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          About NIAMS
          Stephen Brooks, Ph.D.





Stephen Brooks, Ph.D.


Staff Scientist
    Biodata Mining and Discovery Section Profile Image 
            Contact Information

                                                  301-594-3890
                
                                                9000 Rockville Pike
                  
                  
            Building 50, Room 1140
      
                                   Bethesda MD 20892
                
                                                stephen.brooks@nih.gov 
                Summary
          Dr. Brooks received his Ph.D. from The University of Alabama at Birmingham and did post-doctoral training at NIAMS studying immune cell signaling. After a brief hiatus, Dr. Brooks returned to NIAMS to join the Biodata Mining and Discovery Section.
        
                  Research Statement
          
            The Biodata Mining and Discovery Section, led by Dr. Hong-Wei Sun, provides bioinformatics support to various labs within NIAMS. Dr. Brooks specializes in transcriptional regulation and microbiome analysis, including bulk and single cell RNA-Seq and ATAC-Seq as well as bulk ATAC-Seq. He also develops and implements cutting edge new data analysis methods and approaches. 

            Scientific Publications
              Neutrophil extracellular traps mediate articular cartilage damage and enhance cartilage component immunogenicity in rheumatoid arthritis.

    Carmona-Rivera C, Carlucci PM, Goel RR, James E, Brooks SR, Rims C, Hoffmann V, Fox DA, Buckner JH, Kaplan MJ
        

                    JCI Insight.
        
                    2020 Jul 9;
        
                    5(13).
        
                    pii: 139388. doi: 10.1172/jci.insight.139388
                            PMID: 32484790
  Gata6(+) Pericardial Cavity Macrophages Relocate to the Injured Heart and Prevent Cardiac Fibrosis.

    Deniset JF, Belke D, Lee WY, Jorch SK, Deppermann C, Hassanabad AF, Turnbull JD, Teng G, Rozich I, Hudspeth K, Kanno Y, Brooks SR, Hadjantonakis AK, O'Shea JJ, Weber GF, Fedak PWM, Kubes P
        

                    Immunity.
        
                    2019 Jul 16;
        
                    51(1).
        
                    doi: 10.1016/j.immuni.2019.06.010
                            PMID: 31315031
  Novel Inter-omic Analysis Reveals Relationships Between Diverse Gut Microbiota and Host Immune Dysregulation in HLA-B27-Induced Experimental Spondyloarthritis.

    Gill T, Brooks SR, Rosenbaum JT, Asquith M, Colbert RA
        

                    Arthritis Rheumatol.
        
                    2019 Nov;
        
                    71(11).
        
                    doi: 10.1002/art.41018
                            PMID: 31216122
  SOX2 Epidermal Overexpression Promotes Cutaneous Wound Healing via Activation of EGFR/MEK/ERK Signaling Mediated by EGFR Ligands.

    Uchiyama A, Nayak S, Graf R, Cross M, Hasneen K, Gutkind JS, Brooks SR, Morasso MI
        

                    J Invest Dermatol.
        
                    2019 Aug;
        
                    139(8).
        
                    doi: 10.1016/j.jid.2019.02.004
                            PMID: 30772301
  Molecular basis of Mitomycin C enhanced corneal sensory nerve repair after debridement wounding.

    Stepp MA, Pal-Ghosh S, Tadvalkar G, Li L, Brooks SR, Morasso MI
        

                    Sci Rep.
        
                    2018 Nov 16;
        
                    8(1).
        
                    doi: 10.1038/s41598-018-35090-3
                            PMID: 30446696
  Transcriptional signature primes human oral mucosa for rapid wound healing.

    Iglesias-Bartolome R, Uchiyama A, Molinolo AA, Abusleme L, Brooks SR, Callejas-Valera JL, Edwards D, Doci C, Asselin-Labat ML, Onaitis MW, Moutsopoulos NM, Gutkind JS, Morasso MI
        

                    Sci Transl Med.
        
                    2018 Jul 25;
        
                    10(451).
        
                    doi: 10.1126/scitranslmed.aap8798
                            PMID: 30045979
  Development of a Validated Interferon Score Using NanoString Technology.

    Kim H, de Jesus AA, Brooks SR, Liu Y, Huang Y, VanTries R, Montealegre Sanchez GA, Rotman Y, Gadina M, Goldbach-Mansky R
        

                    J Interferon Cytokine Res.
        
                    2018 Apr;
        
                    38(4).
        
                    doi: 10.1089/jir.2017.0127
                            PMID: 29638206
  Effects of HLA-B27 on Gut Microbiota in Experimental Spondyloarthritis Implicate an Ecological Model of Dysbiosis.

    Gill T, Asquith M, Brooks SR, Rosenbaum JT, Colbert RA
        

                    Arthritis Rheumatol.
        
                    2018 Apr;
        
                    70(4).
        
                    doi: 10.1002/art.40405
                            PMID: 29287307
  Pharmacokinetics, Pharmacodynamics, and Proposed Dosing of the Oral JAK1 and JAK2 Inhibitor Baricitinib in Pediatric and Young Adult CANDLE and SAVI Patients.

    Kim H, Brooks KM, Tang CC, Wakim P, Blake M, Brooks SR, Montealegre Sanchez GA, de Jesus AA, Huang Y, Tsai WL, Gadina M, Prakash A, Janes JM, Zhang X, Macias WL, Kumar P, Goldbach-Mansky R
        

                    Clin Pharmacol Ther.
        
                    2018 Aug;
        
                    104(2).
        
                    doi: 10.1002/cpt.936
                            PMID: 29134648
  Developmental Acquisition of Regulomes Underlies Innate Lymphoid Cell Functionality.

    Shih HY, Sciumè G, Mikami Y, Guo L, Sun HW, Brooks SR, Urban JF Jr, Davis FP, Kanno Y, O'Shea JJ
        

                    Cell.
        
                    2016 May 19;
        
                    165(5).
        
                    doi: 10.1016/j.cell.2016.04.029
                            PMID: 27156451 
          Education
              
            University of Alabama at Birmingham, Birmingham, Alabama, Ph.D.
	University of Illinois, Urbana, Illinois, B.S. in Computer Science             
                        Experience
              
            Staff Scientist, Biodata Mining and Discovery Section, OST, NIAMS, NIH
	Postdoctoral Fellow, Laboratory of Molecular Immunology, NIAMS, NIH


Last Updated: October 2022


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