High contiguity de novo genome assembly and DNA modification analyses for the fungus fly, Sciara coprophila, using single-molecule sequencing.

Autor: Urban JM; Department of Molecular Biology, Cell Biology and Biochemistry, Brown University Division of Biology and Medicine, Sidney Frank Hall for Life Sciences, 185 Meeting Street, Providence, RI, 02912, USA. jurban@carnegiescience.edu.; Department of Embryology, Carnegie Institution for Science, Howard Hughes Medical Institute Research Laboratories, 3520 San Martin Drive, Baltimore, MD, 21218, USA. jurban@carnegiescience.edu., Foulk MS; Department of Molecular Biology, Cell Biology and Biochemistry, Brown University Division of Biology and Medicine, Sidney Frank Hall for Life Sciences, 185 Meeting Street, Providence, RI, 02912, USA.; Present Address: Department of Biology, Mercyhurst University, Erie, PA, 16546, USA., Bliss JE; Department of Molecular Biology, Cell Biology and Biochemistry, Brown University Division of Biology and Medicine, Sidney Frank Hall for Life Sciences, 185 Meeting Street, Providence, RI, 02912, USA., Coleman CM; KSU Bioinformatics Center, Kansas State University Division of Biology, Ackert Hall, Manhattan, Kansas, 66502, USA., Lu N; KSU Bioinformatics Center, Kansas State University Division of Biology, Ackert Hall, Manhattan, Kansas, 66502, USA., Mazloom R; KSU Bioinformatics Center, Kansas State University Division of Biology, Ackert Hall, Manhattan, Kansas, 66502, USA., Brown SJ; KSU Bioinformatics Center, Kansas State University Division of Biology, Ackert Hall, Manhattan, Kansas, 66502, USA., Spradling AC; Department of Embryology, Carnegie Institution for Science, Howard Hughes Medical Institute Research Laboratories, 3520 San Martin Drive, Baltimore, MD, 21218, USA., Gerbi SA; Department of Molecular Biology, Cell Biology and Biochemistry, Brown University Division of Biology and Medicine, Sidney Frank Hall for Life Sciences, 185 Meeting Street, Providence, RI, 02912, USA. Susan_Gerbi@Brown.edu.

Publikováno v: BMC genomics [BMC Genomics] 2021 Sep 06; Vol. 22 (1), pp. 643. Date of Electronic Publication: 2021 Sep 06.

Characterizing and controlling intrinsic biases of lambda exonuclease in nascent strand sequencing reveals phasing between nucleosomes and G-quadruplex motifs around a subset of human replication origins.

Autor: Foulk MS; Brown University Division of Biology and Medicine, Department of Molecular Biology, Cell Biology and Biochemistry, Providence, Rhode Island 02912, USA., Urban JM; Brown University Division of Biology and Medicine, Department of Molecular Biology, Cell Biology and Biochemistry, Providence, Rhode Island 02912, USA., Casella C; Brown University Division of Biology and Medicine, Department of Molecular Biology, Cell Biology and Biochemistry, Providence, Rhode Island 02912, USA., Gerbi SA; Brown University Division of Biology and Medicine, Department of Molecular Biology, Cell Biology and Biochemistry, Providence, Rhode Island 02912, USA.

Publikováno v: Genome research [Genome Res] 2015 May; Vol. 25 (5), pp. 725-35. Date of Electronic Publication: 2015 Feb 18.

The ecdysone receptor (ScEcR-A) binds DNA puffs at the start of DNA amplification in Sciara coprophila.

Autor: Liew GM; Department of Molecular Biology, Cell Biology and Biochemistry, Brown University, Providence, RI 02912, USA., Foulk MS, Gerbi SA

Publikováno v: Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology [Chromosome Res] 2013 Jul; Vol. 21 (4), pp. 345-60. Date of Electronic Publication: 2013 Jun 05.

Ecdysone induces transcription and amplification in Sciara coprophila DNA puff II/9A.

Autor: Foulk MS; Brown University, 69 Brown St.-J.W. Wilson Laboratory, Providence, RI 02912, USA., Liang C, Wu N, Blitzblau HG, Smith H, Alam D, Batra M, Gerbi SA

Publikováno v: Developmental biology [Dev Biol] 2006 Nov 01; Vol. 299 (1), pp. 151-63. Date of Electronic Publication: 2006 Jul 21.