Publications:
MAKER: An Easy-to-use Annotation Pipeline Designed for
Emerging Model Organism Genomes.
Cantarel B,
Korf I,
Robb SMC,
Parra G,
Ross E,
Moore B,
Holt C,
Sanchez Alvarado A,
Yandell MD.
Genome Research 2008 18(1) 188-96.
Improved repeat identification and masking in
Dipterans.
Smith CD,
Edgar RC,
Yandell MD,
Smith DR,
Celniker SE,
Myers EW,
Karpen GH.
Gene 2007 389(1):1-9.
Large-Scale Trends in the Evolution of Gene Structures
within 11 Animal Genomes.
Yandell MD,
Mungall CJ,
Prochnik S,
Smith C,
Kaminker J,
Hartzell G,
Lewis S,
Rubin GM.
PLoS Compututational Biology 2006 2(3).
A computational and experimental approach to
validating annotations and gene predictions in the
Drosophila melanogaster genome.
Yandell M,
Bailey AM,
Misra S,
Shu S,
Wiel C,
Evans-Holm M,
Celniker SE,
Rubin GM.
PNAS 2005 102(5):1566-1571.
The Sequence Ontology: a tool for the unification of
genome annotations.
Eilbeck K,
Lewis SE,
Mungall CJ,
Yandell M,
Stein L,
Durbin R,
Ashburner M.
Genome Biology 2005 6:R44.
Identification of key concepts in biomedical
literature using a modified Markov heuristic.
Majoros WH,
Subramanian GM,
Yandell MD.
Bioinformatics 2003 19(3):402-7.
Comparative genome and proteome analysis of Anopheles
gambiae and Drosophila melanogaster.
Zdobnov EM,
et al.
Science 2000 298(5591):149-59.
The genome sequence of the malaria mosquito Anopheles
gambiae.
Holt RA,
Subramanian GM,
Halpern A,
Sutton GG,
Charlab R,
Nusskern DR,
Wincker P,
Clark AG,
Ribeiro JMC,
Wides R,
Salzberg SL,
Loftus B,
Yandell MD,
et al.
Science 2002 298(5591):129-49.
Genomics and natural language processing.
Yandell MD,
Majoros WH.
Nature Review Genetics 2002 (8):601-10.
A comparison of whole-genome shotgun-derived mouse
chromosome 16 and the human genome.
Mural,
et al.
Science 2002 296(5573):1661-71.
The Celera Discovery System.
Kerlavage A,
Bonazzi V,
di Tommaso M,
Lawrence C,
Li P,
Mayberry F,
Mural R,
Nodell M,
Yandell M,
Zhang J,
Thomas P.
Nucleic Acids Research 2002 30(1):129-36.
The sequence of the human genome.
Venter JC,
Adams MD,
Myers EW,
Li PW,
Mural RJ,
Sutton GG,
Smith HO,
Yandell M,
et al.
Science 2001 291(5507):1304-51.
Identification and characterization of a p53 homologue
in Drosophila melanogaster.
Jin S,
Martinek S,
Joo WS,
Wortman JR,
Mirkovic N,
Sali A,
Yandell MD,
Pavletich NP,
Young MW,
Levine AJ.
PNAS 2000 97(13):7301-6.
The genome sequence of Drosophila melanogaster.
Adams MD,
Celniker SE,
Holt RA,
Evans CA,
Gocayne JD,
Amanatides PG,
Scherer SE,
Li PW,
Hoskins RA,
Galle RF,
George RA,
Lewis SE,
Richards S,
Ashburner M,
Henderson SN,
Sutton GG,
Wortman JR,
Yandell MD,
et al.
Science 2000 287(5461):2185-95.
Comparative genomics of the eukaryotes.
Rubin GM,
Yandell MD,
et al.
Science 2000 287(5461):2204-15.
A general approach to single-nucleotide polymorphism
discovery.
Marth GT,
Korf I,
Yandell MD,
Yeh RT,
Gu Z,
Zakeri H,
Stitziel NO,
Hillier L,
Kwok PY,
Gish WR.
Nature Genetics 1999 (4):452-6.