier C, Reid MJ, Halabi C, Witek N, LaRiviere A, Shah M, Wilson MR, Chin-Hong P, Douglas V, Kazacos KR, Babik JM
• Monocyte polarization in children with falciparum malaria: relationship to nitric oxide insufficiency and disease severity.
  Scientific reports 2016 Weinberg JB, Volkheimer AD, Rubach MP, Florence SM, Mukemba JP, Kalingonji AR, Langelier C, Chen Y, Bush M, Yeo TW, Granger DL, Anstey NM, Mwaikambo ED
• An Expression of Clinical Significance: Exploring the Human Genome to Understand the Variable Response to Rhinovirus.
  American journal of respiratory and critical care medicine 2016 Langelier C, Christenson SA
• 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
• Beyond the superficial: Coccidioides immitis fungaemia in a man with fever, fatigue and skin nodules: a case of an emerging and evolving pathogen.
  BMJ case reports 2014 Langelier C, Baxi SM, Iribarne D, Chin-Hong P
• Clinical, genomic, and metagenomic characterization of oral tongue squamous cell carcinoma in patients who do not smoke.
  Head & neck 2014 Li R, Faden DL, Fakhry C, Langelier C, Jiao Y, Wang Y, Wilkerson MD, Pedamallu CS, Old M, Lang J, Loyo M, Ahn SM, Tan M, Gooi Z, Chan J, Richmon J, Wood LD, Hruban RH, Bishop J, Westra WH, Chung CH, …
• Think global, act local: chronic dysuria and sterile pyuria in an Eritrean-American woman.
  BMJ case reports 2014 Rutishauser RL, Langelier C, Baxi SM, Hanks D, Chin-Hong P
• Discovery of novel small-molecule HIV-1 replication inhibitors that stabilize capsid complexes.
  Antimicrobial agents and chemotherapy 2013 Lamorte L, Titolo S, Lemke CT, Goudreau N, Mercier JF, Wardrop E, Shah VB, von Schwedler UK, Langelier C, Banik SS, Aiken C, Sundquist WI, Mason SW
• Structural basis for ESCRT-III protein autoinhibition.
  Nature structural & molecular biology 2009 Bajorek M, Schubert HL, McCullough J, Langelier C, Eckert DM, Stubblefield WM, Uter NT, Myszka DG, Hill CP, Sundquist WI
• Biochemical characterization of a recombinant TRIM5alpha protein that restricts human immunodeficiency virus type 1 replication.
  Journal of virology 2008 Langelier CR, Sandrin V, Eckert DM, Christensen DE, Chandrasekaran V, Alam SL, Aiken C, Olsen JC, Kar AK, Sodroski JG, Sundquist WI
• The molecular mechanism of hepcidin-mediated ferroportin down-regulation.
  Molecular biology of the cell 2007 De Domenico I, Ward DM, Langelier C, Vaughn MB, Nemeth E, Sundquist WI, Ganz T, Musci G, Kaplan J
• Structural basis for ubiquitin recognition by the human ESCRT-II EAP45 GLUE domain.
  Nature structural & molecular biology 2006 Alam SL, Langelier C, Whitby FG, Koirala S, Robinson H, Hill CP, Sundquist WI
• Human ESCRT-II complex and its role in human immunodeficiency virus type 1 release.
  Journal of virology 2006 Langelier C, von Schwedler UK, Fisher RD, De Domenico I, White PL, Hill CP, Kaplan J, Ward D, Sundquist WI
• Inflammatory cytokines and cell death in BEAS-2B lung cells treated with soil dust, lipopolysaccharide, and surface-modified particles.
  Toxicological sciences : an official journal of the Society of Toxicology 2004 Veranth JM, Reilly CA, Veranth MM, Moss TA, Langelier CR, Lanza DL, Yost GS
• Recognition of the nonpolar base 4-methylindole in DNA by the DNA repair adenine glycosylase MutY.
  Organic letters 2000 Chepanoske CL, Langelier CR, Chmiel NH, David SS