Richard Scheuermann

Title(s)Adjunct Professor, Pathology
SchoolVc-health Sciences-schools
Address9500 Gilman Drive #
La Jolla CA 92093
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    Collapse Biography 
    Collapse Education and Training
    University of California, Berkeley, Berkeley, CAPhD06/1986Molecular Biology
    Massachusetts Institute of Technology, Cambridge, MABS06/1981Life Sciences

    Collapse Overview 
    Collapse Overview
    Richard H. Scheuermann, Ph.D., is the Director of the J. Craig Venter Institute (JCVI) La Jolla Campus, and an Adjunct Professor of Pathology at U.C. San Diego. He received a B.S. in Life Sciences from the Massachusetts Institute of Technology, and a Ph.D. in Molecular Biology from the University of California, Berkeley. Dr. Scheuermann has applied his deep knowledge of molecular immunology and infectious disease to the development of novel computational data mining methods and knowledge representation approaches, including the development of biomedical ontologies and their use in data mining, and the development of novel methods for gene expression, protein network, flow cytometry, and comparative genomics data analysis. These computational methods have been made available through several public database and analysis resources, including the Influenza Research Database (IRD; www.fludb.org), the Virus Pathogen Resource (ViPR; www.viprbrc.org) and the Immunology Database and Analysis Portal (ImmPort; https://immport.niaid.nih.gov/) supported by the U.S. National Institutes of Health. More recently, Dr. Scheuermann have worked to develop computation methods and analytical pipelines incorporating machine learning approaches to process and analyze single cell and single nuclei RNA sequencing data.

    Collapse Research 
    Collapse Research Activities and Funding
    A Community Framework for Data-driven Brain Transcriptomic Cell Type Definition, Ontology, and Nomenclature
    NIH RF1MH123220Sep 4, 2020 - Sep 3, 2022
    Role: Co-Principal Investigator
    Transformative Computational Infrastructures for Cell-Based Biomarker Diagnostics
    NIH U01TR001801Sep 15, 2016 - Jun 30, 2021
    Role: Co-Principal Investigator
    Somatic Mutation in the Etiology of Multiple Sclerosis
    NIH R21AI122100Jul 1, 2016 - Dec 31, 2019
    Role: Principal Investigator
    Bioinformatics Resource Center
    NIH 272200900041C-1-0-1Oct 1, 2009 - Sep 30, 2014
    Role: Principal Investigator
    Bioinformatics Resource Center
    NIH 272200900041C-1-0-9Oct 1, 2009 - Sep 30, 2014
    Role: Principal Investigator
    Bioinformatics Integration Support Contract for Biodefense
    NIH N01AI40076-11-0-1Sep 29, 2004 - Dec 31, 2011
    Role: Principal Investigator
    Bioinformatics Integration Support Contract for Immune-Mediated Diseases
    NIH N01AI40076-11-0-2Sep 29, 2004 - Dec 31, 2011
    Role: Principal Investigator
    Bioinformatics Integration Support Contract for Biodefense
    NIH N01AI40076-10-0-1Sep 29, 2004 - Sep 29, 2010
    Role: Principal Investigator
    BIOINFORMATICS RESOURCE CENTERS
    NIH N01AI40041-11-0-1Jun 30, 2004 - Jun 30, 2013
    Role: Principal Investigator
    BIOINFORMATICS RESOURCE CENTERS FOR BIODEFENSE
    NIH/NIAID N01AI40041Jun 30, 2004 - Jun 29, 2009
    Role: Principal Investigator
    Functional Characterization of BAFF-induced Genes
    NIH R01AI056216Jul 1, 2003 - Dec 31, 2008
    Role: Principal Investigator
    Database development and modeling of signal transduction
    NIH F33CA094654May 2, 2002
    Role: Principal Investigator
    POPULATION STABILITY IN TUMOR DORMANCY
    NIH R01CA078793Aug 1, 1998 - May 31, 2004
    Role: Principal Investigator
    MINIMAL RESIDUAL DISEASE EVALUATION TO GUIDE THERAPY
    NIH R21CA074965Jul 1, 1998 - Jun 30, 2000
    Role: Principal Investigator
    CELL-TYPE SPECIFIC SUPPRESSION OF THE IGH ENHANCER
    NIH R01GM050329Sep 15, 1994 - Feb 28, 2001
    Role: Principal Investigator
    CELL TYPE SPECIFIC SUPPRESSION OF THE IGH ENHANCER
    NIH R55GM050329Sep 15, 1994 - Feb 29, 1996
    Role: Principal Investigator
    Integrative Immunology Training Grant
    NIH T32AI005284Jul 1, 1980 - Jun 30, 2025
    Role: Co-Principal Investigator
    DMID CLINICAL RESEARCH OPERATIONS AND MANAGEMENT SUPPORT
    NIH N01AI000000Dec 31, 2022
    Role: Co-Principal Investigator
    Bioinformatics Integration Support Contract for Biodefense
    NIH/NIAID N01AI40076Sep 29, 2010
    Role: Co-Principal Investigator

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Coordinating virus research: The Virus Infectious Disease Ontology. PLoS One. 2024; 19(1):e0285093. Beverley J, Babcock S, Carvalho G, Cowell LG, Duesing S, He Y, Hurley R, Merrell E, Scheuermann RH, Smith B. PMID: 38236918; PMCID: PMC10796065.
      View in: PubMed   Mentions:    Fields:    Translation:HumansPHPublic Health
    2. Cochlear transcriptome analysis of an outbred mouse population (CFW). Front Cell Neurosci. 2023; 17:1256619. Boussaty EC, Tedeschi N, Novotny M, Ninoyu Y, Du E, Draf C, Zhang Y, Manor U, Scheuermann RH, Friedman R. PMID: 38094513; PMCID: PMC10716316.
      View in: PubMed   Mentions: 1  
    3. Circular extrachromosomal DNA promotes tumor heterogeneity in high-risk medulloblastoma. Nat Genet. 2023 Dec; 55(12):2189-2199. Chapman OS, Luebeck J, Sridhar S, Wong IT, Dixit D, Wang S, Prasad G, Rajkumar U, Pagadala MS, Larson JD, He BJ, Hung KL, Lange JT, Dehkordi SR, Chandran S, Adam M, Morgan L, Wani S, Tiwari A, Guccione C, Lin Y, Dutta A, Lo YY, Juarez E, Robinson JT, Korshunov A, Michaels JA, Cho YJ, Malicki DM, Coufal NG, Levy ML, Hobbs C, Scheuermann RH, Crawford JR, Pomeroy SL, Rich JN, Zhang X, Chang HY, Dixon JR, Bagchi A, Deshpande AJ, Carter H, Fraenkel E, Mischel PS, Wechsler-Reya RJ, Bafna V, Mesirov JP, Chavez L. PMID: 37945900; PMCID: PMC10703696.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    4. Vertebrate-class-specific binding modes of the alphavirus receptor MXRA8. Cell. 2023 10 26; 186(22):4818-4833.e25. Zimmerman O, Zimmerman MI, Raju S, Nelson CA, Errico JM, Madden EA, Holmes AC, Hassan AO, VanBlargan LA, Kim AS, Adams LJ, Basore K, Whitener BM, Palakurty S, Davis-Adams HG, Sun C, Gilliland T, Earnest JT, Ma H, Ebel GD, Zmasek C, Scheuermann RH, Klimstra WB, Fremont DH, Diamond MS. PMID: 37804831; PMCID: PMC10615782.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCells
    5. A cell-level discriminative neural network model for diagnosis of blood cancers. Bioinformatics. 2023 10 03; 39(10). Robles EE, Jin Y, Smyth P, Scheuermann RH, Bui JD, Wang HY, Oak J, Qian Y. PMID: 37756695; PMCID: PMC10563151.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    6. Author Correction: SARS-CoV-2 reservoir in post-acute sequelae of COVID-19 (PASC). Nat Immunol. 2023 Oct; 24(10):1778. Proal AD, VanElzakker MB, Aleman S, Bach K, Boribong BP, Buggert M, Cherry S, Chertow DS, Davies HE, Dupont CL, Deeks SG, Eimer W, Ely EW, Fasano A, Freire M, Geng LN, Griffin DE, Henrich TJ, Iwasaki A, Izquierdo-Garcia D, Locci M, Mehandru S, Painter MM, Peluso MJ, Pretorius E, Price DA, Putrino D, Scheuermann RH, Tan GS, Tanzi RE, VanBrocklin HF, Yonker LM, Wherry EJ. PMID: 37723351.
      View in: PubMed   Mentions:    Fields:    
    7. SARS-CoV-2 reservoir in post-acute sequelae of COVID-19 (PASC). Nat Immunol. 2023 10; 24(10):1616-1627. Proal AD, VanElzakker MB, Aleman S, Bach K, Boribong BP, Buggert M, Cherry S, Chertow DS, Davies HE, Dupont CL, Deeks SG, Eimer W, Ely EW, Fasano A, Freire M, Geng LN, Griffin DE, Henrich TJ, Iwasaki A, Izquierdo-Garcia D, Locci M, Mehandru S, Painter MM, Peluso MJ, Pretorius E, Price DA, Putrino D, Scheuermann RH, Tan GS, Tanzi RE, VanBrocklin HF, Yonker LM, Wherry EJ. PMID: 37667052.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansCells
    8. Cross-Comparison of Inflammatory Skin Disease Transcriptomics Identifies PTEN as a Pathogenic Disease Classifier in Cutaneous Lupus Erythematosus. J Invest Dermatol. 2024 Feb; 144(2):252-262.e4. Aevermann BD, Di Domizio J, Olah P, Saidoune F, Armstrong JM, Bachelez H, Barker J, Haniffa M, Julia V, Juul K, Krishnaswamy JK, Litman T, Parsons I, Sarin KY, Schmuth M, Sierra M, Simpson M, Homey B, Griffiths CEM, Scheuermann RH, Gilliet M. PMID: 37598867.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    9. A guide to the BRAIN Initiative Cell Census Network data ecosystem. PLoS Biol. 2023 Jun; 21(6):e3002133. Hawrylycz M, Martone ME, Ascoli GA, Bjaalie JG, Dong HW, Ghosh SS, Gillis J, Hertzano R, Haynor DR, Hof PR, Kim Y, Lein E, Liu Y, Miller JA, Mitra PP, Mukamel E, Ng L, Osumi-Sutherland D, Peng H, Ray PL, Sanchez R, Regev A, Ropelewski A, Scheuermann RH, Tan SZK, Thompson CL, Tickle T, Tilgner H, Varghese M, Wester B, White O, Zeng H, Aevermann B, Allemang D, Ament S, Athey TL, Baker C, Baker KS, Baker PM, Bandrowski A, Banerjee S, Bishwakarma P, Carr A, Chen M, Choudhury R, Cool J, Creasy H, D'Orazi F, Degatano K, Dichter B, Ding SL, Dolbeare T, Ecker JR, Fang R, Fillion-Robin JC, Fliss TP, Gee J, Gillespie T, Gouwens N, Zhang GQ, Halchenko YO, Harris NL, Herb BR, Hintiryan H, Hood G, Horvath S, Huo B, Jarecka D, Jiang S, Khajouei F, Kiernan EA, Kir H, Kruse L, Lee C, Lelieveldt B, Li Y, Liu H, Liu L, Markuhar A, Mathews J, Mathews KL, Mezias C, Miller MI, Mollenkopf T, Mufti S, Mungall CJ, Orvis J, Puchades MA, Qu L, Receveur JP, Ren B, Sjoquist N, Staats B, Tward D, van Velthoven CTJ, Wang Q, Xie F, Xu H, Yao Z, Yun Z, Zhang YR, Zheng WJ, Zingg B. PMID: 37390046; PMCID: PMC10313015.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansAnimalsCells
    10. Reference-based cell type matching of in situ image-based spatial transcriptomics data on primary visual cortex of mouse brain. Sci Rep. 2023 06 13; 13(1):9567. Zhang Y, Miller JA, Park J, Lelieveldt BP, Long B, Abdelaal T, Aevermann BD, Biancalani T, Comiter C, Dzyubachyk O, Eggermont J, Langseth CM, Petukhov V, Scalia G, Vaishnav ED, Zhao Y, Lein ES, Scheuermann RH. PMID: 37311768; PMCID: PMC10264402.
      View in: PubMed   Mentions: 2     Fields:    Translation:AnimalsCells
    11. Cochlear transcriptome analysis of an outbred mouse population (CFW). bioRxiv. 2023 Jun 10. Boussaty EC, Tedeschi N, Novotny M, Ninoyu Y, Du E, Draf C, Zhang Y, Manor U, Scheuermann RH, Friedman R. PMID: 36824745; PMCID: PMC9948975.
      View in: PubMed   Mentions:
    12. Targets and cross-reactivity of human T cell recognition of common cold coronaviruses. Cell Rep Med. 2023 06 20; 4(6):101088. Tarke A, Zhang Y, Methot N, Narowski TM, Phillips E, Mallal S, Frazier A, Filaci G, Weiskopf D, Dan JM, Premkumar L, Scheuermann RH, Sette A, Grifoni A. PMID: 37295422; PMCID: PMC10242702.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansCells
    13. Author Correction: Brain Data Standards - A method for building data-driven cell-type ontologies. Sci Data. 2023 Apr 28; 10(1):246. Tan SZK, Kir H, Aevermann BD, Gillespie T, Harris N, Hawrylycz MJ, Jorstad NL, Lein ES, Matentzoglu N, Miller JA, Mollenkopf TS, Mungall CJ, Ray PL, Sanchez REA, Staats B, Vermillion J, Yadav A, Zhang Y, Scheuermann RH, Osumi-Sutherland D. PMID: 37117232; PMCID: PMC10147694.
      View in: PubMed   Mentions:    Fields:    
    14. Monkeypox (Mpox) requires continued surveillance, vaccines, therapeutics and mitigating strategies. Vaccine. 2023 05 11; 41(20):3171-3177. Roper RL, Garzino-Demo A, Del Rio C, Bréchot C, Gallo R, Hall W, Esparza J, Reitz M, Schinazi RF, Parrington M, Tartaglia J, Koopmans M, Osorio J, Nitsche A, Huan TB, LeDuc J, Gessain A, Weaver S, Mahalingam S, Abimiku A, Vahlne A, Segales J, Wang L, Isaacs SN, Osterhaus A, Scheuermann RH, McFadden G. PMID: 37088603; PMCID: PMC10120921.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    15. US National Institutes of Health Prioritization of SARS-CoV-2 Variants. Emerg Infect Dis. 2023 05; 29(5). Turner S, Alisoltani A, Bratt D, Cohen-Lavi L, Dearlove BL, Drosten C, Fischer WM, Fouchier RAM, Gonzalez-Reiche AS, Jaroszewski L, Khalil Z, LeGresley E, Johnson M, Jones TC, Mühlemann B, O'Connor D, Sedova M, Shukla M, Theiler J, Wallace ZS, Yoon H, Zhang Y, van Bakel H, Degrace MM, Ghedin E, Godzik A, Hertz T, Korber B, Lemieux J, Niewiadomska AM, Post DJ, Rolland M, Scheuermann R, Smith DJ. PMID: 37054986; PMCID: PMC10124642.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    16. A cell-level discriminative neural network model for diagnosis of blood cancers. medRxiv. 2023 Feb 10. Robles EE, Jin Y, Smyth P, Scheuermann RH, Bui JD, Wang HY, Oak J, Qian Y. PMID: 36798344; PMCID: PMC9934808.
      View in: PubMed   Mentions:
    17. Brain Data Standards - A method for building data-driven cell-type ontologies. Sci Data. 2023 01 24; 10(1):50. Tan SZK, Kir H, Aevermann BD, Gillespie T, Harris N, Hawrylycz MJ, Jorstad NL, Lein ES, Matentzoglu N, Miller JA, Mollenkopf TS, Mungall CJ, Ray PL, Sanchez REA, Staats B, Vermillion J, Yadav A, Zhang Y, Scheuermann RH, Osumi-Sutherland D. PMID: 36693887; PMCID: PMC9873614.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansAnimals
    18. Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR. Nucleic Acids Res. 2023 01 06; 51(D1):D678-D689. Olson RD, Assaf R, Brettin T, Conrad N, Cucinell C, Davis JJ, Dempsey DM, Dickerman A, Dietrich EM, Kenyon RW, Kuscuoglu M, Lefkowitz EJ, Lu J, Machi D, Macken C, Mao C, Niewiadomska A, Nguyen M, Olsen GJ, Overbeek JC, Parrello B, Parrello V, Porter JS, Pusch GD, Shukla M, Singh I, Stewart L, Tan G, Thomas C, VanOeffelen M, Vonstein V, Wallace ZS, Warren AS, Wattam AR, Xia F, Yoo H, Zhang Y, Zmasek CM, Scheuermann RH, Stevens RL. PMID: 36350631; PMCID: PMC9825582.
      View in: PubMed   Mentions: 136     Fields:    Translation:HumansCells
    19. Targets and cross-reactivity of human T cell recognition of Common Cold Coronaviruses. bioRxiv. 2023 Jan 05. Tarke A, Zhang Y, Methot N, Narowski TM, Phillips E, Mallal S, Frazier A, Filaci G, Weiskopf D, Dan JM, Premkumar L, Scheuermann RH, Sette A, Grifoni A. PMID: 36656777; PMCID: PMC9844015.
      View in: PubMed   Mentions:
    20. Defining antigen targets to dissect vaccinia virus and monkeypox virus-specific T cell responses in humans. Cell Host Microbe. 2022 12 14; 30(12):1662-1670.e4. Grifoni A, Zhang Y, Tarke A, Sidney J, Rubiro P, Reina-Campos M, Filaci G, Dan JM, Scheuermann RH, Sette A. PMID: 36463861; PMCID: PMC9718645.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansCells
    21. Early detection of emerging SARS-CoV-2 variants of interest for experimental evaluation. Front Bioinform. 2022; 2:1020189. Wallace ZS, Davis J, Niewiadomska AM, Olson RD, Shukla M, Stevens R, Zhang Y, Zmasek CM, Scheuermann RH. PMID: 36353215; PMCID: PMC9638046.
      View in: PubMed   Mentions: 4  
    22. FastMix: a versatile data integration pipeline for cell type-specific biomarker inference. Bioinformatics. 2022 10 14; 38(20):4735-4744. Zhang Y, Sun H, Mandava A, Aevermann BD, Kollmann TR, Scheuermann RH, Qiu X, Qian Y. PMID: 36018232.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    23. A novel vaccine based on SARS-CoV-2 CD4+ and CD8+ T cell conserved epitopes from variants Alpha to Omicron. Sci Rep. 2022 10 06; 12(1):16731. Palatnik-de-Sousa I, Wallace ZS, Cavalcante SC, Ribeiro MPF, Silva JABM, Cavalcante RC, Scheuermann RH, Palatnik-de-Sousa CB. PMID: 36202985; PMCID: PMC9537284.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    24. Machine learning for cell type classification from single nucleus RNA sequencing data. PLoS One. 2022; 17(9):e0275070. Le H, Peng B, Uy J, Carrillo D, Zhang Y, Aevermann BD, Scheuermann RH. PMID: 36149937; PMCID: PMC9506651.
      View in: PubMed   Mentions: 3     Fields:    Translation:Humans
    25. Animal Models of Enterovirus D68 Infection and Disease. J Virol. 2022 08 10; 96(15):e0083322. Vermillion MS, Dearing J, Zhang Y, Adney DR, Scheuermann RH, Pekosz A, Tarbet EB. PMID: 35852353; PMCID: PMC9364802.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    26. Cell type matching in single-cell RNA-sequencing data using FR-Match. Sci Rep. 2022 06 15; 12(1):9996. Zhang Y, Aevermann B, Gala R, Scheuermann RH. PMID: 35705694; PMCID: PMC9200772.
      View in: PubMed   Mentions: 5     Fields:    
    27. Author Correction: Comparative cellular analysis of motor cortex in human, marmoset and mouse. Nature. 2022 Apr; 604(7904):E8. Bakken TE, Jorstad NL, Hu Q, Lake BB, Tian W, Kalmbach BE, Crow M, Hodge RD, Krienen FM, Sorensen SA, Eggermont J, Yao Z, Aevermann BD, Aldridge AI, Bartlett A, Bertagnolli D, Casper T, Castanon RG, Crichton K, Daigle TL, Dalley R, Dee N, Dembrow N, Diep D, Ding SL, Dong W, Fang R, Fischer S, Goldman M, Goldy J, Graybuck LT, Herb BR, Hou X, Kancherla J, Kroll M, Lathia K, van Lew B, Li YE, Liu CS, Liu H, Lucero JD, Mahurkar A, McMillen D, Miller JA, Moussa M, Nery JR, Nicovich PR, Niu SY, Orvis J, Osteen JK, Owen S, Palmer CR, Pham T, Plongthongkum N, Poirion O, Reed NM, Rimorin C, Rivkin A, Romanow WJ, Sedeño-Cortés AE, Siletti K, Somasundaram S, Sulc J, Tieu M, Torkelson A, Tung H, Wang X, Xie F, Yanny AM, Zhang R, Ament SA, Behrens MM, Bravo HC, Chun J, Dobin A, Gillis J, Hertzano R, Hof PR, Höllt T, Horwitz GD, Keene CD, Kharchenko PV, Ko AL, Lelieveldt BP, Luo C, Mukamel EA, Pinto-Duarte A, Preiss S, Regev A, Ren B, Scheuermann RH, Smith K, Spain WJ, White OR, Koch C, Hawrylycz M, Tasic B, Macosko EZ, McCarroll SA, Ting JT, Zeng H, Zhang K, Feng G, Ecker JR, Linnarsson S, Lein ES. PMID: 35319013; PMCID: PMC8986536.
      View in: PubMed   Mentions: 1     Fields:    
    28. Defining the risk of SARS-CoV-2 variants on immune protection. Nature. 2022 05; 605(7911):640-652. DeGrace MM, Ghedin E, Frieman MB, Krammer F, Grifoni A, Alisoltani A, Alter G, Amara RR, Baric RS, Barouch DH, Bloom JD, Bloyet LM, Bonenfant G, Boon ACM, Boritz EA, Bratt DL, Bricker TL, Brown L, Buchser WJ, Carreño JM, Cohen-Lavi L, Darling TL, Davis-Gardner ME, Dearlove BL, Di H, Dittmann M, Doria-Rose NA, Douek DC, Drosten C, Edara VV, Ellebedy A, Fabrizio TP, Ferrari G, Fischer WM, Florence WC, Fouchier RAM, Franks J, García-Sastre A, Godzik A, Gonzalez-Reiche AS, Gordon A, Haagmans BL, Halfmann PJ, Ho DD, Holbrook MR, Huang Y, James SL, Jaroszewski L, Jeevan T, Johnson RM, Jones TC, Joshi A, Kawaoka Y, Kercher L, Koopmans MPG, Korber B, Koren E, Koup RA, LeGresley EB, Lemieux JE, Liebeskind MJ, Liu Z, Livingston B, Logue JP, Luo Y, McDermott AB, McElrath MJ, Meliopoulos VA, Menachery VD, Montefiori DC, Mühlemann B, Munster VJ, Munt JE, Nair MS, Netzl A, Niewiadomska AM, O'Dell S, Pekosz A, Perlman S, Pontelli MC, Rockx B, Rolland M, Rothlauf PW, Sacharen S, Scheuermann RH, Schmidt SD, Schotsaert M, Schultz-Cherry S, Seder RA, Sedova M, Sette A, Shabman RS, Shen X, Shi PY, Shukla M, Simon V, Stumpf S, Sullivan NJ, Thackray LB, Theiler J, Thomas PG, Trifkovic S, Türeli S, Turner SA, Vakaki MA, van Bakel H, VanBlargan LA, Vincent LR, Wallace ZS, Wang L, Wang M, Wang P, Wang W, Weaver SC, Webby RJ, Weiss CD, Wentworth DE, Weston SM, Whelan SPJ, Whitener BM, Wilks SH, Xie X, Ying B, Yoon H, Zhou B, Hertz T, Smith DJ, Diamond MS, Post DJ, Suthar MS. PMID: 35361968; PMCID: PMC9345323.
      View in: PubMed   Mentions: 66     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    29. Genomic evolution of the Coronaviridae family. Virology. 2022 05; 570:123-133. Zmasek CM, Lefkowitz EJ, Niewiadomska A, Scheuermann RH. PMID: 35398776; PMCID: PMC8965632.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansCells
    30. Antibodies elicited by SARS-CoV-2 infection or mRNA vaccines have reduced neutralizing activity against Beta and Omicron pseudoviruses. Sci Transl Med. 2022 03 02; 14(634):eabn7842. Sievers BL, Chakraborty S, Xue Y, Gelbart T, Gonzalez JC, Cassidy AG, Golan Y, Prahl M, Gaw SL, Arunachalam PS, Blish CA, Boyd SD, Davis MM, Jagannathan P, Nadeau KC, Pulendran B, Singh U, Scheuermann RH, Frieman MB, Vashee S, Wang TT, Tan GS. PMID: 35025672; PMCID: PMC8891085.
      View in: PubMed   Mentions: 54     Fields:    Translation:HumansCells
    31. The genome and preliminary single-nuclei transcriptome of Lemna minuta reveals mechanisms of invasiveness. Plant Physiol. 2022 02 04; 188(2):879-897. Abramson BW, Novotny M, Hartwick NT, Colt K, Aevermann BD, Scheuermann RH, Michael TP. PMID: 34893913; PMCID: PMC8825320.
      View in: PubMed   Mentions: 6     Fields:    Translation:AnimalsCells
    32. Corticosteroid treatment in COVID-19 modulates host inflammatory responses and transcriptional signatures of immune dysregulation. J Leukoc Biol. 2021 12; 110(6):1225-1239. Pinski AN, Steffen TL, Zulu MZ, George SL, Dickson A, Tifrea D, Maroney KJ, Tedeschi N, Zhang Y, Scheuermann RH, Pinto AK, Brien JD, Messaoudi I. PMID: 34730254; PMCID: PMC8667650.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    33. Machine Learning-Based Single Cell and Integrative Analysis Reveals That Baseline mDC Predisposition Correlates With Hepatitis B Vaccine Antibody Response. Front Immunol. 2021; 12:690470. Aevermann BD, Shannon CP, Novotny M, Ben-Othman R, Cai B, Zhang Y, Ye JC, Kobor MS, Gladish N, Lee AH, Blimkie TM, Hancock RE, Llibre A, Duffy D, Koff WC, Sadarangani M, Tebbutt SJ, Kollmann TR, Scheuermann RH. PMID: 34777332; PMCID: PMC8588842.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCellsPHPublic Health
    34. Comparative cellular analysis of motor cortex in human, marmoset and mouse. Nature. 2021 10; 598(7879):111-119. Bakken TE, Jorstad NL, Hu Q, Lake BB, Tian W, Kalmbach BE, Crow M, Hodge RD, Krienen FM, Sorensen SA, Eggermont J, Yao Z, Aevermann BD, Aldridge AI, Bartlett A, Bertagnolli D, Casper T, Castanon RG, Crichton K, Daigle TL, Dalley R, Dee N, Dembrow N, Diep D, Ding SL, Dong W, Fang R, Fischer S, Goldman M, Goldy J, Graybuck LT, Herb BR, Hou X, Kancherla J, Kroll M, Lathia K, van Lew B, Li YE, Liu CS, Liu H, Lucero JD, Mahurkar A, McMillen D, Miller JA, Moussa M, Nery JR, Nicovich PR, Niu SY, Orvis J, Osteen JK, Owen S, Palmer CR, Pham T, Plongthongkum N, Poirion O, Reed NM, Rimorin C, Rivkin A, Romanow WJ, Sedeño-Cortés AE, Siletti K, Somasundaram S, Sulc J, Tieu M, Torkelson A, Tung H, Wang X, Xie F, Yanny AM, Zhang R, Ament SA, Behrens MM, Bravo HC, Chun J, Dobin A, Gillis J, Hertzano R, Hof PR, Höllt T, Horwitz GD, Keene CD, Kharchenko PV, Ko AL, Lelieveldt BP, Luo C, Mukamel EA, Pinto-Duarte A, Preissl S, Regev A, Ren B, Scheuermann RH, Smith K, Spain WJ, White OR, Koch C, Hawrylycz M, Tasic B, Macosko EZ, McCarroll SA, Ting JT, Zeng H, Zhang K, Feng G, Ecker JR, Linnarsson S, Lein ES. PMID: 34616062; PMCID: PMC8494640.
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    35. FR-Match: robust matching of cell type clusters from single cell RNA sequencing data using the Friedman-Rafsky non-parametric test. Brief Bioinform. 2021 07 20; 22(4). Zhang Y, Aevermann BD, Bakken TE, Miller JA, Hodge RD, Lein ES, Scheuermann RH. PMID: 33249453; PMCID: PMC8294536.
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    36. Standardization of assay representation in the Ontology for Biomedical Investigations. Database (Oxford). 2021 07 09; 2021. Vita R, Zheng J, Jackson R, Dooley D, Overton JA, Miller MA, Berrios DC, Scheuermann RH, He Y, McGinty HK, Brochhausen M, Lin AY, Jain SB, Chibucos MC, Judkins J, Giglio MG, Feng IY, Burns G, Brush MH, Peters B, Stoeckert CJ. PMID: 34244718; PMCID: PMC8271124.
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    37. Impact of SARS-CoV-2 variants on the total CD4+ and CD8+ T cell reactivity in infected or vaccinated individuals. Cell Rep Med. 2021 07 20; 2(7):100355. Tarke A, Sidney J, Methot N, Yu ED, Zhang Y, Dan JM, Goodwin B, Rubiro P, Sutherland A, Wang E, Frazier A, Ramirez SI, Rawlings SA, Smith DM, da Silva Antunes R, Peters B, Scheuermann RH, Weiskopf D, Crotty S, Grifoni A, Sette A. PMID: 34230917; PMCID: PMC8249675.
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    38. A machine learning method for the discovery of minimum marker gene combinations for cell type identification from single-cell RNA sequencing. Genome Res. 2021 10; 31(10):1767-1780. Aevermann B, Zhang Y, Novotny M, Keshk M, Bakken T, Miller J, Hodge R, Lelieveldt B, Lein E, Scheuermann RH. PMID: 34088715; PMCID: PMC8494219.
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    39. A system-view of Bordetella pertussis booster vaccine responses in adults primed with whole-cell versus acellular vaccine in infancy. JCI Insight. 2021 04 08; 6(7). da Silva Antunes R, Soldevila F, Pomaznoy M, Babor M, Bennett J, Tian Y, Khalil N, Qian Y, Mandava A, Scheuermann RH, Cortese M, Pulendran B, Petro CD, Gilkes AP, Purcell LA, Sette A, Peters B. PMID: 33690224; PMCID: PMC8119213.
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    40. Author Correction: A community-based transcriptomics classification and nomenclature of neocortical cell types. Nat Neurosci. 2021 Apr; 24(4):612. Yuste R, Hawrylycz M, Aalling N, Aguilar-Valles A, Arendt D, Armañanzas R, Ascoli GA, Bielza C, Bokharaie V, Bergmann TB, Bystron I, Capogna M, Chang Y, Clemens A, de Kock CPJ, DeFelipe J, Dos Santos SE, Dunville K, Feldmeyer D, Fiáth R, Fishell GJ, Foggetti A, Gao X, Ghaderi P, Goriounova NA, Güntürkün O, Hagihara K, Hall VJ, Helmstaedter M, Herculano-Houzel S, Hilscher MM, Hirase H, Hjerling-Leffler J, Hodge R, Huang J, Huda R, Khodosevich K, Kiehn O, Koch H, Kuebler ES, Kühnemund M, Larrañaga P, Lelieveldt B, Louth EL, Lui JH, Mansvelder HD, Marin O, Martinez-Trujillo J, Chameh HM, Mohapatra AN, Munguba H, Nedergaard M, Nemec P, Ofer N, Pfisterer UG, Pontes S, Redmond W, Rossier J, Sanes JR, Scheuermann RH, Serrano-Saiz E, Staiger JF, Somogyi P, Tamás G, Tolias AS, Tosches MA, García MT, Wozny C, Wuttke TV, Liu Y, Yuan J, Zeng H, Lein E. PMID: 33742182; PMCID: PMC8012203.
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    41. Publisher Correction: A community-based transcriptomics classification and nomenclature of neocortical cell types. Nat Neurosci. 2021 Apr; 24(4):613. Yuste R, Hawrylycz M, Aalling N, Aguilar-Valles A, Arendt D, Arnedillo RA, Ascoli GA, Bielza C, Bokharaie V, Bergmann TB, Bystron I, Capogna M, Chang Y, Clemens A, de Kock CPJ, DeFelipe J, Dos Santos SE, Dunville K, Feldmeyer D, Fiáth R, Fishell GJ, Foggetti A, Gao X, Ghaderi P, Goriounova NA, Güntürkün O, Hagihara K, Hall VJ, Helmstaedter M, Herculano S, Hilscher MM, Hirase H, Hjerling-Leffler J, Hodge R, Huang J, Huda R, Khodosevich K, Kiehn O, Koch H, Kuebler ES, Kühnemund M, Larrañaga P, Lelieveldt B, Louth EL, Lui JH, Mansvelder HD, Marin O, Martinez-Trujillo J, Moradi Chameh H, Nath A, Nedergaard M, Nemec P, Ofer N, Pfisterer UG, Pontes S, Redmond W, Rossier J, Sanes JR, Scheuermann R, Serrano-Saiz E, Steiger JF, Somogyi P, Tamás G, Tolias AS, Tosches MA, García MT, Vieira HM, Wozny C, Wuttke TV, Yong L, Yuan J, Zeng H, Lein E. PMID: 33277642; PMCID: PMC8182769.
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    42. SARS-CoV-2 infection of the oral cavity and saliva. Nat Med. 2021 05; 27(5):892-903. Huang N, Pérez P, Kato T, Mikami Y, Okuda K, Gilmore RC, Conde CD, Gasmi B, Stein S, Beach M, Pelayo E, Maldonado JO, Lafont BA, Jang SI, Nasir N, Padilla RJ, Murrah VA, Maile R, Lovell W, Wallet SM, Bowman NM, Meinig SL, Wolfgang MC, Choudhury SN, Novotny M, Aevermann BD, Scheuermann RH, Cannon G, Anderson CW, Lee RE, Marchesan JT, Bush M, Freire M, Kimple AJ, Herr DL, Rabin J, Grazioli A, Das S, French BN, Pranzatelli T, Chiorini JA, Kleiner DE, Pittaluga S, Hewitt SM, Burbelo PD, Chertow D, NIH COVID-19 Autopsy Consortium, HCA Oral and Craniofacial Biological Network, Frank K, Lee J, Boucher RC, Teichmann SA, Warner BM, Byrd KM. PMID: 33767405; PMCID: PMC8240394.
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    43. Negligible impact of SARS-CoV-2 variants on CD4 + and CD8 + T cell reactivity in COVID-19 exposed donors and vaccinees. bioRxiv. 2021 Mar 01. Tarke A, Sidney J, Methot N, Zhang Y, Dan JM, Goodwin B, Rubiro P, Sutherland A, da Silva Antunes R, Frazier A, Rawlings SA, Smith DM, Peters B, Scheuermann RH, Weiskopf D, Crotty S, Grifoni A, Sette A. PMID: 33688655; PMCID: PMC7941626.
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    44. Guidelines for reporting single-cell RNA-seq experiments. Nat Biotechnol. 2020 12; 38(12):1384-1386. Füllgrabe A, George N, Green M, Nejad P, Aronow B, Fexova SK, Fischer C, Freeberg MA, Huerta L, Morrison N, Scheuermann RH, Taylor D, Vasilevsky N, Clarke L, Gehlenborg N, Kent J, Marioni J, Teichmann S, Brazma A, Papatheodorou I. PMID: 33188371; PMCID: PMC9302581.
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    45. A community-based transcriptomics classification and nomenclature of neocortical cell types. Nat Neurosci. 2020 12; 23(12):1456-1468. Yuste R, Hawrylycz M, Aalling N, Aguilar-Valles A, Arendt D, Armañanzas R, Ascoli GA, Bielza C, Bokharaie V, Bergmann TB, Bystron I, Capogna M, Chang Y, Clemens A, de Kock CPJ, DeFelipe J, Dos Santos SE, Dunville K, Feldmeyer D, Fiáth R, Fishell GJ, Foggetti A, Gao X, Ghaderi P, Goriounova NA, Güntürkün O, Hagihara K, Hall VJ, Helmstaedter M, Herculano-Houzel S, Hilscher MM, Hirase H, Hjerling-Leffler J, Hodge R, Huang J, Huda R, Khodosevich K, Kiehn O, Koch H, Kuebler ES, Kühnemund M, Larrañaga P, Lelieveldt B, Louth EL, Lui JH, Mansvelder HD, Marin O, Martinez-Trujillo J, Chameh HM, Mohapatra AN, Munguba H, Nedergaard M, Nemec P, Ofer N, Pfisterer UG, Pontes S, Redmond W, Rossier J, Sanes JR, Scheuermann RH, Serrano-Saiz E, Staiger JF, Somogyi P, Tamás G, Tolias AS, Tosches MA, García MT, Wozny C, Wuttke TV, Liu Y, Yuan J, Zeng H, Lein E. PMID: 32839617; PMCID: PMC7683348.
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    46. Multi-Omic Data Integration Allows Baseline Immune Signatures to Predict Hepatitis B Vaccine Response in a Small Cohort. Front Immunol. 2020; 11:578801. Shannon CP, Blimkie TM, Ben-Othman R, Gladish N, Amenyogbe N, Drissler S, Edgar RD, Chan Q, Krajden M, Foster LJ, Kobor MS, Mohn WW, Brinkman RR, Le Cao KA, Scheuermann RH, Tebbutt SJ, Hancock REW, Koff WC, Kollmann TR, Sadarangani M, Lee AH. PMID: 33329547; PMCID: PMC7734088.
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    47. Epidemiology and Sequence-Based Evolutionary Analysis of Circulating Non-Polio Enteroviruses. Microorganisms. 2020 Nov 25; 8(12). Brown DM, Zhang Y, Scheuermann RH. PMID: 33255654; PMCID: PMC7759938.
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    48. Systems Biology Methods Applied to Blood and Tissue for a Comprehensive Analysis of Immune Response to Hepatitis B Vaccine in Adults. Front Immunol. 2020; 11:580373. Ben-Othman R, Cai B, Liu AC, Varankovich N, He D, Blimkie TM, Lee AH, Gill EE, Novotny M, Aevermann B, Drissler S, Shannon CP, McCann S, Marty K, Bjornson G, Edgar RD, Lin DTS, Gladish N, Maclsaac J, Amenyogbe N, Chan Q, Llibre A, Collin J, Landais E, Le K, Reiss SM, Koff WC, Havenar-Daughton C, Heran M, Sangha B, Walt D, Krajden M, Crotty S, Sok D, Briney B, Burton DR, Duffy D, Foster LJ, Mohn WW, Kobor MS, Tebbutt SJ, Brinkman RR, Scheuermann RH, Hancock REW, Kollmann TR, Sadarangani M. PMID: 33250895; PMCID: PMC7672042.
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    51. Unbiased analysis of peripheral blood mononuclear cells reveals CD4 T cell response to RSV matrix protein. Vaccine X. 2020 Aug 07; 5:100065. Thakar J, Qian Y, Benoodt L, Roumanes D, Qiu X, Laniewski N, Chu C, Slaunwhite C, Wang L, Mandava A, Chang I, Falsey AR, Caserta MT, Mariani TJ, Scheuermann RH, Walsh EE, Topham DJ. PMID: 32529184; PMCID: PMC7280769.
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    53. Transcriptomic evidence that von Economo neurons are regionally specialized extratelencephalic-projecting excitatory neurons. Nat Commun. 2020 03 03; 11(1):1172. Hodge RD, Miller JA, Novotny M, Kalmbach BE, Ting JT, Bakken TE, Aevermann BD, Barkan ER, Berkowitz-Cerasano ML, Cobbs C, Diez-Fuertes F, Ding SL, McCorrison J, Schork NJ, Shehata SI, Smith KA, Sunkin SM, Tran DN, Venepally P, Yanny AM, Steemers FJ, Phillips JW, Bernard A, Koch C, Lasken RS, Scheuermann RH, Lein ES. PMID: 32127543; PMCID: PMC7054400.
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    54. Candidate Targets for Immune Responses to 2019-Novel Coronavirus (nCoV): Sequence Homology- and Bioinformatic-Based Predictions. SSRN. 2020 Feb 25; 3541361. Grifoni A, Sidney J, Zhang Y, Scheuermann RH, Peters B, Sette A. PMID: 32714104; PMCID: PMC7366807.
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    56. A survey of known immune epitopes in the enteroviruses strains associated with acute flaccid myelitis. Hum Immunol. 2019 Nov; 80(11):923-929. Grifoni A, Mahajan S, Sidney J, Martini S, Scheuermann RH, Peters B, Sette A. PMID: 31451291; PMCID: PMC6876747.
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    57. Conserved cell types with divergent features in human versus mouse cortex. Nature. 2019 09; 573(7772):61-68. Hodge RD, Bakken TE, Miller JA, Smith KA, Barkan ER, Graybuck LT, Close JL, Long B, Johansen N, Penn O, Yao Z, Eggermont J, Höllt T, Levi BP, Shehata SI, Aevermann B, Beller A, Bertagnolli D, Brouner K, Casper T, Cobbs C, Dalley R, Dee N, Ding SL, Ellenbogen RG, Fong O, Garren E, Goldy J, Gwinn RP, Hirschstein D, Keene CD, Keshk M, Ko AL, Lathia K, Mahfouz A, Maltzer Z, McGraw M, Nguyen TN, Nyhus J, Ojemann JG, Oldre A, Parry S, Reynolds S, Rimorin C, Shapovalova NV, Somasundaram S, Szafer A, Thomsen ER, Tieu M, Quon G, Scheuermann RH, Yuste R, Sunkin SM, Lelieveldt B, Feng D, Ng L, Bernard A, Hawrylycz M, Phillips JW, Tasic B, Zeng H, Jones AR, Koch C, Lein ES. PMID: 31435019; PMCID: PMC6919571.
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    58. Differential transcriptome and development of human peripheral plasma cell subsets. JCI Insight. 2019 05 02; 4(9). Garimalla S, Nguyen DC, Halliley JL, Tipton C, Rosenberg AF, Fucile CF, Saney CL, Kyu S, Kaminski D, Qian Y, Scheuermann RH, Gibson G, Sanz I, Lee FE. PMID: 31045577; PMCID: PMC6538338.
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    59. Classification of human Herpesviridae proteins using Domain-architecture Aware Inference of Orthologs (DAIO). Virology. 2019 03; 529:29-42. Zmasek CM, Knipe DM, Pellett PE, Scheuermann RH. PMID: 30660046; PMCID: PMC6502252.
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    60. Hepatitis C Virus Database and Bioinformatics Analysis Tools in the Virus Pathogen Resource (ViPR). Methods Mol Biol. 2019; 1911:47-69. Zhang Y, Zmasek C, Sun G, Larsen CN, Scheuermann RH. PMID: 30593617.
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    62. Contemporary Circulating Enterovirus D68 Strains Have Acquired the Capacity for Viral Entry and Replication in Human Neuronal Cells. mBio. 2018 10 16; 9(5). Brown DM, Hixon AM, Oldfield LM, Zhang Y, Novotny M, Wang W, Das SR, Shabman RS, Tyler KL, Scheuermann RH. PMID: 30327438; PMCID: PMC6191546.
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    63. Chromosome Y-encoded antigens associate with acute graft-versus-host disease in sex-mismatched stem cell transplant. Blood Adv. 2018 10 09; 2(19):2419-2429. Wang W, Huang H, Halagan M, Vierra-Green C, Heuer M, Brelsford JE, Haagenson M, Scheuermann RH, Telenti A, Biggs W, Pearson NM, Udell J, Spellman S, Maiers M, Kennedy CJ. PMID: 30262602; PMCID: PMC6177651.
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    65. Bioinformatics Meets Virology: The European Virus Bioinformatics Center's Second Annual Meeting. Viruses. 2018 May 14; 10(5). Ibrahim B, Arkhipova K, Andeweg AC, Posada-Céspedes S, Enault F, Gruber A, Koonin EV, Kupczok A, Lemey P, McHardy AC, McMahon DP, Pickett BE, Robertson DL, Scheuermann RH, Zhernakova A, Zwart MP, Schönhuth A, Dutilh BE, Marz M. PMID: 29757994; PMCID: PMC5977249.
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    69. Cell type discovery and representation in the era of high-content single cell phenotyping. BMC Bioinformatics. 2017 12 21; 18(Suppl 17):559. Bakken T, Cowell L, Aevermann BD, Novotny M, Hodge R, Miller JA, Lee A, Chang I, McCorrison J, Pulendran B, Qian Y, Schork NJ, Lasken RS, Lein ES, Scheuermann RH. PMID: 29322913; PMCID: PMC5763450.
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    70. Automated Analysis of Clinical Flow Cytometry Data: A Chronic Lymphocytic Leukemia Illustration. Clin Lab Med. 2017 12; 37(4):931-944. Scheuermann RH, Bui J, Wang HY, Qian Y. PMID: 29128077; PMCID: PMC5766345.
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    71. VDJPipe: a pipelined tool for pre-processing immune repertoire sequencing data. BMC Bioinformatics. 2017 Oct 11; 18(1):448. Christley S, Levin MK, Toby IT, Fonner JM, Monson NL, Rounds WH, Rubelt F, Scarborough W, Scheuermann RH, Cowell LG. PMID: 29020925; PMCID: PMC5637252.
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    72. Automated Analysis of Flow Cytometry Data to Reduce Inter-Lab Variation in the Detection of Major Histocompatibility Complex Multimer-Binding T Cells. Front Immunol. 2017; 8:858. Pedersen NW, Chandran PA, Qian Y, Rebhahn J, Petersen NV, Hoff MD, White S, Lee AJ, Stanton R, Halgreen C, Jakobsen K, Mosmann T, Gouttefangeas C, Chan C, Scheuermann RH, Hadrup SR. PMID: 28798746; PMCID: PMC5526901.
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    73. Fast and accurate HLA typing from short-read next-generation sequence data with xHLA. Proc Natl Acad Sci U S A. 2017 07 25; 114(30):8059-8064. Xie C, Yeo ZX, Wong M, Piper J, Long T, Kirkness EF, Biggs WH, Bloom K, Spellman S, Vierra-Green C, Brady C, Scheuermann RH, Telenti A, Howard S, Brewerton S, Turpaz Y, Venter JC. PMID: 28674023; PMCID: PMC5544337.
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    74. Identification of diagnostic peptide regions that distinguish Zika virus from related mosquito-borne Flaviviruses. PLoS One. 2017; 12(5):e0178199. Lee AJ, Bhattacharya R, Scheuermann RH, Pickett BE. PMID: 28562637; PMCID: PMC5451039.
      View in: PubMed   Mentions: 11     Fields:    Translation:AnimalsCellsPHPublic Health
    75. Allergen-specific immunotherapy modulates the balance of circulating Tfh and Tfr cells. J Allergy Clin Immunol. 2018 02; 141(2):775-777.e6. Schulten V, Tripple V, Seumois G, Qian Y, Scheuermann RH, Fu Z, Locci M, Rosales S, Vijayanand P, Sette A, Alam R, Crotty S, Peters B. PMID: 28506846; PMCID: PMC5682232.
      View in: PubMed   Mentions: 17     Fields:    Translation:HumansAnimalsCells
    76. A bioinformatics roadmap for the human vaccines project. Expert Rev Vaccines. 2017 06; 16(6):535-544. Scheuermann RH, Sinkovits RS, Schenkelberg T, Koff WC. PMID: 28434256.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
    77. Comprehensive Annotation of Mature Peptides and Genotypes for Zika Virus. PLoS One. 2017; 12(1):e0170462. Sun G, Larsen CN, Baumgarth N, Klem EB, Scheuermann RH. PMID: 28125631; PMCID: PMC5268401.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansCellsPHPublic Health
    78. An Integrated Workflow To Assess Technical and Biological Variability of Cell Population Frequencies in Human Peripheral Blood by Flow Cytometry. J Immunol. 2017 02 15; 198(4):1748-1758. Burel JG, Qian Y, Lindestam Arlehamn C, Weiskopf D, Zapardiel-Gonzalo J, Taplitz R, Gilman RH, Saito M, de Silva AD, Vijayanand P, Scheuermann RH, Sette A, Peters B. PMID: 28069807; PMCID: PMC5296239.
      View in: PubMed   Mentions: 35     Fields:    Translation:HumansCells
    79. PRODUCTION OF A PRELIMINARY QUALITY CONTROL PIPELINE FOR SINGLE NUCLEI RNA-SEQ AND ITS APPLICATION IN THE ANALYSIS OF CELL TYPE DIVERSITY OF POST-MORTEM HUMAN BRAIN NEOCORTEX. Pac Symp Biocomput. 2017; 22:564-575. Aevermann B, McCorrison J, Venepally P, Hodge R, Bakken T, Miller J, Novotny M, Tran DN, Diezfuertes F, Christiansen L, Zhang F, Steemers F, Lasken RS, Lein ED, Schork N, Scheuermann RH. PMID: 27897007; PMCID: PMC5338304.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    80. A Phylogeny-Based Global Nomenclature System and Automated Annotation Tool for H1 Hemagglutinin Genes from Swine Influenza A Viruses. mSphere. 2016 Nov-Dec; 1(6). Anderson TK, Macken CA, Lewis NS, Scheuermann RH, Van Reeth K, Brown IH, Swenson SL, Simon G, Saito T, Berhane Y, Ciacci-Zanella J, Pereda A, Davis CT, Donis RO, Webby RJ, Vincent AL. PMID: 27981236; PMCID: PMC5156671.
      View in: PubMed   Mentions: 100     Fields:    
    81. VDJML: a file format with tools for capturing the results of inferring immune receptor rearrangements. BMC Bioinformatics. 2016 Oct 06; 17(Suppl 13):333. Toby IT, Levin MK, Salinas EA, Christley S, Bhattacharya S, Breden F, Buntzman A, Corrie B, Fonner J, Gupta NT, Hershberg U, Marthandan N, Rosenfeld A, Rounds W, Rubelt F, Scarborough W, Scott JK, Uduman M, Vander Heiden JA, Scheuermann RH, Monson N, Kleinstein SH, Cowell LG. PMID: 27766961; PMCID: PMC5073965.
      View in: PubMed   Mentions: 8     Fields:    Translation:Humans
    82. Influenza Research Database: An integrated bioinformatics resource for influenza virus research. Nucleic Acids Res. 2017 01 04; 45(D1):D466-D474. Zhang Y, Aevermann BD, Anderson TK, Burke DF, Dauphin G, Gu Z, He S, Kumar S, Larsen CN, Lee AJ, Li X, Macken C, Mahaffey C, Pickett BE, Reardon B, Smith T, Stewart L, Suloway C, Sun G, Tong L, Vincent AL, Walters B, Zaremba S, Zhao H, Zhou L, Zmasek C, Klem EB, Scheuermann RH. PMID: 27679478; PMCID: PMC5210613.
      View in: PubMed   Mentions: 167     Fields:    Translation:Cells
    83. Genetic changes found in a distinct clade of Enterovirus D68 associated with paralysis during the 2014 outbreak. Virus Evol. 2016 Jan; 2(1):vew015. Zhang Y, Cao J, Zhang S, Lee AJ, Sun G, Larsen CN, Zhao H, Gu Z, He S, Klem EB, Scheuermann RH. PMID: 28512577; PMCID: PMC5426007.
      View in: PubMed   Mentions: 30  
    84. The Ontology for Biomedical Investigations. PLoS One. 2016; 11(4):e0154556. Bandrowski A, Brinkman R, Brochhausen M, Brush MH, Bug B, Chibucos MC, Clancy K, Courtot M, Derom D, Dumontier M, Fan L, Fostel J, Fragoso G, Gibson F, Gonzalez-Beltran A, Haendel MA, He Y, Heiskanen M, Hernandez-Boussard T, Jensen M, Lin Y, Lister AL, Lord P, Malone J, Manduchi E, McGee M, Morrison N, Overton JA, Parkinson H, Peters B, Rocca-Serra P, Ruttenberg A, Sansone SA, Scheuermann RH, Schober D, Smith B, Soldatova LN, Stoeckert CJ, Taylor CF, Torniai C, Turner JA, Vita R, Whetzel PL, Zheng J. PMID: 27128319; PMCID: PMC4851331.
      View in: PubMed   Mentions: 101     Fields:    Translation:HumansAnimals
    85. Zika virus: designate standardized names. Nature. 2016 Mar 10; 531(7593):173. Scheuermann RH. PMID: 26961650.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCellsPHPublic Health
    86. Using single nuclei for RNA-seq to capture the transcriptome of postmortem neurons. Nat Protoc. 2016 Mar; 11(3):499-524. Krishnaswami SR, Grindberg RV, Novotny M, Venepally P, Lacar B, Bhutani K, Linker SB, Pham S, Erwin JA, Miller JA, Hodge R, McCarthy JK, Kelder M, McCorrison J, Aevermann BD, Fuertes FD, Scheuermann RH, Lee J, Lein ES, Schork N, McConnell MJ, Gage FH, Lasken RS. PMID: 26890679; PMCID: PMC4941947.
      View in: PubMed   Mentions: 189     Fields:    Translation:HumansCells
    87. Standardizing Flow Cytometry Immunophenotyping Analysis from the Human ImmunoPhenotyping Consortium. Sci Rep. 2016 Feb 10; 6:20686. Finak G, Langweiler M, Jaimes M, Malek M, Taghiyar J, Korin Y, Raddassi K, Devine L, Obermoser G, Pekalski ML, Pontikos N, Diaz A, Heck S, Villanova F, Terrazzini N, Kern F, Qian Y, Stanton R, Wang K, Brandes A, Ramey J, Aghaeepour N, Mosmann T, Scheuermann RH, Reed E, Palucka K, Pascual V, Blomberg BB, Nestle F, Nussenblatt RB, Brinkman RR, Gottardo R, Maecker H, McCoy JP. PMID: 26861911; PMCID: PMC4748244.
      View in: PubMed   Mentions: 127     Fields:    Translation:HumansCells
    88. Automated analysis of flow cytometry data comes of age. Cytometry A. 2016 Jan; 89(1):13-5. Brinkman RR, Aghaeepour N, Finak G, Gottardo R, Mosmann T, Scheuermann RH. PMID: 26812230.
      View in: PubMed   Mentions: 8     Fields:    Translation:Humans
    89. A benchmark for evaluation of algorithms for identification of cellular correlates of clinical outcomes. Cytometry A. 2016 Jan; 89(1):16-21. Aghaeepour N, Chattopadhyay P, Chikina M, Dhaene T, Van Gassen S, Kursa M, Lambrecht BN, Malek M, McLachlan GJ, Qian Y, Qiu P, Saeys Y, Stanton R, Tong D, Vens C, Walkowiak S, Wang K, Finak G, Gottardo R, Mosmann T, Nolan GP, Scheuermann RH, Brinkman RR. PMID: 26447924; PMCID: PMC4874734.
      View in: PubMed   Mentions: 35     Fields:    Translation:HumansCells
    90. Mapping cell populations in flow cytometry data for cross-sample comparison using the Friedman-Rafsky test statistic as a distance measure. Cytometry A. 2016 Jan; 89(1):71-88. Hsiao C, Liu M, Stanton R, McGee M, Qian Y, Scheuermann RH. PMID: 26274018; PMCID: PMC5014134.
      View in: PubMed   Mentions: 11     Fields:    Translation:Humans
    91. Molecular Profile of Mitochondrial Dysfunction in Kidney Transplant Biopsies Is Associated With Poor Allograft Outcome. Transplant Proc. 2015 Jul-Aug; 47(6):1675-82. Zepeda-Orozco D, Kong M, Scheuermann RH. PMID: 26293032.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansCells
    92. State-of-the-Art in the Computational Analysis of Cytometry Data. Cytometry A. 2015 Jul; 87(7):591-3. Brinkman RR, Aghaeepour N, Finak G, Gottardo R, Mosmann T, Scheuermann RH. PMID: 26111230.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    93. Thinking outside the gate: single-cell assessments in multiple dimensions. Immunity. 2015 Apr 21; 42(4):591-2. Kvistborg P, Gouttefangeas C, Aghaeepour N, Cazaly A, Chattopadhyay PK, Chan C, Eckl J, Finak G, Hadrup SR, Maecker HT, Maurer D, Mosmann T, Qiu P, Scheuermann RH, Welters MJ, Ferrari G, Brinkman RR, Britten CM. PMID: 25902473; PMCID: PMC4824634.
      View in: PubMed   Mentions: 28     Fields:    Translation:HumansCells
    94. A RESTful API for Access to Phylogenetic Tools via the CIPRES Science Gateway. Evol Bioinform Online. 2015; 11:43-8. Miller MA, Schwartz T, Pickett BE, He S, Klem EB, Scheuermann RH, Passarotti M, Kaufman S, O'Leary MA. PMID: 25861210; PMCID: PMC4362911.
      View in: PubMed   Mentions: 152  
    95. Diversifying Selection Analysis Predicts Antigenic Evolution of 2009 Pandemic H1N1 Influenza A Virus in Humans. J Virol. 2015 May; 89(10):5427-40. Lee AJ, Das SR, Wang W, Fitzgerald T, Pickett BE, Aevermann BD, Topham DJ, Falsey AR, Scheuermann RH. PMID: 25741011; PMCID: PMC4442545.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansCellsPHPublic Health
    96. flowCL: ontology-based cell population labelling in flow cytometry. Bioinformatics. 2015 Apr 15; 31(8):1337-9. Courtot M, Meskas J, Diehl AD, Droumeva R, Gottardo R, Jalali A, Taghiyar MJ, Maecker HT, McCoy JP, Ruttenberg A, Scheuermann RH, Brinkman RR. PMID: 25481008; PMCID: PMC4393520.
      View in: PubMed   Mentions: 10     Fields:    Translation:Humans
    97. A comprehensive collection of systems biology data characterizing the host response to viral infection. Sci Data. 2014; 1:140033. Aevermann BD, Pickett BE, Kumar S, Klem EB, Agnihothram S, Askovich PS, Bankhead A, Bolles M, Carter V, Chang J, Clauss TR, Dash P, Diercks AH, Eisfeld AJ, Ellis A, Fan S, Ferris MT, Gralinski LE, Green RR, Gritsenko MA, Hatta M, Heegel RA, Jacobs JM, Jeng S, Josset L, Kaiser SM, Kelly S, Law GL, Li C, Li J, Long C, Luna ML, Matzke M, McDermott J, Menachery V, Metz TO, Mitchell H, Monroe ME, Navarro G, Neumann G, Podyminogin RL, Purvine SO, Rosenberger CM, Sanders CJ, Schepmoes AA, Shukla AK, Sims A, Sova P, Tam VC, Tchitchek N, Thomas PG, Tilton SC, Totura A, Wang J, Webb-Robertson BJ, Wen J, Weiss JM, Yang F, Yount B, Zhang Q, McWeeney S, Smith RD, Waters KM, Kawaoka Y, Baric R, Aderem A, Katze MG, Scheuermann RH. PMID: 25977790; PMCID: PMC4410982.
      View in: PubMed   Mentions: 28     Fields:    Translation:HumansAnimalsCells
    98. Toward a method for tracking virus evolutionary trajectory applied to the pandemic H1N1 2009 influenza virus. Infect Genet Evol. 2014 Dec; 28:351-7. Squires RB, Pickett BE, Das S, Scheuermann RH. PMID: 25064525; PMCID: PMC4257861.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCellsPHPublic Health
    99. Standardized metadata for human pathogen/vector genomic sequences. PLoS One. 2014; 9(6):e99979. Dugan VG, Emrich SJ, Giraldo-Calderón GI, Harb OS, Newman RM, Pickett BE, Schriml LM, Stockwell TB, Stoeckert CJ, Sullivan DE, Singh I, Ward DV, Yao A, Zheng J, Barrett T, Birren B, Brinkac L, Bruno VM, Caler E, Chapman S, Collins FH, Cuomo CA, Di Francesco V, Durkin S, Eppinger M, Feldgarden M, Fraser C, Fricke WF, Giovanni M, Henn MR, Hine E, Hotopp JD, Karsch-Mizrachi I, Kissinger JC, Lee EM, Mathur P, Mongodin EF, Murphy CI, Myers G, Neafsey DE, Nelson KE, Nierman WC, Puzak J, Rasko D, Roos DS, Sadzewicz L, Silva JC, Sobral B, Squires RB, Stevens RL, Tallon L, Tettelin H, Wentworth D, White O, Will R, Wortman J, Zhang Y, Scheuermann RH. PMID: 24936976; PMCID: PMC4061050.
      View in: PubMed   Mentions: 26     Fields:    Translation:HumansAnimalsPHPublic Health
    100. Response of human skin to esthetic scarification. Burns. 2014 Nov; 40(7):1338-44. Gabriel VA, McClellan EA, Scheuermann RH. PMID: 24582755; PMCID: PMC4336194.
      View in: PubMed   Mentions: 4     Fields:    Translation:Humans
    101. Metadata-driven comparative analysis tool for sequences (meta-CATS): an automated process for identifying significant sequence variations that correlate with virus attributes. Virology. 2013 Dec; 447(1-2):45-51. Pickett BE, Liu M, Sadat EL, Squires RB, Noronha JM, He S, Jen W, Zaremba S, Gu Z, Zhou L, Larsen CN, Bosch I, Gehrke L, McGee M, Klem EB, Scheuermann RH. PMID: 24210098; PMCID: PMC5040469.
      View in: PubMed   Mentions: 23     Fields:    Translation:Cells
    102. GenePattern flow cytometry suite. Source Code Biol Med. 2013 Jul 03; 8(1):14. Spidlen J, Barsky A, Breuer K, Carr P, Nazaire MD, Hill BA, Qian Y, Liefeld T, Reich M, Mesirov JP, Wilkinson P, Scheuermann RH, Sekaly RP, Brinkman RR. PMID: 23822732; PMCID: PMC3717030.
      View in: PubMed   Mentions: 9  
    103. Extracting actionable findings of appendicitis from radiology reports using natural language processing. AMIA Jt Summits Transl Sci Proc. 2013; 2013:221. Rink B, Roberts K, Harabagiu S, Scheuermann RH, Toomay S, Browning T, Bosler T, Peshock R. PMID: 24303268; PMCID: PMC3845763.
      View in: PubMed   Mentions: 9  
    104. Critical assessment of automated flow cytometry data analysis techniques. Nat Methods. 2013 Mar; 10(3):228-38. Aghaeepour N, Finak G, FlowCAP Consortium, DREAM Consortium, Hoos H, Mosmann TR, Brinkman R, Gottardo R, Scheuermann RH. PMID: 23396282; PMCID: PMC3906045.
      View in: PubMed   Mentions: 205     Fields:    Translation:HumansAnimalsCells
    105. Virus pathogen database and analysis resource (ViPR): a comprehensive bioinformatics database and analysis resource for the coronavirus research community. Viruses. 2012 Nov 19; 4(11):3209-26. Pickett BE, Greer DS, Zhang Y, Stewart L, Zhou L, Sun G, Gu Z, Kumar S, Zaremba S, Larsen CN, Jen W, Klem EB, Scheuermann RH. PMID: 23202522; PMCID: PMC3509690.
      View in: PubMed   Mentions: 84     Fields:    Translation:HumansCells
    106. A machine learning approach for identifying anatomical locations of actionable findings in radiology reports. AMIA Annu Symp Proc. 2012; 2012:779-88. Roberts K, Rink B, Harabagiu SM, Scheuermann RH, Toomay S, Browning T, Bosler T, Peshock R. PMID: 23304352; PMCID: PMC3540484.
      View in: PubMed   Mentions: 12     Fields:    Translation:Humans
    107. FCSTrans: an open source software system for FCS file conversion and data transformation. Cytometry A. 2012 May; 81(5):353-356. Qian Y, Liu Y, Campbell J, Thomson E, Kong YM, Scheuermann RH. PMID: 22431383; PMCID: PMC3932304.
      View in: PubMed   Mentions: 8     Fields:    Translation:Humans
    108. Influenza virus sequence feature variant type analysis: evidence of a role for NS1 in influenza virus host range restriction. J Virol. 2012 May; 86(10):5857-66. Noronha JM, Liu M, Squires RB, Pickett BE, Hale BG, Air GM, Galloway SE, Takimoto T, Schmolke M, Hunt V, Klem E, García-Sastre A, McGee M, Scheuermann RH. PMID: 22398283; PMCID: PMC3347290.
      View in: PubMed   Mentions: 23     Fields:    Translation:HumansCells
    109. Influenza research database: an integrated bioinformatics resource for influenza research and surveillance. Influenza Other Respir Viruses. 2012 Nov; 6(6):404-16. Squires RB, Noronha J, Hunt V, García-Sastre A, Macken C, Baumgarth N, Suarez D, Pickett BE, Zhang Y, Larsen CN, Ramsey A, Zhou L, Zaremba S, Kumar S, Deitrich J, Klem E, Scheuermann RH. PMID: 22260278; PMCID: PMC3345175.
      View in: PubMed   Mentions: 182     Fields:    Translation:HumansAnimalsCells
    110. A gene selection method for GeneChip array data with small sample sizes. BMC Genomics. 2011 Dec 23; 12 Suppl 5:S7. Chen Z, Liu Q, McGee M, Kong M, Huang X, Deng Y, Scheuermann RH. PMID: 22369149; PMCID: PMC3287503.
      View in: PubMed   Mentions: 4     Fields:    
    111. Minimum Information about a Genotyping Experiment (MIGEN). Stand Genomic Sci. 2011 Nov 30; 5(2):224-9. Huang J, Mirel D, Pugh E, Xing C, Robinson PN, Pertsemlidis A, Ding L, Kozlitina J, Maher J, Rios J, Story M, Marthandan N, Scheuermann RH. PMID: 22180825; PMCID: PMC3235517.
      View in: PubMed   Mentions: 1  
    112. ViPR: an open bioinformatics database and analysis resource for virology research. Nucleic Acids Res. 2012 Jan; 40(Database issue):D593-8. Pickett BE, Sadat EL, Zhang Y, Noronha JM, Squires RB, Hunt V, Liu M, Kumar S, Zaremba S, Gu Z, Zhou L, Larson CN, Dietrich J, Klem EB, Scheuermann RH. PMID: 22006842; PMCID: PMC3245011.
      View in: PubMed   Mentions: 361     Fields:    Translation:Cells
    113. Ontologies for clinical and translational research: Introduction. J Biomed Inform. 2011 Feb; 44(1):3-7. Smith B, Scheuermann RH. PMID: 21241822; PMCID: PMC4896064.
      View in: PubMed   Mentions: 7     Fields:    
    114. Identifying Differentially Expressed Genes based on probe level data for GeneChip arrays. Int J Comput Biol Drug Des. 2010; 3(3):237-57. Chen Z, McGee M, Liu Q, Kong YM, Huang X, Yang JY, Scheuermann RH. PMID: 21228458.
      View in: PubMed   Mentions: 3     Fields:    
    115. Towards Viral Genome Annotation Standards, Report from the 2010 NCBI Annotation Workshop. Viruses. 2010 Oct; 2(10):2258-2268. Brister JR, Bao Y, Kuiken C, Lefkowitz EJ, Mercier PL, Leplae R, Madupu R, Scheuermann RH, Schobel S, Seto D, Shrivastava S, Sterk P, Zeng Q, Klimke W, Tatusova T. PMID: 21994619; PMCID: PMC3185566.
      View in: PubMed   Mentions: 14     Fields:    
    116. A unique antibody gene signature is prevalent in the central nervous system of patients with multiple sclerosis. J Neuroimmunol. 2010 Sep 14; 226(1-2):192-3. Ligocki AJ, Lovato L, Xiang D, Guidry P, Scheuermann RH, Willis SN, Almendinger S, Racke MK, Frohman EM, Hafler DA, O'Connor KC, Monson NL. PMID: 20655601; PMCID: PMC2937103.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    117. Personalized care, comparative effectiveness research and the electronic health record. Curr Opin Allergy Clin Immunol. 2010 Jun; 10(3):168-70. Scheuermann RH, Milgrom H. PMID: 20431366.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    118. Toward an ontology-based framework for clinical research databases. J Biomed Inform. 2011 Feb; 44(1):48-58. Kong YM, Dahlke C, Xiang Q, Qian Y, Karp D, Scheuermann RH. PMID: 20460173; PMCID: PMC2953614.
      View in: PubMed   Mentions: 17     Fields:    
    119. The human studies database project: federating human studies design data using the ontology of clinical research. Summit Transl Bioinform. 2010 Mar 01; 2010:51-5. Sim I, Carini S, Tu S, Wynden R, Pollock BH, Mollah SA, Gabriel D, Hagler HK, Scheuermann RH, Lehmann HP, Wittkowski KM, Nahm M, Bakken S. PMID: 21347149; PMCID: PMC3041546.
      View in: PubMed   Mentions: 19  
    120. GO-Bayes: Gene Ontology-based overrepresentation analysis using a Bayesian approach. Bioinformatics. 2010 Apr 01; 26(7):905-11. Zhang S, Cao J, Kong YM, Scheuermann RH. PMID: 20176581; PMCID: PMC2913669.
      View in: PubMed   Mentions: 14     Fields:    Translation:Humans
    121. Hematopoietic cell types: prototype for a revised cell ontology. J Biomed Inform. 2011 Feb; 44(1):75-9. Diehl AD, Augustine AD, Blake JA, Cowell LG, Gold ES, Gondré-Lewis TA, Masci AM, Meehan TF, Morel PA, Nijnik A, Peters B, Pulendran B, Scheuermann RH, Yao QA, Zand MS, Mungall CJ. PMID: 20123131; PMCID: PMC2892030.
      View in: PubMed   Mentions: 22     Fields:    Translation:HumansAnimalsCells
    122. Technical and policy approaches to balancing patient privacy and data sharing in clinical and translational research. J Investig Med. 2010 Jan; 58(1):11-8. Malin B, Karp D, Scheuermann RH. PMID: 20051768; PMCID: PMC2836827.
      View in: PubMed   Mentions: 42     Fields:    Translation:HumansCells
    123. Elucidation of seventeen human peripheral blood B-cell subsets and quantification of the tetanus response using a density-based method for the automated identification of cell populations in multidimensional flow cytometry data. Cytometry B Clin Cytom. 2010; 78 Suppl 1:S69-82. Qian Y, Wei C, Eun-Hyung Lee F, Campbell J, Halliley J, Lee JA, Cai J, Kong YM, Sadat E, Thomson E, Dunn P, Seegmiller AC, Karandikar NJ, Tipton CM, Mosmann T, Sanz I, Scheuermann RH. PMID: 20839340; PMCID: PMC3084630.
      View in: PubMed   Mentions: 102     Fields:    Translation:HumansCellsPHPublic Health
    124. Sequence feature variant type (SFVT) analysis of the HLA genetic association in juvenile idiopathic arthritis. Pac Symp Biocomput. 2010; 359-70. Thomson G, Marthandan N, Hollenbach JA, Mack SJ, Erlich HA, Single RM, Waller MJ, Marsh SG, Guidry PA, Karp DR, Scheuermann RH, Thompson SD, Glass DN, Helmberg W. PMID: 19908388; PMCID: PMC2958177.
      View in: PubMed   Mentions: 10     Fields:    Translation:Humans
    125. Deterministic graph-theoretic algorithm for detecting modules in biological interaction networks. Int J Bioinform Res Appl. 2010; 6(2):101-19. Chang RL, Luo F, Johnson S, Scheuermann RH. PMID: 20223734.
      View in: PubMed   Mentions: 2     Fields:    
    126. Novel sequence feature variant type analysis of the HLA genetic association in systemic sclerosis. Hum Mol Genet. 2010 Feb 15; 19(4):707-19. Karp DR, Marthandan N, Marsh SG, Ahn C, Arnett FC, Deluca DS, Diehl AD, Dunivin R, Eilbeck K, Feolo M, Guidry PA, Helmberg W, Lewis S, Mayes MD, Mungall C, Natale DA, Peters B, Petersdorf E, Reveille JD, Smith B, Thomson G, Waller MJ, Scheuermann RH. PMID: 19933168; PMCID: PMC2807365.
      View in: PubMed   Mentions: 24     Fields:    Translation:HumansCells
    127. Pre-existing immunity against swine-origin H1N1 influenza viruses in the general human population. Proc Natl Acad Sci U S A. 2009 Dec 01; 106(48):20365-70. Greenbaum JA, Kotturi MF, Kim Y, Oseroff C, Vaughan K, Salimi N, Vita R, Ponomarenko J, Scheuermann RH, Sette A, Peters B. PMID: 19918065; PMCID: PMC2777968.
      View in: PubMed   Mentions: 190     Fields:    Translation:HumansCells
    128. Development and evaluation of a study design typology for human research. AMIA Annu Symp Proc. 2009 Nov 14; 2009:81-5. Carini S, Pollock BH, Lehmann HP, Bakken S, Barbour EM, Gabriel D, Hagler HK, Harper CR, Mollah SA, Nahm M, Nguyen HH, Scheuermann RH, Sim I. PMID: 20351827; PMCID: PMC2815479.
      View in: PubMed   Mentions: 7     Fields:    Translation:Humans
    129. Complete genome sequence of Francisella tularensis subspecies holarctica FTNF002-00. PLoS One. 2009 Sep 16; 4(9):e7041. Barabote RD, Xie G, Brettin TS, Hinrichs SH, Fey PD, Jay JJ, Engle JL, Godbole SD, Noronha JM, Scheuermann RH, Zhou LW, Lion C, Dempsey MP. PMID: 19756146; PMCID: PMC2737636.
      View in: PubMed   Mentions: 25     Fields:    Translation:HumansCells
    130. A Distribution-Free Convolution Model for background correction of oligonucleotide microarray data. BMC Genomics. 2009 Jul 07; 10 Suppl 1:S19. Chen Z, McGee M, Liu Q, Kong M, Deng Y, Scheuermann RH. PMID: 19594878; PMCID: PMC2709262.
      View in: PubMed   Mentions: 5     Fields:    
    131. Synergies and distinctions between computational disciplines in biomedical research: perspective from the Clinical andTranslational Science Award programs. Acad Med. 2009 Jul; 84(7):964-70. Bernstam EV, Hersh WR, Johnson SB, Chute CG, Nguyen H, Sim I, Nahm M, Weiner MG, Miller P, DiLaura RP, Overcash M, Lehmann HP, Eichmann D, Athey BD, Scheuermann RH, Anderson N, Starren J, Harris PA, Smith JW, Barbour E, Silverstein JC, Krusch DA, Nagarajan R, Becich MJ, CTSA Biomedical Informatics Key Function Committee. PMID: 19550198; PMCID: PMC2884382.
      View in: PubMed   Mentions: 18     Fields:    Translation:Humans
    132. FuGEFlow: data model and markup language for flow cytometry. BMC Bioinformatics. 2009 Jun 16; 10:184. Qian Y, Tchuvatkina O, Spidlen J, Wilkinson P, Gasparetto M, Jones AR, Manion FJ, Scheuermann RH, Sekaly RP, Brinkman RR. PMID: 19531228; PMCID: PMC2711079.
      View in: PubMed   Mentions: 1     Fields:    
    133. Core and periphery structures in protein interaction networks. BMC Bioinformatics. 2009 Apr 29; 10 Suppl 4:S8. Luo F, Li B, Wan XF, Scheuermann RH. PMID: 19426456; PMCID: PMC2681073.
      View in: PubMed   Mentions: 13     Fields:    Translation:Cells
    134. Toward an ontological treatment of disease and diagnosis. Summit Transl Bioinform. 2009 Mar 01; 2009:116-20. Scheuermann RH, Ceusters W, Smith B. PMID: 21347182; PMCID: PMC3041577.
      View in: PubMed   Mentions: 78  
    135. An improved ontological representation of dendritic cells as a paradigm for all cell types. BMC Bioinformatics. 2009 Feb 25; 10:70. Masci AM, Arighi CN, Diehl AD, Lieberman AE, Mungall C, Scheuermann RH, Smith B, Cowell LG. PMID: 19243617; PMCID: PMC2662812.
      View in: PubMed   Mentions: 23     Fields:    Translation:Cells
    136. Keeping raw data in context. Science. 2009 Feb 06; 323(5915):713. Sim I, Chute CG, Lehmann H, Nagarajan R, Nahm M, Scheuermann RH. PMID: 19197039.
      View in: PubMed   Mentions: 3     Fields:    Translation:Humans
    137. MIFlowCyt: the minimum information about a Flow Cytometry Experiment. Cytometry A. 2008 Oct; 73(10):926-30. Lee JA, Spidlen J, Boyce K, Cai J, Crosbie N, Dalphin M, Furlong J, Gasparetto M, Goldberg M, Goralczyk EM, Hyun B, Jansen K, Kollmann T, Kong M, Leif R, McWeeney S, Moloshok TD, Moore W, Nolan G, Nolan J, Nikolich-Zugich J, Parrish D, Purcell B, Qian Y, Selvaraj B, Smith C, Tchuvatkina O, Wertheimer A, Wilkinson P, Wilson C, Wood J, Zigon R, International Society for Advancement of Cytometry Data Standards Task Force, Scheuermann RH, Brinkman RR. PMID: 18752282; PMCID: PMC2773297.
      View in: PubMed   Mentions: 170     Fields:    
    138. Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project. Nat Biotechnol. 2008 Aug; 26(8):889-96. Taylor CF, Field D, Sansone SA, Aerts J, Apweiler R, Ashburner M, Ball CA, Binz PA, Bogue M, Booth T, Brazma A, Brinkman RR, Michael Clark A, Deutsch EW, Fiehn O, Fostel J, Ghazal P, Gibson F, Gray T, Grimes G, Hancock JM, Hardy NW, Hermjakob H, Julian RK, Kane M, Kettner C, Kinsinger C, Kolker E, Kuiper M, Le Novère N, Leebens-Mack J, Lewis SE, Lord P, Mallon AM, Marthandan N, Masuya H, McNally R, Mehrle A, Morrison N, Orchard S, Quackenbush J, Reecy JM, Robertson DG, Rocca-Serra P, Rodriguez H, Rosenfelder H, Santoyo-Lopez J, Scheuermann RH, Schober D, Smith B, Snape J, Stoeckert CJ, Tipton K, Sterk P, Untergasser A, Vandesompele J, Wiemann S. PMID: 18688244; PMCID: PMC2771753.
      View in: PubMed   Mentions: 234     Fields:    
    139. The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration. Nat Biotechnol. 2007 Nov; 25(11):1251-5. Smith B, Ashburner M, Rosse C, Bard J, Bug W, Ceusters W, Goldberg LJ, Eilbeck K, Ireland A, Mungall CJ, OBI Consortium, Leontis N, Rocca-Serra P, Ruttenberg A, Sansone SA, Scheuermann RH, Shah N, Whetzel PL, Lewis S. PMID: 17989687; PMCID: PMC2814061.
      View in: PubMed   Mentions: 824     Fields:    Translation:Humans
    140. BioHealthBase: informatics support in the elucidation of influenza virus host pathogen interactions and virulence. Nucleic Acids Res. 2008 Jan; 36(Database issue):D497-503. Squires B, Macken C, Garcia-Sastre A, Godbole S, Noronha J, Hunt V, Chang R, Larsen CN, Klem E, Biersack K, Scheuermann RH. PMID: 17965094; PMCID: PMC2238987.
      View in: PubMed   Mentions: 43     Fields:    Translation:HumansAnimalsCells
    141. Complete genomic characterization of a pathogenic A.II strain of Francisella tularensis subspecies tularensis. PLoS One. 2007 Sep 26; 2(9):e947. Beckstrom-Sternberg SM, Auerbach RK, Godbole S, Pearson JV, Beckstrom-Sternberg JS, Deng Z, Munk C, Kubota K, Zhou Y, Bruce D, Noronha J, Scheuermann RH, Wang A, Wei X, Wang J, Hao J, Wagner DM, Brettin TS, Brown N, Gilna P, Keim PS. PMID: 17895988; PMCID: PMC1978527.
      View in: PubMed   Mentions: 29     Fields:    Translation:HumansCells
    142. National Institute of Allergy and Infectious Diseases bioinformatics resource centers: new assets for pathogen informatics. Infect Immun. 2007 Jul; 75(7):3212-9. Greene JM, Collins F, Lefkowitz EJ, Roos D, Scheuermann RH, Sobral B, Stevens R, White O, Di Francesco V. PMID: 17420237; PMCID: PMC1932942.
      View in: PubMed   Mentions: 36     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    143. Ontology development for biological systems: immunology. Bioinformatics. 2007 Apr 01; 23(7):913-5. Diehl AD, Lee JA, Scheuermann RH, Blake JA. PMID: 17267433.
      View in: PubMed   Mentions: 20     Fields:    
    144. A distribution free summarization method for Affymetrix GeneChip arrays. Bioinformatics. 2007 Feb 01; 23(3):321-7. Chen Z, McGee M, Liu Q, Scheuermann RH. PMID: 17148508.
      View in: PubMed   Mentions: 38     Fields:    
    145. Modular organization of protein interaction networks. Bioinformatics. 2007 Jan 15; 23(2):207-14. Luo F, Yang Y, Chen CF, Chang R, Zhou J, Scheuermann RH. PMID: 17092991.
      View in: PubMed   Mentions: 49     Fields:    Translation:AnimalsCells
    146. Cancer dormancy: from mice to man. Cell Cycle. 2006 Aug; 5(16):1772-8. Marches R, Scheuermann R, Uhr J. PMID: 16929181.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansAnimalsCells
    147. Components of the antigen processing and presentation pathway revealed by gene expression microarray analysis following B cell antigen receptor (BCR) stimulation. BMC Bioinformatics. 2006 May 02; 7:237. Lee JA, Sinkovits RS, Mock D, Rab EL, Cai J, Yang P, Saunders B, Hsueh RC, Choi S, Subramaniam S, Scheuermann RH, Alliance for Cellular Signaling. PMID: 16670020; PMCID: PMC1479375.
      View in: PubMed   Mentions: 20     Fields:    Translation:HumansCells
    148. Nucleic acid testing for viral burden and viral genotyping. Clin Chim Acta. 2006 Jan; 363(1-2):197-205. Domiati-Saad R, Scheuermann RH. PMID: 16098959.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    149. Analysis of the major patterns of B cell gene expression changes in response to short-term stimulation with 33 single ligands. J Immunol. 2004 Dec 15; 173(12):7141-9. Zhu X, Hart R, Chang MS, Kim JW, Lee SY, Cao YA, Mock D, Ke E, Saunders B, Alexander A, Grossoehme J, Lin KM, Yan Z, Hsueh R, Lee J, Scheuermann RH, Fruman DA, Seaman W, Subramaniam S, Sternweis P, Simon MI, Choi S. PMID: 15585835.
      View in: PubMed   Mentions: 33     Fields:    Translation:AnimalsCells
    150. Development of real-time PCR assays for the quantitative detection of Epstein-Barr virus and cytomegalovirus, comparison of TaqMan probes, and molecular beacons. J Mol Diagn. 2003 Feb; 5(1):15-20. Jebbink J, Bai X, Rogers BB, Dawson DB, Scheuermann RH, Domiati-Saad R. PMID: 12552075; PMCID: PMC1907370.
      View in: PubMed   Mentions: 19     Fields:    Translation:HumansCells
    151. Overview of the Alliance for Cellular Signaling. Nature. 2002 Dec 12; 420(6916):703-6. Gilman AG, Simon MI, Bourne HR, Harris BA, Long R, Ross EM, Stull JT, Taussig R, Bourne HR, Arkin AP, Cobb MH, Cyster JG, Devreotes PN, Ferrell JE, Fruman D, Gold M, Weiss A, Stull JT, Berridge MJ, Cantley LC, Catterall WA, Coughlin SR, Olson EN, Smith TF, Brugge JS, Botstein D, Dixon JE, Hunter T, Lefkowitz RJ, Pawson AJ, Sternberg PW, Varmus H, Subramaniam S, Sinkovits RS, Li J, Mock D, Ning Y, Saunders B, Sternweis PC, Hilgemann D, Scheuermann RH, DeCamp D, Hsueh R, Lin KM, Ni Y, Seaman WE, Simpson PC, O'Connell TD, Roach T, Simon MI, Choi S, Eversole-Cire P, Fraser I, Mumby MC, Zhao Y, Brekken D, Shu H, Meyer T, Chandy G, Heo WD, Liou J, O'Rourke N, Verghese M, Mumby SM, Han H, Brown HA, Forrester JS, Ivanova P, Milne SB, Casey PJ, Harden TK, Arkin AP, Doyle J, Gray ML, Meyer T, Michnick S, Schmidt MA, Toner M, Tsien RY, Natarajan M, Ranganathan R, Sambrano GR, Participating investigators and scientists of the Alliance for Cellular Signaling. PMID: 12478301.
      View in: PubMed   Mentions: 38     Fields:    Translation:HumansCells
    152. Activation of the Syk tyrosine kinase is insufficient for downstream signal transduction in B lymphocytes. BMC Immunol. 2002 Dec 06; 3:16. Hsueh RC, Hammill AM, Lee JA, Uhr JW, Scheuermann RH. PMID: 12470302; PMCID: PMC139997.
      View in: PubMed   Mentions: 4     Fields:    Translation:AnimalsCells
    153. A novel colonic repressor element regulates intestinal gene expression by interacting with Cux/CDP. Mol Cell Biol. 2002 Aug; 22(15):5467-78. Boudreau F, Rings EH, Swain GP, Sinclair AM, Suh ER, Silberg DG, Scheuermann RH, Traber PG. PMID: 12101240; PMCID: PMC133930.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansAnimalsCells
    154. Presence of simian virus 40 DNA sequences in human lymphomas. Lancet. 2002 Mar 09; 359(9309):851-2. Shivapurkar N, Harada K, Reddy J, Scheuermann RH, Xu Y, McKenna RW, Milchgrub S, Kroft SH, Feng Z, Gazdar AF. PMID: 11897287.
      View in: PubMed   Mentions: 25     Fields:    Translation:HumansCells
    155. Lymphoid apoptosis and myeloid hyperplasia in CCAAT displacement protein mutant mice. Blood. 2001 Dec 15; 98(13):3658-67. Sinclair AM, Lee JA, Goldstein A, Xing D, Liu S, Ju R, Tucker PW, Neufeld EJ, Scheuermann RH. PMID: 11739170.
      View in: PubMed   Mentions: 51     Fields:    Translation:AnimalsCells
    156. Prevalence and cellular reservoir of latent human herpesvirus 6 in tonsillar lymphoid tissue. Am J Clin Pathol. 2001 Nov; 116(5):648-54. Roush KS, Domiati-Saad RK, Margraf LR, Krisher K, Scheuermann RH, Rogers BB, Dawson DB. PMID: 11710680.
      View in: PubMed   Mentions: 13     Fields:    Translation:HumansCells
    157. Transcriptional activation by a matrix associating region-binding protein. contextual requirements for the function of bright. J Biol Chem. 2001 Jun 15; 276(24):21325-30. Kaplan MH, Zong RT, Herrscher RF, Scheuermann RH, Tucker PW. PMID: 11294836.
      View in: PubMed   Mentions: 17     Fields:    Translation:HumansCells
    158. Diagnostic applications of quantitative polymerase chain reaction for cytomegalovirus. Methods Mol Med. 2001; 49:337-51. Scheuermann RH, Bai X. PMID: 21370152.
      View in: PubMed   Mentions:    Fields:    
    159. Predictive value of quantitative PCR-based viral burden analysis for eight human herpesviruses in pediatric solid organ transplant patients. J Mol Diagn. 2000 Nov; 2(4):191-201. Bai X, Rogers BB, Harkins PC, Sommerauer J, Squires R, Rotondo K, Quan A, Dawson DB, Scheuermann RH. PMID: 11232109; PMCID: PMC1906918.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    160. Kinetics of early therapeutic response as measured by quantitative PCR predicts survival in a murine xenograft model of human T cell acute lymphoblastic leukemia. Leukemia. 2000 Jul; 14(7):1215-24. Hosler GA, Bash R, Scheuermann RH. PMID: 10914545.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansAnimalsCells
    161. Tyrosine kinase activation in the decision between growth, differentiation, and death responses initiated from the B cell antigen receptor. Adv Immunol. 2000; 75:283-316. Hsueh RC, Scheuermann RH. PMID: 10879287.
      View in: PubMed   Mentions: 23     Fields:    Translation:HumansCells
    162. Annexin V staining due to loss of membrane asymmetry can be reversible and precede commitment to apoptotic death. Exp Cell Res. 1999 Aug 25; 251(1):16-21. Hammill AK, Uhr JW, Scheuermann RH. PMID: 10438567.
      View in: PubMed   Mentions: 45     Fields:    Translation:AnimalsCells
    163. Quantitation of 8 human herpesviruses in peripheral blood of human immunodeficiency virus-infected patients and healthy blood donors by polymerase chain reaction. Am J Clin Pathol. 1999 May; 111(5):655-9. Hoang MP, Rogers BB, Dawson DB, Scheuermann RH. PMID: 10230356.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    164. Development and validation of a quantitative polymerase chain reaction assay to evaluate minimal residual disease for T-cell acute lymphoblastic leukemia and follicular lymphoma. Am J Pathol. 1999 Apr; 154(4):1023-35. Hosler GA, Bash RO, Bai X, Jain V, Scheuermann RH. PMID: 10233841; PMCID: PMC1866560.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    165. Human herpesvirus-6 and sudden death in infancy: report of a case and review of the literature. J Forensic Sci. 1999 Mar; 44(2):432-7. Hoang MP, Ross KF, Dawson DB, Scheuermann RH, Rogers BB. PMID: 10097377.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    166. Cancer dormancy. VII. A regulatory role for CD8+ T cells and IFN-gamma in establishing and maintaining the tumor-dormant state. J Immunol. 1999 Mar 01; 162(5):2842-9. Farrar JD, Katz KH, Windsor J, Thrush G, Scheuermann RH, Uhr JW, Street NE. PMID: 10072532.
      View in: PubMed   Mentions: 49     Fields:    Translation:AnimalsCellsPHPublic Health
    167. Antigen receptor signaling induces differential tyrosine kinase activation and population stability in B-cell lymphoma. Curr Top Microbiol Immunol. 1999; 246:299-304; discussion 305. Hsueh RC, Hammill AK, Marches R, Uhr JW, Scheuermann RH. PMID: 10396069.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCells
    168. Differential regulation of immunoglobulin gene transcription via nuclear matrix-associated regions. Cold Spring Harb Symp Quant Biol. 1999; 64:109-18. Webb C, Zong RT, Lin D, Wang Z, Kaplan M, Paulin Y, Smith E, Probst L, Bryant J, Goldstein A, Scheuermann R, Tucker P. PMID: 11232275.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansAnimalsCells
    169. Cux/CDP homeoprotein is a component of NF-muNR and represses the immunoglobulin heavy chain intronic enhancer by antagonizing the bright transcription activator. Mol Cell Biol. 1999 Jan; 19(1):284-95. Wang Z, Goldstein A, Zong RT, Lin D, Neufeld EJ, Scheuermann RH, Tucker PW. PMID: 9858552; PMCID: PMC83886.
      View in: PubMed   Mentions: 32     Fields:    Translation:HumansAnimalsCells
    170. MARs of antigen receptor and co-receptor genes. Crit Rev Eukaryot Gene Expr. 1999; 9(3-4):295-310. Scheuermann RH, Garrard WT. PMID: 10651246.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansAnimalsCells
    171. Epstein-Barr virus polymerase chain reaction and serology in pediatric post-transplant lymphoproliferative disorder: three-year experience. Pediatr Dev Pathol. 1998 Nov-Dec; 1(6):480-6. Rogers BB, Sommerauer J, Quan A, Timmons CF, Dawson DB, Scheuermann RH, Krisher K, Atkins C. PMID: 9724334.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    172. Polymerase chain reaction amplification of archival material for Epstein-Barr virus, cytomegalovirus, human herpesvirus 6, and parvovirus B19 in children with bone marrow hemophagocytosis. Hum Pathol. 1998 Oct; 29(10):1074-7. Hoang MP, Dawson DB, Rogers ZR, Scheuermann RH, Rogers BB. PMID: 9781644.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansCells
    173. Bcl-2 expression in Langerhans' cell histiocytosis. Pediatr Dev Pathol. 1998 May-Jun; 1(3):210-5. Savell VH, Sherman T, Scheuermann RH, Siddiqui AM, Margraf LR. PMID: 10463280.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    174. Benefits and dangers of genetic tests. Nature. 1998 Mar 05; 392(6671):14. Scheuermann RH, Picker LJ. PMID: 9510238.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    175. Cancer dormancy: role of cyclin-dependent kinase inhibitors in induction of cell cycle arrest mediated via membrane IgM. Cancer Res. 1998 Feb 15; 58(4):691-7. Marches R, Scheuermann RH, Uhr JW. PMID: 9485022.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansCells
    176. Quantitative polymerase chain reaction for human herpesvirus diagnosis and measurement of Epstein-Barr virus burden in posttransplant lymphoproliferative disorder. Clin Chem. 1997 Oct; 43(10):1843-9. Bai X, Hosler G, Rogers BB, Dawson DB, Scheuermann RH. PMID: 9342002.
      View in: PubMed   Mentions: 24     Fields:    Translation:HumansCells
    177. Tumor dormancy and cell signaling. V. Regrowth of the BCL1 tumor after dormancy is established. Blood. 1997 Jun 15; 89(12):4425-36. Vitetta ES, Tucker TF, Racila E, Huang YW, Marches R, Lane N, Scheuermann RH, Street NE, Watanabe T, Uhr JW. PMID: 9192767.
      View in: PubMed   Mentions: 7     Fields:    Translation:AnimalsCellsPHPublic Health
    178. Cancer dormancy: opportunities for new therapeutic approaches. Nat Med. 1997 May; 3(5):505-9. Uhr JW, Scheuermann RH, Street NE, Vitetta ES. PMID: 9142117.
      View in: PubMed   Mentions: 40     Fields:    Translation:HumansAnimals
    179. A role for c-myc in the regulation of thymocyte differentiation and possibly positive selection. J Immunol. 1996 May 01; 156(9):3141-50. Broussard-Diehl C, Bauer SR, Scheuermann RH. PMID: 8617934.
      View in: PubMed   Mentions: 8     Fields:    Translation:AnimalsCells
    180. Tumor dormancy and cell signaling: anti-mu-induced apoptosis in human B-lymphoma cells is not caused by an APO-1-APO-1 ligand interaction. Proc Natl Acad Sci U S A. 1996 Mar 05; 93(5):2165-8. Racila E, Hsueh R, Marches R, Tucker TF, Krammer PH, Scheuermann RH, Uhr JW. PMID: 8700902; PMCID: PMC39928.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    181. Role of antibody signaling in inducing tumor dormancy. Adv Exp Med Biol. 1996; 406:69-74. Uhr JW, Marches R, Racila E, Tucker TF, Hsueh R, Street NE, Vitetta ES, Scheuermann RH. PMID: 8910672.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCells
    182. The immunoglobulin heavy-chain matrix-associating regions are bound by Bright: a B cell-specific trans-activator that describes a new DNA-binding protein family. Genes Dev. 1995 Dec 15; 9(24):3067-82. Herrscher RF, Kaplan MH, Lelsz DL, Das C, Scheuermann R, Tucker PW. PMID: 8543152.
      View in: PubMed   Mentions: 101     Fields:    Translation:Cells
    183. Mutually exclusive interaction of a novel matrix attachment region binding protein and the NF-muNR enhancer repressor. Implications for regulation of immunoglobulin heavy chain expression. J Biol Chem. 1995 Oct 13; 270(41):24010-8. Zong RT, Scheuermann RH. PMID: 7592598.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansAnimalsCells
    184. Connections between signal transduction components and cellular responses initiated by antigen receptor on B lymphocytes. J Exp Med. 1995 Oct 01; 182(4):903-6. Scheuermann RH, Uhr JW. PMID: 7561692; PMCID: PMC2192304.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    185. CD19 antigen in leukemia and lymphoma diagnosis and immunotherapy. Leuk Lymphoma. 1995 Aug; 18(5-6):385-97. Scheuermann RH, Racila E. PMID: 8528044.
      View in: PubMed   Mentions: 137     Fields:    Translation:HumansCells
    186. Tumour dormancy and cell signalling--III: Role of hypercrosslinking of IgM and CD40 on the induction of cell cycle arrest and apoptosis in B lymphoma cells. Ther Immunol. 1995 Jun; 2(3):125-36. Marches R, Racila E, Tucker TF, Picker L, Mongini P, Hsueh R, Vitetta ES, Scheuermann RH, Uhr JW. PMID: 8885131.
      View in: PubMed   Mentions: 9     Fields:    Translation:AnimalsCells
    187. Tumor dormancy and cell signaling. II. Antibody as an agonist in inducing dormancy of a B cell lymphoma in SCID mice. J Exp Med. 1995 Apr 01; 181(4):1539-50. Racila E, Scheuermann RH, Picker LJ, Yefenof E, Tucker T, Chang W, Marches R, Street NE, Vitetta ES, Uhr JW. PMID: 7535341; PMCID: PMC2191969.
      View in: PubMed   Mentions: 19     Fields:    Translation:AnimalsCells
    188. Lyn tyrosine kinase signals cell cycle arrest in mouse and human B-cell lymphoma. Curr Top Microbiol Immunol. 1995; 194:313-21. Scheuermann RH, Racila E, Uhr JW. PMID: 7895504.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCellsPHPublic Health
    189. Lyn tyrosine kinase signals cell cycle arrest but not apoptosis in B-lineage lymphoma cells. Proc Natl Acad Sci U S A. 1994 Apr 26; 91(9):4048-52. Scheuermann RH, Racila E, Tucker T, Yefenof E, Street NE, Vitetta ES, Picker LJ, Uhr JW. PMID: 7513431; PMCID: PMC43720.
      View in: PubMed   Mentions: 15     Fields:    Translation:HumansAnimalsCells
    190. Induction of B cell tumor dormancy by anti-idiotypic antibodies. Curr Opin Immunol. 1993 Oct; 5(5):740-4. Yefenof E, Picker LJ, Scheuermann RH, Vitetta ES, Street NE, Tucker TF, Uhr JW. PMID: 8240736.
      View in: PubMed   Mentions: 2     Fields:    Translation:AnimalsPHPublic Health
    191. Cancer dormancy: isolation and characterization of dormant lymphoma cells. Proc Natl Acad Sci U S A. 1993 Mar 01; 90(5):1829-33. Yefenof E, Picker LJ, Scheuermann RH, Tucker TF, Vitetta ES, Uhr JW. PMID: 8446596; PMCID: PMC45973.
      View in: PubMed   Mentions: 18     Fields:    Translation:Animals
    192. Polymerase chain reaction-based mRNA quantification using an internal standard: analysis of oncogene expression. Methods Enzymol. 1993; 218:446-73. Scheuermann RH, Bauer SR. PMID: 7685470.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansAnimalsCells
    193. Loss of p53 expression in Myc-induced B lineage tumors. Curr Top Microbiol Immunol. 1992; 182:493-9. Scheuermann RH, Bauer SR. PMID: 1490390.
      View in: PubMed   Mentions:    Fields:    Translation:Animals
    194. Anti-IgM antibodies down modulate mu-enhancer activity and OTF2 levels in LPS-stimulated mouse splenic B-cells. Nucleic Acids Res. 1991 Nov 11; 19(21):5981-9. Chen U, Scheuermann RH, Wirth T, Gerster T, Roeder RG, Harshman K, Berger C. PMID: 1658749; PMCID: PMC329056.
      View in: PubMed   Mentions: 5     Fields:    Translation:AnimalsCells
    195. Light Energy Dissipation under Water Stress Conditions: Contribution of Reassimilation and Evidence for Additional Processes. Plant Physiol. 1990 Apr; 92(4):1053-61. Stuhlfauth T, Scheuermann R, Fock HP. PMID: 16667370; PMCID: PMC1062415.
      View in: PubMed   Mentions: 16     Fields:    
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