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BO PENG

TitleSenior Faculty
InstitutionBaylor College of Medicine
DepartmentDepartment of Medicine
AddressOne Baylor Plaza
Houston, TX 77030
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    Collapse Biography 
    Collapse education and training
    Rice University, HoustonPh.D06/2006Biostatistics
    University of Houston, HoustonMS06/2001Applied Mathematics
    Collapse awards and honors
    2011 - 2011Richard C. Devereaux Outstanding Young Investigator Award in Lung Cancer Prevention, Prevent Cancer Foundation
    2006 - 2009R25 Postdoctoral Fellowship in Cancer Prevention, National Institutes of Health
    2004 - 2006Predoctoral W.M. Keck Fellowship, W.M. Keck Foundation

    Collapse Overview 
    Collapse overview
    Dr. Peng completed his Ph.D. training in 2006 at Rice University with a Ph.D. in Biostatistics. He also received a Master of Arts in Applied Mathematics at Rice University in 2001. He completed postdoctoral training through an NIH R25 Postdoctoral Fellowship in Cancer Prevention, in Genetic Epidemiology from 2006-2008. Dr. Peng has produced more than 40 publications.

    Dr. Peng’s specialties include genetic simulations, epidemiological association analysis, and bioinformatic and next-generation sequencing data analysis. As an open-source advocate and an experienced software developer, he is the author of multiple large-scale software projects, including simuPOP, Variant Tools, and SoS Polyglot Notebook and Workflow System.

    Collapse Research 
    Collapse research activities and funding
    R01HG008972     (LEAL, SUZANNE M)Jun 14, 2016 - Mar 31, 2021
    NIH
    Computational tools for sequence-based large-scale epidemiology studies
    Role: Co-Investigator

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      Collapse Bibliographic 
      Collapse selected publications
      Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
      Newest   |   Oldest   |   Most Cited   |   Most Discussed   |   Timeline   |   Field Summary   |   Plain Text
      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. Chan CH, Deng YH, Peng BY, Chiang PC, Wu LA, Lee YY, Tsao W, Mao HH, Wu CY, Deng WP. Anti-Colorectal Cancer Effects of Fucoidan Complex-Based Functional Beverage Through Retarding Proliferation, Cell Cycle and Epithelial-Mesenchymal Transition Signaling Pathways. Integr Cancer Ther. 2023 Jan-Dec; 22:15347354231213613. PMID: 38059303; PMCID: PMC10704951.
        Citations: 1     Fields:    Translation:HumansAnimalsCells
      2. Singhmar P, Trinh RTP, Ma J, Huo X, Peng B, Heijnen CJ, Kavelaars A. The fibroblast-derived protein PI16 controls neuropathic pain. Proc Natl Acad Sci U S A. 2020 03 10; 117(10):5463-5471. PMID: 32079726; PMCID: PMC7071920.
        Citations: 14     Fields:    Translation:AnimalsCells
      3. Ma J, Trinh RT, Mahant ID, Peng B, Matthias P, Heijnen CJ, Kavelaars A. Cell-specific role of histone deacetylase 6 in chemotherapy-induced mechanical allodynia and loss of intraepidermal nerve fibers. Pain. 2019 12; 160(12):2877-2890. PMID: 31356453; PMCID: PMC6856416.
        Citations: 21     Fields:    Translation:AnimalsCells
      4. Du D, Chang CH, Wang Y, Tong P, Chan WK, Chiu Y, Peng B, Tan L, Weinstein JN, Lorenzi PL. Response envelope analysis for quantitative evaluation of drug combinations. Bioinformatics. 2019 10 01; 35(19):3761-3770. PMID: 30851108; PMCID: PMC7963081.
        Citations:    Fields:    
      5. Ruiz-Cordero R, Rao P, Li L, Qi Y, Atherton D, Peng B, Singh RR, Kim TB, Kawakami F, Routbort MJ, Alouch N, Chow CB, Tang X, Lu W, Brimo F, Matin SF, Wood CG, Tannir NM, Wistuba II, Chen K, Wang J, Medeiros LJ, Karam JA, Tamboli P, Sircar K. Hybrid oncocytic/chromophobe renal tumors are molecularly distinct from oncocytoma and chromophobe renal cell carcinoma. Mod Pathol. 2019 11; 32(11):1698-1707. PMID: 31231128.
        Citations: 10     Fields:    Translation:HumansCells
      6. Wang G, Peng B. Script of Scripts: A pragmatic workflow system for daily computational research. PLoS Comput Biol. 2019 02; 15(2):e1006843. PMID: 30811390; PMCID: PMC6411228.
        Citations: 3     Fields:    
      7. Du D, Tan L, Wang Y, Peng B, Weinstein JN, Wondisford FE, Su X, Lorenzi PL. ElemCor: accurate data analysis and enrichment calculation for high-resolution LC-MS stable isotope labeling experiments. BMC Bioinformatics. 2019 Feb 19; 20(1):89. PMID: 30782135; PMCID: PMC6381631.
        Citations: 4     Fields:    Translation:Animals
      8. Peng B, Leong MC, Chen HS, Rotunno M, Brignole KR, Clarke J, Mechanic LE. Genetic Simulation Resources and the GSR Certification Program. Bioinformatics. 2019 02 15; 35(4):709-710. PMID: 30101297; PMCID: PMC6378936.
        Citations: 2     Fields:    
      9. Tetzlaff MT, Curry JL, Ning J, Sagiv O, Kandl TL, Peng B, Bell D, Routbort M, Hudgens CW, Ivan D, Kim TB, Chen K, Eterovic AK, Shaw K, Prieto VG, Yemelyanova A, Esmaeli B. Distinct Biological Types of Ocular Adnexal Sebaceous Carcinoma: HPV-Driven and Virus-Negative Tumors Arise through Nonoverlapping Molecular-Genetic Alterations. Clin Cancer Res. 2019 02 15; 25(4):1280-1290. PMID: 30420449.
        Citations: 7     Fields:    Translation:HumansCells
      10. Peng B, Wang G, Ma J, Leong MC, Wakefield C, Melott J, Chiu Y, Du D, Weinstein JN. SoS Notebook: an interactive multi-language data analysis environment. Bioinformatics. 2018 11 01; 34(21):3768-3770. PMID: 29790910; PMCID: PMC6198852.
        Citations: 3     Fields:    
      11. Chiu GS, Boukelmoune N, Chiang ACA, Peng B, Rao V, Kingsley C, Liu HL, Kavelaars A, Kesler SR, Heijnen CJ. Nasal administration of mesenchymal stem cells restores cisplatin-induced cognitive impairment and brain damage in mice. Oncotarget. 2018 Oct 30; 9(85):35581-35597. PMID: 30473752; PMCID: PMC6238972.
        Citations: 25     Fields:    
      12. Keene KS, King T, Hwang ES, Peng B, McGuire KP, Tapia C, Zhang H, Bae S, Nakhlis F, Klauber-Demore N, Meszoely I, Sabel MS, Willey SC, Eterovic AK, Hudis C, Wolff AC, De Los Santos J, Thompson A, Mills GB, Meric-Bernstam F. Molecular determinants of post-mastectomy breast cancer recurrence. NPJ Breast Cancer. 2018; 4:34. PMID: 30345349; PMCID: PMC6185974.
        Citations: 3     
      13. Qin L, Kao YW, Lin YL, Peng BY, Peng BY, Deng WP, Chen TM, Lin KC, Yuan KS, Wu ATH, Shia BC, Wu SY. Recurrent aphthous stomatitis may be a precursor or risk factor for specific cancers: A case-control frequency-matched study. Cancer Med. 2018 08; 7(8):4104-4114. PMID: 30009475; PMCID: PMC6089185.
        Citations:    
      14. Peng BY, Chiou CS, Dubey NK, Yu SH, Deng YH, Tsai FC, Chiang HS, Shieh YH, Chen WH, Deng WP. Correction: Non-invasive in vivo molecular imaging of intra-articularly transplanted immortalized bone marrow stem cells for osteoarthritis treatment. Oncotarget. 2018 05 18; 9(38):25383. PMID: 29863193; PMCID: PMC5982763.
        Citations: 1     Fields:    
      15. Lu MY, Liao YW, Chen PY, Hsieh PL, Fang CY, Wu CY, Yen ML, Peng BY, Wang DP, Cheng HC, Wu CZ, Shih YH, Wang DJ, Yu CC, Tsai LL. Targeting LncRNA HOTAIR suppresses cancer stemness and metastasis in oral carcinomas stem cells through modulation of EMT. Oncotarget. 2017 Nov 17; 8(58):98542-98552. PMID: 29228709; PMCID: PMC5716749.
        Citations: 23     Fields:    
      16. Peng BY, Chiou CS, Dubey NK, Yu SH, Deng YH, Tsai FC, Chiang HS, Shieh YH, Chen WH, Deng WP. Non-invasive in vivo molecular imaging of intra-articularly transplanted immortalized bone marrow stem cells for osteoarthritis treatment. Oncotarget. 2017 Nov 14; 8(57):97153-97164. PMID: 29228600; PMCID: PMC5722552.
        Citations: 5     Fields:    
      17. Mitra S, Montgomery JE, Kolar MJ, Li G, Jeong KJ, Peng B, Verdine GL, Mills GB, Moellering RE. Stapled peptide inhibitors of RAB25 target context-specific phenotypes in cancer. Nat Commun. 2017 09 22; 8(1):660. PMID: 28939823; PMCID: PMC5610242.
        Citations: 20     Fields:    Translation:HumansAnimalsCells
      18. Wang Z, Kim TB, Peng B, Karam J, Creighton C, Joon A, Kawakami F, Trevisan P, Jonasch E, Chow CW, Canales JR, Tamboli P, Tannir N, Wood C, Monzon F, Baggerly K, Varella-Garcia M, Czerniak B, Wistuba I, Mills G, Shaw K, Chen K, Sircar K. Sarcomatoid Renal Cell Carcinoma Has a Distinct Molecular Pathogenesis, Driver Mutation Profile, and Transcriptional Landscape. Clin Cancer Res. 2017 Nov 01; 23(21):6686-6696. PMID: 28710314; PMCID: PMC5683086.
        Citations: 26     Fields:    Translation:Humans
      19. Moss TJ, Qi Y, Xi L, Peng B, Kim TB, Ezzedine NE, Mosqueda ME, Guo CC, Czerniak BA, Ittmann M, Wheeler DA, Lerner SP, Matin SF. Comprehensive Genomic Characterization of Upper Tract Urothelial Carcinoma. Eur Urol. 2017 10; 72(4):641-649. PMID: 28601352.
        Citations: 67     Fields:    Translation:Humans
      20. Lu JH, Wei HJ, Peng BY, Chou HH, Chen WH, Liu HY, Deng WP. Adipose-Derived Stem Cells Enhance Cancer Stem Cell Property and Tumor Formation Capacity in Lewis Lung Carcinoma Cells Through an Interleukin-6 Paracrine Circuit. Stem Cells Dev. 2016 12 01; 25(23):1833-1842. PMID: 27596042.
        Citations: 9     Fields:    Translation:AnimalsCells
      21. Zhu X, Wang J, Peng B, Shete S. Empirical estimation of sequencing error rates using smoothing splines. BMC Bioinformatics. 2016 Apr 22; 17:177. PMID: 27102907; PMCID: PMC4840868.
        Citations: 1     Fields:    Translation:HumansCells
      22. Liu X, White S, Peng B, Johnson AD, Brody JA, Li AH, Huang Z, Carroll A, Wei P, Gibbs R, Klein RJ, Boerwinkle E. WGSA: an annotation pipeline for human genome sequencing studies. J Med Genet. 2016 Feb; 53(2):111-2. PMID: 26395054; PMCID: PMC5124490.
        Citations: 55     Fields:    Translation:Humans
      23. Miller FW, Chen W, O'Hanlon TP, Cooper RG, Vencovsky J, Rider LG, Danko K, Wedderburn LR, Lundberg IE, Pachman LM, Reed AM, Ytterberg SR, Padyukov L, Selva-O'Callaghan A, Radstake TR, Isenberg DA, Chinoy H, Ollier WE, Scheet P, Peng B, Lee A, Byun J, Lamb JA, Gregersen PK, Amos CI, Myositis Genetics Consortium. Genome-wide association study identifies HLA 8.1 ancestral haplotype alleles as major genetic risk factors for myositis phenotypes. Genes Immun. 2015 Oct; 16(7):470-80. PMID: 26291516; PMCID: PMC4840953.
        Citations: 41     Fields:    Translation:Humans
      24. Wei C, Peng B, Han Y, Chen WV, Rother J, Tomlinson GE, Richard Boland C, Chaussabel D, Frazier ML, Amos CI. Erratum to: Mutations of HNRNPA0 and WIF1 predispose members of a large family to multiple cancers. Fam Cancer. 2015 Jun; 14(2):307. PMID: 25820142; PMCID: PMC4593492.
        Citations:    Fields:    
      25. Peng B, Chen HS, Mechanic LE, Racine B, Clarke J, Gillanders E, Feuer EJ. Genetic data simulators and their applications: an overview. Genet Epidemiol. 2015 Jan; 39(1):2-10. PMID: 25504286; PMCID: PMC4804465.
        Citations: 13     Fields:    
      26. Peng B. Reproducible simulations of realistic samples for next-generation sequencing studies using Variant Simulation Tools. Genet Epidemiol. 2015 Jan; 39(1):45-52. PMID: 25395236; PMCID: PMC6432799.
        Citations: 4     Fields:    Translation:Humans
      27. Chen HS, Hutter CM, Mechanic LE, Amos CI, Bafna V, Hauser ER, Hernandez RD, Li C, Liberles DA, McAllister K, Moore JH, Paltoo DN, Papanicolaou GJ, Peng B, Ritchie MD, Rosenfeld G, Witte JS, Gillanders EM, Feuer EJ. Genetic simulation tools for post-genome wide association studies of complex diseases. Genet Epidemiol. 2015 Jan; 39(1):11-19. PMID: 25371374; PMCID: PMC4270837.
        Citations: 13     Fields:    Translation:Humans
      28. Gorlov IP, Moore JH, Peng B, Jin JL, Gorlova OY, Amos CI. SNP characteristics predict replication success in association studies. Hum Genet. 2014 Dec; 133(12):1477-86. PMID: 25273843; PMCID: PMC4384517.
        Citations: 12     Fields:    Translation:Humans
      29. Wang GT, Peng B, Leal SM. Variant association tools for quality control and analysis of large-scale sequence and genotyping array data. Am J Hum Genet. 2014 May 01; 94(5):770-83. PMID: 24791902; PMCID: PMC4067555.
        Citations: 39     Fields:    Translation:Humans
      30. Wang GT, Li B, Santos-Cortez RP, Peng B, Leal SM. Power analysis and sample size estimation for sequence-based association studies. Bioinformatics. 2014 Aug 15; 30(16):2377-8. PMID: 24778108; PMCID: PMC4133582.
        Citations: 5     Fields:    Translation:Humans
      31. Cancer Genome Atlas Research Network. Comprehensive molecular characterization of urothelial bladder carcinoma. Nature. 2014 Mar 20; 507(7492):315-22. PMID: 24476821; PMCID: PMC3962515.
        Citations: 1166     Fields:    Translation:HumansCells
      32. Miller FW, Cooper RG, Rider LG, Danko K, Wedderburn LR, Lundberg IE, Pachman LM, Reed AM, Ytterberg SR, Padyukov L, Selva-O'Callaghan A, Radstake TR, Isenberg DA, Chinoy H, Ollier WE, O'Hanlon TP, Peng B, Peng B, Lee A, Lamb JA, Chen W, Amos CI, Gregersen PK, Myositis Genetics Consortium, Vencovsk? J. Genome-wide association study of dermatomyositis reveals genetic overlap with other autoimmune disorders. Arthritis Rheum. 2013 Dec; 65(12):3239-47. PMID: 23983088; PMCID: PMC3934004.
        Citations: 54     Fields:    Translation:Humans
      33. Dawson JA, Dhurandhar EJ, Vazquez AI, Peng B, Peng B, Allison DB. Propagation of obesity across generations: the roles of differential realized fertility and assortative mating by body mass index. Hum Hered. 2013; 75(2-4):204-12. PMID: 24081235; PMCID: PMC4010105.
        Citations: 4     Fields:    Translation:Humans
      34. Peng B, Chen HS, Mechanic LE, Racine B, Clarke J, Clarke L, Gillanders E, Feuer EJ. Genetic Simulation Resources: a website for the registration and discovery of genetic data simulators. Bioinformatics. 2013 Apr 15; 29(8):1101-2. PMID: 23435068; PMCID: PMC3624809.
        Citations: 16     Fields:    Translation:Humans
      35. Nilsson J, McGinnity P, Cross T, O'Reilly P, Glebe B, Peng B, Peng B, Berg PR, Primmer CR, Vasem?gi A. Screen for Footprints of Selection during Domestication/Captive Breeding of Atlantic Salmon. Comp Funct Genomics. 2012; 2012:628204. PMID: 23326209; PMCID: PMC3544263.
        Citations: 13     
      36. Gorlova OY, Ying J, Amos CI, Spitz MR, Peng B, Gorlov IP. Derived SNP alleles are used more frequently than ancestral alleles as risk-associated variants in common human diseases. J Bioinform Comput Biol. 2012 Apr; 10(2):1241008. PMID: 22809343; PMCID: PMC3655427.
        Citations: 4     Fields:    Translation:Humans
      37. San Lucas FA, Wang G, Scheet P, Peng B. Integrated annotation and analysis of genetic variants from next-generation sequencing studies with variant tools. Bioinformatics. 2012 Feb 01; 28(3):421-2. PMID: 22138362; PMCID: PMC3268240.
        Citations: 74     Fields:    Translation:Humans
      38. Xu Y, Peng B, Fu Y, Amos CI. Genome-wide algorithm for detecting CNV associations with diseases. BMC Bioinformatics. 2011 Aug 09; 12:331. PMID: 21827692; PMCID: PMC3173460.
        Citations: 6     Fields:    Translation:Humans
      39. Peng B, Peng B, Liu X. Simulating sequences of the human genome with rare variants. Hum Hered. 2010; 70(4):287-91. PMID: 21212684; PMCID: PMC3164177.
        Citations: 14     Fields:    Translation:HumansCells
      40. Swartz MD, Peng B, Reyes-Gibby C, Shete S. Using Ascertainment for Targeted Resequencing to Increase Power to Identify Causal Variants. Stat Interface. 2011; 4(3):285-294. PMID: 22468169; PMCID: PMC3316326.
        Citations:    
      41. Peng B, Peng B, Amos CI. Forward-time simulation of realistic samples for genome-wide association studies. BMC Bioinformatics. 2010 Sep 01; 11:442. PMID: 20809983; PMCID: PMC2939614.
        Citations: 15     Fields:    Translation:Humans
      42. Peng B, Peng B. Simulating gene-environment interactions in complex human diseases. Genome Med. 2010 Mar 23; 2(3):21. PMID: 20346093; PMCID: PMC2873799.
        Citations: 3     Fields:    
      43. Gu X, Frankowski RF, Rosner GL, Relling M, Peng B, Peng B, Amos CI. A modified forward multiple regression in high-density genome-wide association studies for complex traits. Genet Epidemiol. 2009 Sep; 33(6):518-25. PMID: 19365845; PMCID: PMC2732748.
        Citations: 3     Fields:    Translation:Humans
      44. Wu CC, Shete S, Chen WV, Peng B, Peng B, Lee AT, Ma J, Gregersen PK, Amos CI. Detection of disease-associated deletions in case-control studies using SNP genotypes with application to rheumatoid arthritis. Hum Genet. 2009 Aug; 126(2):303-15. PMID: 19415332; PMCID: PMC2992885.
        Citations: 5     Fields:    Translation:Humans
      45. Peng B, Peng B, Kimmel M. Simulations provide support for the common disease-common variant hypothesis. Genetics. 2007 Feb; 175(2):763-76. PMID: 17151262; PMCID: PMC1800600.
        Citations: 26     Fields:    Translation:Humans
      46. Peng B, Peng B, Kimmel M. simuPOP: a forward-time population genetics simulation environment. Bioinformatics. 2005 Sep 15; 21(18):3686-7. PMID: 16020469.
        Citations: 137     Fields:    Translation:Humans
      47. Gorlova O, Peng B, Peng B, Yankelevitz D, Henschke C, Kimmel M. Estimating the growth rates of primary lung tumours from samples with missing measurements. Stat Med. 2005 Apr 15; 24(7):1117-34. PMID: 15568189.
        Citations: 4     Fields:    Translation:Humans
      48. Pusztai L, Gregory BW, Baggerly KA, Peng B, Peng B, Koomen J, Kuerer HM, Esteva FJ, Symmans WF, Wagner P, Hortobagyi GN, Laronga C, Semmes OJ, Wright GL, Drake RR, Vlahou A. Pharmacoproteomic analysis of prechemotherapy and postchemotherapy plasma samples from patients receiving neoadjuvant or adjuvant chemotherapy for breast carcinoma. Cancer. 2004 May 01; 100(9):1814-22. PMID: 15112261.
        Citations: 23     Fields:    Translation:Humans
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