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Hume Akahori Stroud, Ph.D.

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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.
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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. Stroud H, Yang MG, Tsitohay YN, Davis CP, Sherman MA, Hrvatin S, Ling E, Greenberg ME. An Activity-Mediated Transition in Transcription in Early Postnatal Neurons. Neuron. 2020 09 09; 107(5):874-890.e8. PMID: 32589877.
    Citations: 1     Fields:    
  2. Boxer LD, Renthal W, Greben AW, Whitwam T, Silberfeld A, Stroud H, Li E, Yang MG, Kinde B, Griffith EC, Bonev B, Greenberg ME. MeCP2 Represses the Rate of Transcriptional Initiation of Highly Methylated Long Genes. Mol Cell. 2020 01 16; 77(2):294-309.e9. PMID: 31784358.
    Citations: 2     Fields:    Translation:AnimalsCells
  3. Hrvatin S, Tzeng CP, Nagy MA, Stroud H, Koutsioumpa C, Wilcox OF, Assad EG, Green J, Harvey CD, Griffith EC, Greenberg ME. A scalable platform for the development of cell-type-specific viral drivers. Elife. 2019 09 23; 8. PMID: 31545165.
    Citations: 1     Fields:    Translation:AnimalsCells
  4. Cheadle L, Tzeng CP, Kalish BT, Harmin DA, Rivera S, Ling E, Nagy MA, Hrvatin S, Hu L, Stroud H, Burkly LC, Chen C, Greenberg ME. Visual Experience-Dependent Expression of Fn14 Is Required for Retinogeniculate Refinement. Neuron. 2018 08 08; 99(3):525-539.e10. PMID: 30033152.
    Citations: 4     Fields:    Translation:AnimalsCells
  5. Stroud H, Su SC, Hrvatin S, Greben AW, Renthal W, Boxer LD, Nagy MA, Hochbaum DR, Kinde B, Gabel HW, Greenberg ME. Early-Life Gene Expression in Neurons Modulates Lasting Epigenetic States. Cell. 2017 Nov 16; 171(5):1151-1164.e16. PMID: 29056337.
    Citations: 29     Fields:    Translation:HumansAnimalsCells
  6. Wollmann H, Stroud H, Yelagandula R, Tarutani Y, Jiang D, Jing L, Jamge B, Takeuchi H, Holec S, Nie X, Kakutani T, Jacobsen SE, Berger F. The histone H3 variant H3.3 regulates gene body DNA methylation in Arabidopsis thaliana. Genome Biol. 2017 05 18; 18(1):94. PMID: 28521766.
    Citations: 11     Fields:    Translation:AnimalsCells
  7. Bewick AJ, Ji L, Niederhuth CE, Willing EM, Hofmeister BT, Shi X, Wang L, Lu Z, Rohr NA, Hartwig B, Kiefer C, Deal RB, Schmutz J, Grimwood J, Stroud H, Jacobsen SE, Schneeberger K, Zhang X, Schmitz RJ. On the origin and evolutionary consequences of gene body DNA methylation. Proc Natl Acad Sci U S A. 2016 08 09; 113(32):9111-6. PMID: 27457936.
    Citations: 54     Fields:    Translation:AnimalsCells
  8. Gabel HW, Kinde B, Stroud H, Gilbert CS, Harmin DA, Kastan NR, Hemberg M, Ebert DH, Greenberg ME. Disruption of DNA-methylation-dependent long gene repression in Rett syndrome. Nature. 2015 Jun 04; 522(7554):89-93. PMID: 25762136.
    Citations: 158     Fields:    Translation:HumansAnimalsCells
  9. Pastor WA, Stroud H, Nee K, Liu W, Pezic D, Manakov S, Lee SA, Moissiard G, Zamudio N, Bourc'his D, Aravin AA, Clark AT, Jacobsen SE. MORC1 represses transposable elements in the mouse male germline. Nat Commun. 2014 Dec 12; 5:5795. PMID: 25503965.
    Citations: 28     Fields:    Translation:AnimalsCells
  10. Groth M, Stroud H, Feng S, Greenberg MV, Vashisht AA, Wohlschlegel JA, Jacobsen SE, Ausin I. SNF2 chromatin remodeler-family proteins FRG1 and -2 are required for RNA-directed DNA methylation. Proc Natl Acad Sci U S A. 2014 Dec 09; 111(49):17666-71. PMID: 25425661.
    Citations: 7     Fields:    Translation:AnimalsCells
  11. Malik AN, Vierbuchen T, Hemberg M, Rubin AA, Ling E, Couch CH, Stroud H, Spiegel I, Farh KK, Harmin DA, Greenberg ME. Genome-wide identification and characterization of functional neuronal activity-dependent enhancers. Nat Neurosci. 2014 Oct; 17(10):1330-9. PMID: 25195102.
    Citations: 69     Fields:    Translation:HumansAnimalsCells
  12. Yelagandula R, Stroud H, Holec S, Zhou K, Feng S, Zhong X, Muthurajan UM, Nie X, Kawashima T, Groth M, Luger K, Jacobsen SE, Berger F. The histone variant H2A.W defines heterochromatin and promotes chromatin condensation in Arabidopsis. Cell. 2014 Jul 03; 158(1):98-109. PMID: 24995981.
    Citations: 54     Fields:    Translation:AnimalsCells
  13. Moissiard G, Bischof S, Husmann D, Pastor WA, Hale CJ, Yen L, Stroud H, Papikian A, Vashisht AA, Wohlschlegel JA, Jacobsen SE. Transcriptional gene silencing by Arabidopsis microrchidia homologues involves the formation of heteromers. Proc Natl Acad Sci U S A. 2014 May 20; 111(20):7474-9. PMID: 24799676.
    Citations: 18     Fields:    Translation:AnimalsCells
  14. Stroud H, Do T, Du J, Zhong X, Feng S, Johnson L, Patel DJ, Jacobsen SE. Non-CG methylation patterns shape the epigenetic landscape in Arabidopsis. Nat Struct Mol Biol. 2014 Jan; 21(1):64-72. PMID: 24336224.
    Citations: 204     Fields:    Translation:AnimalsCells
  15. Li-Byarlay H, Li Y, Stroud H, Feng S, Newman TC, Kaneda M, Hou KK, Worley KC, Elsik CG, Wickline SA, Jacobsen SE, Ma J, Robinson GE. RNA interference knockdown of DNA methyl-transferase 3 affects gene alternative splicing in the honey bee. Proc Natl Acad Sci U S A. 2013 Jul 30; 110(31):12750-5. PMID: 23852726.
    Citations: 70     Fields:    Translation:AnimalsCells
  16. Stroud H, Ding B, Simon SA, Feng S, Bellizzi M, Pellegrini M, Wang GL, Meyers BC, Jacobsen SE. Plants regenerated from tissue culture contain stable epigenome changes in rice. Elife. 2013 Mar 19; 2:e00354. PMID: 23539454.
    Citations: 59     Fields:    Translation:AnimalsCells
  17. Xu Y, Wang Y, Stroud H, Gu X, Sun B, Gan ES, Ng KH, Jacobsen SE, He Y, Ito T. A matrix protein silences transposons and repeats through interaction with retinoblastoma-associated proteins. Curr Biol. 2013 Feb 18; 23(4):345-50. PMID: 23394836.
    Citations: 17     Fields:    Translation:AnimalsCells
  18. Stroud H, Greenberg MV, Feng S, Bernatavichute YV, Jacobsen SE. Comprehensive analysis of silencing mutants reveals complex regulation of the Arabidopsis methylome. Cell. 2013 Jan 17; 152(1-2):352-64. PMID: 23313553.
    Citations: 272     Fields:    Translation:AnimalsCells
  19. Deleris A, Stroud H, Bernatavichute Y, Johnson E, Klein G, Schubert D, Jacobsen SE. Loss of the DNA methyltransferase MET1 Induces H3K9 hypermethylation at PcG target genes and redistribution of H3K27 trimethylation to transposons in Arabidopsis thaliana. PLoS Genet. 2012; 8(11):e1003062. PMID: 23209430.
    Citations: 53     Fields:    Translation:AnimalsCells
  20. Caro E, Stroud H, Greenberg MV, Bernatavichute YV, Feng S, Groth M, Vashisht AA, Wohlschlegel J, Jacobsen SE. The SET-domain protein SUVR5 mediates H3K9me2 deposition and silencing at stimulus response genes in a DNA methylation-independent manner. PLoS Genet. 2012; 8(10):e1002995. PMID: 23071452.
    Citations: 11     Fields:    Translation:AnimalsCells
  21. Du J, Zhong X, Bernatavichute YV, Stroud H, Feng S, Caro E, Vashisht AA, Terragni J, Chin HG, Tu A, Hetzel J, Wohlschlegel JA, Pradhan S, Patel DJ, Jacobsen SE. Dual binding of chromomethylase domains to H3K9me2-containing nucleosomes directs DNA methylation in plants. Cell. 2012 Sep 28; 151(1):167-80. PMID: 23021223.
    Citations: 142     Fields:    Translation:AnimalsCells
  22. Stroud H, Hale CJ, Feng S, Caro E, Jacob Y, Michaels SD, Jacobsen SE. DNA methyltransferases are required to induce heterochromatic re-replication in Arabidopsis. PLoS Genet. 2012 Jul; 8(7):e1002808. PMID: 22792077.
    Citations: 28     Fields:    Translation:AnimalsCells
  23. Moissiard G, Cokus SJ, Cary J, Feng S, Billi AC, Stroud H, Husmann D, Zhan Y, Lajoie BR, McCord RP, Hale CJ, Feng W, Michaels SD, Frand AR, Pellegrini M, Dekker J, Kim JK, Jacobsen SE. MORC family ATPases required for heterochromatin condensation and gene silencing. Science. 2012 Jun 15; 336(6087):1448-51. PMID: 22555433.
    Citations: 99     Fields:    Translation:AnimalsCells
  24. Pontvianne F, Blevins T, Chandrasekhara C, Feng W, Stroud H, Jacobsen SE, Michaels SD, Pikaard CS. Histone methyltransferases regulating rRNA gene dose and dosage control in Arabidopsis. Genes Dev. 2012 May 01; 26(9):945-57. PMID: 22549957.
    Citations: 28     Fields:    Translation:AnimalsCells
  25. Stroud H, Otero S, Desvoyes B, Ramírez-Parra E, Jacobsen SE, Gutierrez C. Genome-wide analysis of histone H3.1 and H3.3 variants in Arabidopsis thaliana. Proc Natl Acad Sci U S A. 2012 Apr 03; 109(14):5370-5. PMID: 22431625.
    Citations: 61     Fields:    Translation:AnimalsCells
  26. Stroud H, Feng S, Morey Kinney S, Pradhan S, Jacobsen SE. 5-Hydroxymethylcytosine is associated with enhancers and gene bodies in human embryonic stem cells. Genome Biol. 2011 Jun 20; 12(6):R54. PMID: 21689397.
    Citations: 189     Fields:    Translation:HumansCells
  27. Kinney SM, Chin HG, Vaisvila R, Bitinaite J, Zheng Y, Estève PO, Feng S, Stroud H, Jacobsen SE, Pradhan S. Tissue-specific distribution and dynamic changes of 5-hydroxymethylcytosine in mammalian genomes. J Biol Chem. 2011 Jul 15; 286(28):24685-93. PMID: 21610077.
    Citations: 56     Fields:    Translation:HumansAnimalsCells
  28. Costas C, de la Paz Sanchez M, Stroud H, Yu Y, Oliveros JC, Feng S, Benguria A, López-Vidriero I, Zhang X, Solano R, Jacobsen SE, Gutierrez C. Genome-wide mapping of Arabidopsis thaliana origins of DNA replication and their associated epigenetic marks. Nat Struct Mol Biol. 2011 Mar; 18(3):395-400. PMID: 21297636.
    Citations: 45     Fields:    Translation:AnimalsCells
  29. Jacob Y, Stroud H, Leblanc C, Feng S, Zhuo L, Caro E, Hassel C, Gutierrez C, Michaels SD, Jacobsen SE. Regulation of heterochromatic DNA replication by histone H3 lysine 27 methyltransferases. Nature. 2010 Aug 19; 466(7309):987-91. PMID: 20631708.
    Citations: 63     Fields:    Translation:AnimalsCells
  30. Chodavarapu RK, Feng S, Bernatavichute YV, Chen PY, Stroud H, Yu Y, Hetzel JA, Kuo F, Kim J, Cokus SJ, Casero D, Bernal M, Huijser P, Clark AT, Krämer U, Merchant SS, Zhang X, Jacobsen SE, Pellegrini M. Relationship between nucleosome positioning and DNA methylation. Nature. 2010 Jul 15; 466(7304):388-92. PMID: 20512117.
    Citations: 282     Fields:    Translation:HumansAnimalsCells
  31. Jacob Y, Feng S, LeBlanc CA, Bernatavichute YV, Stroud H, Cokus S, Johnson LM, Pellegrini M, Jacobsen SE, Michaels SD. ATXR5 and ATXR6 are H3K27 monomethyltransferases required for chromatin structure and gene silencing. Nat Struct Mol Biol. 2009 Jul; 16(7):763-8. PMID: 19503079.
    Citations: 84     Fields:    Translation:AnimalsCells
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Funded by the NIH National Center for Advancing Translational Sciences through its Clinical and Translational Science Awards Program, grant number UL1TR002541.