Chapter title |
Retrotransposon Capture Sequencing (RC-Seq): A Targeted, High-Throughput Approach to Resolve Somatic L1 Retrotransposition in Humans
|
---|---|
Chapter number | 4 |
Book title |
Transposons and Retrotransposons
|
Published in |
Methods in molecular biology, January 2016
|
DOI | 10.1007/978-1-4939-3372-3_4 |
Pubmed ID | |
Book ISBNs |
978-1-4939-3370-9, 978-1-4939-3372-3
|
Authors |
Sanchez-Luque, Francisco J, Richardson, Sandra R, Faulkner, Geoffrey J, Francisco J. Sanchez-Luque, Sandra R. Richardson, Geoffrey J. Faulkner Ph.D., Geoffrey J. Faulkner, Sanchez-Luque, Francisco J., Richardson, Sandra R., Faulkner, Geoffrey J. |
Editors |
Jose L. Garcia-Pérez |
Abstract |
Mobile genetic elements (MGEs) are of critical importance in genomics and developmental biology. Polymorphic and somatic MGE insertions have the potential to impact the phenotype of an individual, depending on their genomic locations and functional consequences. However, the identification of polymorphic and somatic insertions among the plethora of copies residing in the genome presents a formidable technical challenge. Whole genome sequencing has the potential to address this problem; however, its efficacy depends on the abundance of cells carrying the new insertion. Robust detection of somatic insertions present in only a subset of cells within a given sample can also be prohibitively expensive due to a requirement for high sequencing depth. Here, we describe retrotransposon capture sequencing (RC-seq), a sequence capture approach in which Illumina libraries are enriched for fragments containing the 5' and 3' termini of specific MGEs. RC-seq allows the detection of known polymorphic insertions present in an individual, as well as the identification of rare or private germline insertions not previously described. Furthermore, RC-seq can be used to detect and characterize somatic insertions, providing a valuable tool to elucidate the extent and characteristics of MGE activity in healthy tissues and in various disease states. |
X Demographics
As of 1 July 2024, you may notice a temporary increase in the numbers of X profiles with Unknown location. Click here to learn more.
Geographical breakdown
Country | Count | As % |
---|---|---|
Australia | 1 | 50% |
Unknown | 1 | 50% |
Demographic breakdown
Type | Count | As % |
---|---|---|
Members of the public | 2 | 100% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
Unknown | 43 | 100% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Researcher | 9 | 21% |
Student > Doctoral Student | 8 | 19% |
Student > Ph. D. Student | 7 | 16% |
Student > Master | 4 | 9% |
Other | 3 | 7% |
Other | 8 | 19% |
Unknown | 4 | 9% |
Readers by discipline | Count | As % |
---|---|---|
Biochemistry, Genetics and Molecular Biology | 21 | 49% |
Agricultural and Biological Sciences | 10 | 23% |
Neuroscience | 3 | 7% |
Medicine and Dentistry | 2 | 5% |
Sports and Recreations | 1 | 2% |
Other | 1 | 2% |
Unknown | 5 | 12% |