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Sim4cc: a cross-species spliced alignment program.
Published in:
Nucleic Acids Research, 2009, v. 37, n. 11, p. e80, doi. 10.1093/nar/gkp319
By:
- Zhou, Leming;
- Pertea, Mihaela;
- Delcher, Arthur L.;
- Florea, Liliana
Publication type:
Article
The genome of woodland strawberry (Fragaria vesca).
Published in:
Nature Genetics, 2011, v. 43, n. 2, p. 109, doi. 10.1038/ng.740
By:
- Shulaev, Vladimir;
- Sargent, Daniel J.;
- Crowhurst, Ross N.;
- Mockler, Todd C.;
- Folkerts, Otto;
- Delcher, Arthur L.;
- Jaiswal, Pankaj;
- Mockaitis, Keithanne;
- Liston, Aaron;
- Mane, Shrinivasrao P.;
- Burns, Paul;
- Davis, Thomas M.;
- Slovin, Janet P.;
- Bassil, Nahla;
- Hellens, Roger P.;
- Evans, Clive;
- Harkins, Tim;
- Kodira, Chinnappa;
- Desany, Brian;
- Crasta, Oswald R.
Publication type:
Article
Hawkeye and AMOS: visualizing and assessing the quality of genome assemblies.
Published in:
Briefings in Bioinformatics, 2013, v. 14, n. 2, p. 213, doi. 10.1093/bib/bbr074
By:
- Schatz, Michael C.;
- Phillippy, Adam M.;
- Sommer, Daniel D.;
- Delcher, Arthur L.;
- Puiu, Daniela;
- Narzisi, Giuseppe;
- Salzberg, Steven L.;
- Pop, Mihai
Publication type:
Article
Comparative genome assembly.
Published in:
Briefings in Bioinformatics, 2004, v. 5, n. 3, p. 237, doi. 10.1093/bib/5.3.237
By:
- Pop, Mihai;
- Phillippy, Adam;
- Delcher, Arthur L.;
- Salzberg, Steven L.
Publication type:
Article
Core Gene Set As the Basis of Multilocus Sequence Analysis of the Subclass Actinobacteridae.
Published in:
PLoS ONE, 2011, v. 6, n. 3, p. 1, doi. 10.1371/journal.pone.0014792
By:
- Adékambi, Toïdi;
- Butler, Ray W.;
- Hanrahan, Finnian;
- Delcher, Arthur L.;
- Drancourt, Michel;
- Shinnick, Thomas M.
Publication type:
Article
Genome sequence and rapid evolution of the rice pathogen Xanthomonas oryzae pv. oryzae PXO99<sup>A</sup>.
Published in:
BMC Genomics, 2008, v. 9, p. 1, doi. 10.1186/1471-2164-9-204
By:
- Salzberg, Steven L.;
- Sommer, Daniel D.;
- Schatz, Michael C.;
- Phillippy, Adam M.;
- Rabinowicz, Pablo D.;
- Tsuge, Seiji;
- Furutani, Ayako;
- Ochiai, Hirokazu;
- Delcher, Arthur L.;
- Kelley, David;
- Madupu, Ramana;
- Puiu, Daniela;
- Radune, Diana;
- Shumway, Martin;
- Trapnell, Cole;
- Aparna, Gudlur;
- Jha, Gopaljee;
- Pandey, Alok;
- Patil, Prabhu B.;
- Ishihara, Hiromichi
Publication type:
Article
High-throughput sequence alignment using Graphics Processing Units.
Published in:
BMC Bioinformatics, 2007, v. 8, p. 474, doi. 10.1186/1471-2105-8-474
By:
- Schatz, Michael C.;
- Trapnell, Cole;
- Delcher, Arthur L.;
- Varshney, Amitabh
Publication type:
Article
Minimus: a fast, lightweight genome assembler.
Published in:
BMC Bioinformatics, 2007, v. 8, p. 64, doi. 10.1186/1471-2105-8-64
By:
- Sommer, Daniel D;
- Delcher, Arthur L;
- Salzberg, Steven L;
- Pop, Mihai
Publication type:
Article
Efficient decoding algorithms for generalized hidden Markov model gene finders.
Published in:
BMC Bioinformatics, 2005, v. 6, p. 16, doi. 10.1186/1471-2105-6-16
By:
- Majoros, William H.;
- Pertea, Mihaela;
- Delcher, Arthur L.;
- Salzberg, Steven L.
Publication type:
Article
Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies.
Published in:
Nucleic Acids Research, 2003, v. 31, n. 19, p. 5654, doi. 10.1093/nar/gkg770
By:
- Haas, Brian J.;
- Delcher, Arthur L.;
- Mount, Stephen M.;
- Wortman, Jennifer R.;
- Smith Jr, Roger K.;
- Hannick, Linda I.;
- Maiti, Rama;
- Ronning, Catherine M.;
- Rusch, Douglas B.;
- Town, Christopher D.;
- Salzberg, Steven L.;
- White, Owen
Publication type:
Article
PROBEmer: a web-based software tool for selecting optimal DNA oligos.
Published in:
Nucleic Acids Research, 2003, v. 31, n. 13, p. 3746, doi. 10.1093/nar/gkg569
By:
- Emrich, Scott J.;
- Lowe, Mary;
- Delcher, Arthur L.
Publication type:
Article
Fast algorithms for large-scale genome alignment and comparison.
Published in:
Nucleic Acids Research, 2002, v. 30, n. 11, p. 2478, doi. 10.1093/nar/30.11.2478
By:
- Delcher, Arthur L.;
- Phillippy, Adam;
- Carlton, Jane;
- Salzberg, Steven L.
Publication type:
Article
Improved microbial gene identification with Glimmer.
Published in:
Nucleic Acids Research, 1999, v. 27, n. 23, p. 4636, doi. 10.1093/nar/27.23.4636
By:
- Delcher, Arthur L.;
- Harmon, Douglas;
- Kasif, Simon;
- White, Owen;
- Salzberg, Steven L.
Publication type:
Article
Alignment of whole genomes.
Published in:
Nucleic Acids Research, 1999, v. 27, n. 11, p. 2369, doi. 10.1093/nar/27.11.2369
By:
- Delcher, Arthur L.;
- Kasif, Simon;
- Fleischmann, Robert D.;
- Peterson, Jeremy;
- White, Owen;
- Salzberg, Steven L.
Publication type:
Article
Microbial gene identification using interpolated Markov models.
Published in:
Nucleic Acids Research, 1998, v. 26, n. 2, p. 544, doi. 10.1093/nar/26.2.544
By:
- Salzberg, Steven L.;
- Delcher, Arthur L.;
- Kasif, Simon;
- White, Owen
Publication type:
Article
A Unified Model Explaining the Offsets of Overlapping and Near-Overlapping Prokaryotic Genes.
Published in:
Molecular Biology & Evolution, 2007, v. 24, n. 9, p. 2091, doi. 10.1093/molbev/msm145
By:
- Kingsford, Carl;
- Delcher, Arthur L.;
- Salzberg, Steven L.
Publication type:
Article
Macronuclear Genome Sequence of the Ciliate Tetrahymena thermophila, a Model Eukaryote.
Published in:
PLoS Biology, 2006, v. 4, n. 9, p. 1620, doi. 10.1371/journal.pbio.0040286
By:
- Eisen, Jonathan A.;
- Coyne, Robert S.;
- Wu, Martin;
- Wu, Dongying;
- Thiagarajan, Mathangi;
- Wortman, Jennifer R.;
- Badger, Jonathan H.;
- Ren, Qinghu;
- Amedeo, Paolo;
- Jones, Kristie M.;
- Tallon, Luke J.;
- Delcher, Arthur L.;
- Salzberg, Steven L.;
- Silva, Joana C.;
- Haas, Brian J.;
- Majoros, William H.;
- Farzad, Maryam;
- Carlton, Jane M.;
- Smith, Jr., Roger K.;
- Garg, Jyoti
Publication type:
Article
Identifying bacterial genes and endosymbiont DNA with Glimmer.
Published in:
Bioinformatics, 2007, v. 23, n. 6, p. 673, doi. 10.1093/bioinformatics/btm009
By:
- Arthur L. Delcher;
- Kirsten A. Bratke;
- Edwin C. Powers;
- Steven L. Salzberg
Publication type:
Article
DAGchainer: a tool for mining segmental genome duplications and synteny.
Published in:
Bioinformatics, 2004, v. 20, n. 18, p. 3643, doi. 10.1093/bioinformatics/bth397
By:
- Haas, Brian J.;
- Delcher, Arthur L.;
- Wortman, Jennifer R.;
- Salzberg, Steven L.
Publication type:
Article
Aggressive assembly of pyrosequencing reads with mates.
Published in:
Bioinformatics, 2008, v. 24, n. 24, p. 2818, doi. 10.1093/bioinformatics/btn548
By:
- Jason R. Miller;
- Arthur L. Delcher;
- Sergey Koren;
- Eli Venter;
- Brian P. Walenz;
- Anushka Brownley;
- Justin Johnson;
- Kelvin Li;
- Clark Mobarry;
- Granger Sutton
Publication type:
Article
New var reconstruction algorithm exposes high var sequence diversity in a single geographic location in Mali.
Published in:
Genome Medicine, 2017, v. 9, p. 1, doi. 10.1186/s13073-017-0422-4
By:
- Dara, Antoine;
- Drábek, Elliott F.;
- Travassos, Mark A.;
- Moser, Kara A.;
- Delcher, Arthur L.;
- Qi Su;
- Hostelley, Timothy;
- Coulibaly, Drissa;
- Daou, Modibo;
- Dembele, Ahmadou;
- Diarra, Issa;
- Kone, Abdoulaye K.;
- Kouriba, Bourema;
- Laurens, Matthew B.;
- Niangaly, Amadou;
- Traore, Karim;
- Tolo, Youssouf;
- Fraser, Claire M.;
- Thera, Mahamadou A.;
- Djimde, Abdoulaye A.
Publication type:
Article
MUMmer4: A fast and versatile genome alignment system.
Published in:
PLoS Computational Biology, 2018, v. 14, n. 1, p. 1, doi. 10.1371/journal.pcbi.1005944
By:
- Marçais, Guillaume;
- Delcher, Arthur L.;
- Phillippy, Adam M.;
- Coston, Rachel;
- Salzberg, Steven L.;
- Zimin, Aleksey
Publication type:
Article

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