ArticleProceedings of the National Academy of Sciences of the United States of America2006
Transposon insertion site profiling chip (TIP-chip).
Article in Proceedings of the National Academy of Sciences of the United States of America, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
27 citing papers in PubMed, 49 citations in OpenAlex.
- Mapping of long interspersed element-1 (L1) insertions by TIPseq provides information about sub chromosomal genetic variation in human embryos.Journal of assisted reproduction and genetics · 2024Article
- Transposable element polymorphisms improve prediction of complex agronomic traits in rice.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- Transposon insertion profiling by sequencing (TIPseq) for mapping LINE-1 insertions in the human genome.Mobile DNA · 2019Article
- SUMO E3 ligase Mms21 prevents spontaneous DNA damage induced genome rearrangements.PLoS genetics · 2018Article
- A high throughput screen for active human transposable elements.BMC genomics · 2018Article
- Contrasting evolutionary genome dynamics between domesticated and wild yeasts.Nature genetics · 2017Article
- Human transposon insertion profiling: Analysis, visualization and identification of somatic LINE-1 insertions in ovarian cancer.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- Population and clinical genetics of human transposable elements in the (post) genomic era.Mobile genetic elements · 2017Review
- Mobile element scanning (ME-Scan) identifies thousands of novel Alu insertions in diverse human populations.Genome research · 2013Article
- Genome-wide analysis of intraspecific transposon diversity in yeast.BMC genomics · 2013Article
- Mobile element biology: new possibilities with high-throughput sequencing.Trends in genetics : TIG · 2013Review
- Human transposon tectonics.Cell · 2012Review
- Retrotransposon Ty1 integration targets specifically positioned asymmetric nucleosomal DNA segments in tRNA hotspots.Genome research · 2012Article
- Rapid analysis of Saccharomyces cerevisiae genome rearrangements by multiplex ligation-dependent probe amplification.PLoS genetics · 2012Article
- Active transposition in genomes.Annual review of genetics · 2012Review
- Article
- LINE-1 elements in structural variation and disease.Annual review of genomics and human genetics · 2011Review
- Site-Specific Insertion Polymorphism of the MITE Alex-1 in the Genus Coffea Suggests Interspecific Gene Flow.International journal of evolutionary biology · 2011Article
- Article
- Roles of retrotransposons in benign and malignant hematologic disease.Cellscience · 2009Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
Abstract
Mobile elements are important components of our genomes, with diverse and significant effects on phenotype. Not only can transposons inactivate genes by direct disruption and shuffle the genome through recombination, they can also alter gene expression subtly or powerfully. Currently active transposons are highly polymorphic in host populations, including, among hundreds of others, L1 and Alu elements in humans and Ty1 elements in yeast. For this reason, we wished to develop a simple genome-wide method for identifying all transposons in any given sample. We have designed a transposon insertion site profiling chip (TIP-chip), a microarray intended for use as a high-throughput technique for mapping transposon insertions. By selectively amplifying transposon flanking regions and hybridizing them to the array, we can locate all transposons present in a sample. We have tested the TIP-chip extensively to map Ty1 retrotransposon insertions in yeast and have achieved excellent results in two laboratory strains as well as in evolved Ty1 high-copy strains. We are able to identify all of the theoretically detectable transposons in the FY2 lab strain, with essentially no false positives. In addition, we mapped many new transposon copies in the high-copy Ty1 strain and determined its Ty1 insertion pattern.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.