Literature DB >> 18428725

Using RepeatMasker to identify repetitive elements in genomic sequences.

Nansheng Chen1.   

Abstract

The RepeatMasker program is used for identifying repetitive elements in nucleotide sequences for further detailed analyses. Users can run RepeatMasker remotely via a Web site, or, for larger input sequences, the program and its dependent programs may be downloaded and run locally on Unix/Linux computers. The protocols in this chapter detail how to use RepeatMasker both remotely and locally to extract repetitive elements data and mask these repetitive elements in nucleotide sequences.

Mesh：

Year:  2004        PMID： 18428725     DOI： 10.1002/0471250953.bi0410s05

Source DB:  PubMed          Journal:  Curr Protoc Bioinformatics        ISSN： 1934-3396


  132 in total

1.  The First Draft Genome Assembly of Snow Sheep (Ovis nivicola).

Authors:  Maulik Upadhyay; Andreas Hauser; Elisabeth Kunz; Stefan Krebs; Helmut Blum; Arsen Dotsev; Innokentiy Okhlopkov; Vugar Bagirov; Gottfried Brem; Natalia Zinovieva; Ivica Medugorac
Journal:  Genome Biol Evol       Date:  2020-08-01       Impact factor: 3.416

2.  Structural and functional characterization of H2 haplotype MAPT promoter: unique neurospecific domains and a hypoxia-inducible element would enhance rationally targeted tauopathy research for Alzheimer's disease.

Authors:  Bryan Maloney; Debomoy K Lahiri
Journal:  Gene       Date:  2012-01-30       Impact factor: 3.688

3.  Positional cloning of a candidate gene for resistance to the sunflower downy mildew, Plasmopara halstedii race 300.

Authors:  Jérôme Franchel; Mohamed Fouad Bouzidi; Gisèle Bronner; Felicity Vear; Paul Nicolas; Said Mouzeyar
Journal:  Theor Appl Genet       Date:  2012-09-29       Impact factor: 5.699

4.  A nutrient-sensitive interaction between Sirt1 and HNF-1α regulates Crp expression.

Authors:  Andrew A Grimm; Cynthia S Brace; Ting Wang; Gary D Stormo; Shin-ichiro Imai
Journal:  Aging Cell       Date:  2011-02-01       Impact factor: 9.304

5.  Gene alterations at Drosophila inversion breakpoints provide prima facie evidence for natural selection as an explanation for rapid chromosomal evolution.

Authors:  Yolanda Guillén; Alfredo Ruiz
Journal:  BMC Genomics       Date:  2012-02-01       Impact factor: 3.969

6.  Genome of the Chinese tree shrew.

Authors:  Yu Fan; Zhi-Yong Huang; Chang-Chang Cao; Ce-Shi Chen; Yuan-Xin Chen; Ding-Ding Fan; Jing He; Hao-Long Hou; Li Hu; Xin-Tian Hu; Xuan-Ting Jiang; Ren Lai; Yong-Shan Lang; Bin Liang; Sheng-Guang Liao; Dan Mu; Yuan-Ye Ma; Yu-Yu Niu; Xiao-Qing Sun; Jin-Quan Xia; Jin Xiao; Zhi-Qiang Xiong; Lin Xu; Lan Yang; Yun Zhang; Wei Zhao; Xu-Dong Zhao; Yong-Tang Zheng; Ju-Min Zhou; Ya-Bing Zhu; Guo-Jie Zhang; Jun Wang; Yong-Gang Yao
Journal:  Nat Commun       Date:  2013       Impact factor: 14.919

7.  SeLOX--a locus of recombination site search tool for the detection and directed evolution of site-specific recombination systems.

Authors:  Vineeth Surendranath; Janet Chusainow; Joachim Hauber; Frank Buchholz; Bianca H Habermann
Journal:  Nucleic Acids Res       Date:  2010-06-06       Impact factor: 16.971

8.  Differences in transcription between free-living and CO2-activated third-stage larvae of Haemonchus contortus.

Authors:  Cinzia Cantacessi; Bronwyn E Campbell; Neil D Young; Aaron R Jex; Ross S Hall; Paul J A Presidente; Jodi L Zawadzki; Weiwei Zhong; Boanerges Aleman-Meza; Alex Loukas; Paul W Sternberg; Robin B Gasser
Journal:  BMC Genomics       Date:  2010-04-27       Impact factor: 3.969

9.  Targeted isolation, sequence assembly and characterization of two white spruce (Picea glauca) BAC clones for terpenoid synthase and cytochrome P450 genes involved in conifer defence reveal insights into a conifer genome.

Authors:  Björn Hamberger; Dawn Hall; Mack Yuen; Claire Oddy; Britta Hamberger; Christopher I Keeling; Carol Ritland; Kermit Ritland; Jörg Bohlmann
Journal:  BMC Plant Biol       Date:  2009-08-06       Impact factor: 4.215

10.  Systematic identification and evolutionary features of rhesus monkey small nucleolar RNAs.

Authors:  Yong Zhang; Jun Liu; Chunshi Jia; Tingting Li; Rimao Wu; Jie Wang; Ying Chen; Xiaoting Zou; Runsheng Chen; Xiu-Jie Wang; Dahai Zhu
Journal:  BMC Genomics       Date:  2010-01-25       Impact factor: 3.969
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