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Hammonds, Ann

TitleBiochemist Research Sci/Engr
InstitutionLawrence Berkeley National Lab
DepartmentBiological Systems & Eng
Address1 Cyclotron Road
Berkeley CA 94720
Phone510/486-5280
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    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.
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    1. Kudron MM, Victorsen A, Gevirtzman L, Hillier LW, Fisher WW, Vafeados D, Kirkey M, Hammonds A, Gersch J, Ammouri H, Wall ML, Moran J, Steffen D, Szynkarek M, Seabrook-Sturgis S, Jameel N, Kadaba M, Patton J, Terrell R, Corson M, Durham TJ, Park S, Samanta S, Han M, Xu J, Yan KK, Celniker SE, White KP, Ma L, Gerstein M, Reinke V, Waterston RH. The ModERN Resource: Genome-Wide Binding Profiles for Hundreds of Drosophila and Caenorhabditis elegans Transcription Factors. Genetics. 2018 Mar; 208(3):937-949. PMID: 29284660.
      View in: PubMed
    2. Wan KH, Yu C, Park S, Hammonds A, Booth BW, Celniker SE. Complete Genome Sequence of Acetobacter pomorum Oregon-R-modENCODE Strain BDGP5, an Acetic Acid Bacterium Found in the Drosophila melanogaster Gut. Genome Announc. 2017 Nov 30; 5(48). PMID: 29192079.
      View in: PubMed
    3. Wan KH, Yu C, Park S, Hammonds A, Booth BW, Celniker SE. Complete Genome Sequence of Acetobacter tropicalis Oregon-R-modENCODE Strain BDGP1, an Acetic Acid Bacterium Found in the Drosophila melanogaster Gut. Genome Announc. 2017 Nov 16; 5(46). PMID: 29146844.
      View in: PubMed
    4. Wan KH, Yu C, Park S, Hammonds A, Booth BW, Celniker SE. Complete Genome Sequence of Lactobacillus plantarum Oregon-R-modENCODE Strain BDGP2 Isolated from Drosophila melanogaster Gut. Genome Announc. 2017 Oct 12; 5(41). PMID: 29025953.
      View in: PubMed
    5. Wan KH, Yu C, Park S, Hammonds A, Booth BW, Celniker SE. Complete Genome Sequence of Bacillus kochii Oregon-R-modENCODE Strain BDGP4, Isolated from Drosophila melanogaster Gut. Genome Announc. 2017 Oct 05; 5(40). PMID: 28983001.
      View in: PubMed
    6. Wan KH, Yu C, Park S, Hammonds A, Booth BW, Celniker SE. Complete Genome Sequence of Enterococcus durans Oregon-R-modENCODE Strain BDGP3, a Lactic Acid Bacterium Found in the Drosophila melanogaster Gut. Genome Announc. 2017 Oct 05; 5(40). PMID: 28982997.
      View in: PubMed
    7. Wu S, Joseph A, Hammonds A, Celniker SE, Yu B, Frise E. Stability-driven nonnegative matrix factorization to interpret spatial gene expression and build local gene networks. Proc Natl Acad Sci U S A. 2016 Apr 19; 113(16):4290-5. PMID: 27071099; PMCID: PMC4843452 [Available on 10/19/16].
    8. Gerstein MB, Rozowsky J, Yan KK, Wang D, Cheng C, Brown JB, Davis CA, Hillier L, Sisu C, Li JJ, Pei B, Harmanci AO, Duff MO, Djebali S, Alexander RP, Alver BH, Auerbach R, Bell K, Bickel PJ, Boeck ME, Boley NP, Booth BW, Cherbas L, Cherbas P, Di C, Dobin A, Drenkow J, Ewing B, Fang G, Fastuca M, Feingold EA, Frankish A, Gao G, Good PJ, Guigó R, Hammonds A, Harrow J, Hoskins RA, Howald C, Hu L, Huang H, Hubbard TJ, Huynh C, Jha S, Kasper D, Kato M, Kaufman TC, Kitchen RR, Ladewig E, Lagarde J, Lai E, Leng J, Lu Z, MacCoss M, May G, McWhirter R, Merrihew G, Miller DM, Mortazavi A, Murad R, Oliver B, Olson S, Park PJ, Pazin MJ, Perrimon N, Pervouchine D, Reinke V, Reymond A, Robinson G, Samsonova A, Saunders GI, Schlesinger F, Sethi A, Slack FJ, Spencer WC, Stoiber MH, Strasbourger P, Tanzer A, Thompson OA, Wan KH, Wang G, Wang H, Watkins KL, Wen J, Wen K, Xue C, Yang L, Yip K, Zaleski C, Zhang Y, Zheng H, Brenner SE, Graveley BR, Celniker SE, Gingeras TR, Waterston R. Comparative analysis of the transcriptome across distant species. Nature. 2014 Aug 28; 512(7515):445-8. PMID: 25164755.
      View in: PubMed
    9. Brown JB, Boley N, Eisman R, May GE, Stoiber MH, Duff MO, Booth BW, Wen J, Park S, Suzuki AM, Wan KH, Yu C, Zhang D, Carlson JW, Cherbas L, Eads BD, Miller D, Mockaitis K, Roberts J, Davis CA, Frise E, Hammonds A, Olson S, Shenker S, Sturgill D, Samsonova AA, Weiszmann R, Robinson G, Hernandez J, Andrews J, Bickel PJ, Carninci P, Cherbas P, Gingeras TR, Hoskins RA, Kaufman TC, Lai EC, Oliver B, Perrimon N, Graveley BR, Celniker SE. Diversity and dynamics of the Drosophila transcriptome. Nature. 2014 Aug 28; 512(7515):393-9. PMID: 24670639.
      View in: PubMed
    10. Taylor K, Kleinhesselink K, George MD, Morgan R, Smallwood T, Hammonds A, Fuller PM, Saelao P, Alley J, Gibbs AG, Hoshizaki DK, von Kalm L, Fuller CA, Beckingham KM, Kimbrell DA. Toll mediated infection response is altered by gravity and spaceflight in Drosophila. PLoS One. 2014; 9(1):e86485. PMID: 24475130; PMCID: PMC3901686.
    11. Hammonds A, Bristow CA, Fisher WW, Weiszmann R, Wu S, Hartenstein V, Kellis M, Yu B, Frise E, Celniker SE. Spatial expression of transcription factors in Drosophila embryonic organ development. Genome Biol. 2013 Dec 20; 14(12):R140. PMID: 24359758; PMCID: PMC4053779.
    12. Fisher WW, Li JJ, Hammonds A, Brown JB, Pfeiffer BD, Weiszmann R, MacArthur S, Thomas S, Stamatoyannopoulos JA, Eisen MB, Bickel PJ, Biggin MD, Celniker SE. DNA regions bound at low occupancy by transcription factors do not drive patterned reporter gene expression in Drosophila. Proc Natl Acad Sci U S A. 2012 Dec 26; 109(52):21330-5. PMID: 23236164; PMCID: PMC3535648.
    13. Thomas S, Li XY, Sabo PJ, Sandstrom R, Thurman RE, Canfield TK, Giste E, Fisher W, Hammonds A, Celniker SE, Biggin MD, Stamatoyannopoulos JA. Dynamic reprogramming of chromatin accessibility during Drosophila embryo development. Genome Biol. 2011; 12(5):R43. PMID: 21569360; PMCID: PMC3219966.
    14. Yu C, Wan KH, Hammonds A, Stapleton M, Carlson JW, Celniker SE. Development of expression-ready constructs for generation of proteomic libraries. Methods Mol Biol. 2011; 723:257-72. PMID: 21370071.
      View in: PubMed
    15. Graveley BR, Brooks AN, Carlson JW, Duff MO, Landolin JM, Yang L, Artieri CG, van Baren MJ, Boley N, Booth BW, Brown JB, Cherbas L, Davis CA, Dobin A, Li R, Lin W, Malone JH, Mattiuzzo NR, Miller D, Sturgill D, Tuch BB, Zaleski C, Zhang D, Blanchette M, Dudoit S, Eads B, Green RE, Hammonds A, Jiang L, Kapranov P, Langton L, Perrimon N, Sandler JE, Wan KH, Willingham A, Zhang Y, Zou Y, Andrews J, Bickel PJ, Brenner SE, Brent MR, Cherbas P, Gingeras TR, Hoskins RA, Kaufman TC, Oliver B, Celniker SE. The developmental transcriptome of Drosophila melanogaster. Nature. 2011 Mar 24; 471(7339):473-9. PMID: 21179090.
      View in: PubMed
    16. Kazemian M, Blatti C, Richards A, McCutchan M, Wakabayashi-Ito N, Hammonds A, Celniker SE, Kumar S, Wolfe SA, Brodsky MH, Sinha S. Quantitative analysis of the Drosophila segmentation regulatory network using pattern generating potentials. PLoS Biol. 2010 Aug 17; 8(8). PMID: 20808951; PMCID: PMC2923081.
    17. Frise E, Hammonds A, Celniker SE. Systematic image-driven analysis of the spatial Drosophila embryonic expression landscape. Mol Syst Biol. 2010; 6:345. PMID: 20087342; PMCID: PMC2824522.
    18. Weiszmann R, Hammonds A, Celniker SE. Determination of gene expression patterns using high-throughput RNA in situ hybridization to whole-mount Drosophila embryos. Nat Protoc. 2009; 4(5):605-18. PMID: 19360017; PMCID: PMC2780369.
    19. Pfeiffer BD, Jenett A, Hammonds A, Ngo TT, Misra S, Murphy C, Scully A, Carlson JW, Wan KH, Laverty TR, Mungall C, Svirskas R, Kadonaga JT, Doe CQ, Eisen MB, Celniker SE, Rubin GM. Tools for neuroanatomy and neurogenetics in Drosophila. Proc Natl Acad Sci U S A. 2008 Jul 15; 105(28):9715-20. PMID: 18621688; PMCID: PMC2447866.
    20. Hammonds A, Fristrom JW. Mutational analysis of Stubble-stubbloid gene structure and function in Drosophila leg and bristle morphogenesis. Genetics. 2006 Mar; 172(3):1577-93. PMID: 16322506; PMCID: PMC1456279.

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