Repbase update: a database and an electronic journal of repetitive elements.
By Jerzy Jurka. Trends in Genetics, 2000
1,046 citations recorded by the source corpus.
Subfields: Genetics, Pathology and Forensic Medicine
View Paper: https://www.semanticscholar.org/paper/ff9186e43abd68e55fbcb9ba992944c7497bacab
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In Genetics
- Pauline Crystal Ng
- Shamil R. Sunyaev
- Stefan Kurtz
- Robert C. Edgar
- Peer Bork
- V. Ramensky
- Oleksiy Kohany
- David Ellinghaus
In Pathology and Forensic Medicine
- Eugene W. Myers
- Robert C. Edgar
- Shamil R. Sunyaev
- V. Ramensky
- Peer Bork
- Richa Agarwala
- E. Gertz
- Alejandro A. Schäffer
Citations in the corpus
- WindowMasker: window-based masker for sequenced genomes (2006, methodology): “The runs of RM were done using a recent version of RepBase for the genome being masked, and it was the same version being used in the NCBI genome pipeline (Kitts, 2003, http://www.ncbi.nlm.nih.gov/books) at the time of the experiments.”
- Repbase Update, a database of eukaryotic repetitive elements (2005, methodology): “Apart from its role in a routine screening and specific applications reviewed above (see also Jurka, 2000), RU serves as a major reference in systematics and evolutionary studies of TEs (Feschotte et al., 2002; Robertson, 2002; Mager and Medstrand, 2003).”
- LTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposons (2008, background): “- Sequence comparison of the reported hits to Repbase [2,4].”
- The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics (2003, background): “elegans library (version 8.2; Jurka 2000) or if its individual exons all had BLASTN hits of E-value,10 10 in the RECON repeat library for that species.”
- Mouse ES cells express endogenous shRNAs, siRNAs, and other Microprocessor-independent, Dicer-dependent small RNAs. (2008, background): “Deletion of Dicer in mouse ES cells (mESCs) results in severe proliferation and differentiation defects (Kanellopoulou et al. 2005; Murchison et al. 2005).”
- Retrotransposons regulate host genes in mouse oocytes and preimplantation embryos. (2004, neutral): “(A) Aligned consensus MaLR LTRs from RepBase (Jurka, 2000) compared with a consensus mammalian splice site (Padgett et al.”