Cargando…

TEfinder: A Bioinformatics Pipeline for Detecting New Transposable Element Insertion Events in Next-Generation Sequencing Data

Transposable elements (TEs) are mobile elements capable of introducing genetic changes rapidly. Their importance has been documented in many biological processes, such as introducing genetic instability, altering patterns of gene expression, and accelerating genome evolution. Increasing appreciation...

Descripción completa

Detalles Bibliográficos
Autores principales:	Sohrab, Vista, López-Díaz, Cristina, Di Pietro, Antonio, Ma, Li-Jun, Ayhan, Dilay Hazal
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	MDPI 2021
Materias:	Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7914406/ https://www.ncbi.nlm.nih.gov/pubmed/33557410 http://dx.doi.org/10.3390/genes12020224

Ejemplares similares

Transposable element finder (TEF): finding active transposable elements from next generation sequencing data
por: Miyao, Akio, et al.
Publicado: (2022)

McClintock: An Integrated Pipeline for Detecting Transposable Element Insertions in Whole-Genome Shotgun Sequencing Data
por: Nelson, Michael G., et al.
Publicado: (2017)

The insertion and dysregulation of transposable elements in osteosarcoma and their association with patient event-free survival
por: Wang, Chao, et al.
Publicado: (2022)

Patterns of Transposable Element Expression and Insertion in Cancer
por: Clayton, Evan A., et al.
Publicado: (2016)

Transposable element insertions in 1000 Swedish individuals
por: Bilgrav Saether, Kristine, et al.
Publicado: (2023)

The DAWGPAWS pipeline for the annotation of genes and transposable elements in plant genomes
por: Estill, James C, et al.
Publicado: (2009)

Microsatellites for Next-Generation Ecologists: A Post-Sequencing Bioinformatics Pipeline
por: Fernandez-Silva, Iria, et al.
Publicado: (2013)

Recurrent insertion and duplication generate networks of transposable element sequences in the Drosophila melanogaster genome
por: Bergman, Casey M, et al.
Publicado: (2006)

An Age-of-Allele Test of Neutrality for Transposable Element Insertions
por: Blumenstiel, Justin P., et al.
Publicado: (2014)

Improved Assembly of Reference Genome Fusarium oxysporum f. sp. lycopersici Strain Fol4287
por: Ayhan, Dilay Hazal, et al.
Publicado: (2018)

Mobilizing diversity: transposable element insertions in genetic variation and disease
por: O'Donnell, Kathryn A, et al.
Publicado: (2010)

The Effect of Transposable Element Insertions on Gene Expression Evolution in Rodents
por: Pereira, Vini, et al.
Publicado: (2009)

A Transposable Element Insertion Confers Xenobiotic Resistance in Drosophila
por: Mateo, Lidia, et al.
Publicado: (2014)

TETyper: a bioinformatic pipeline for classifying variation and genetic contexts of transposable elements from short-read whole-genome sequencing data
por: Sheppard, Anna E., et al.
Publicado: (2018)

Benchmarking transposable element annotation methods for creation of a streamlined, comprehensive pipeline
por: Ou, Shujun, et al.
Publicado: (2019)

Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease
por: Dilliott, Allison A., et al.
Publicado: (2018)

A computational approach to identify transposable element insertions in cancer cells
por: Silva, Israel T, et al.
Publicado: (2011)

Contrasting Patterns of Transposable Element Insertions in Drosophila Heat-Shock Promoters
por: Haney, Robert A., et al.
Publicado: (2009)

Transposable Element Insertions in Long Intergenic Non-Coding RNA Genes
por: Kannan, Sivakumar, et al.
Publicado: (2015)

Transposable element insertions in fission yeast drive adaptation to environmental stress
por: Esnault, Caroline, et al.
Publicado: (2019)

A transposable element insertion is associated with an alternative life history strategy
por: Woronik, Alyssa, et al.
Publicado: (2019)

Comprehensive identification of transposable element insertions using multiple sequencing technologies
por: Chu, Chong, et al.
Publicado: (2021)

Recent Bioinformatic Progress to Identify Epigenetic Changes Associated to Transposable Elements
por: Lerat, Emmanuelle
Publicado: (2022)

Natural variation and evolutionary dynamics of transposable elements in Brassica oleracea based on next-generation sequencing data
por: Liu, Zhen, et al.
Publicado: (2020)

Reliability of genomic variants across different next-generation sequencing platforms and bioinformatic processing pipelines
por: Weißbach, Stephan, et al.
Publicado: (2021)

A transposable element annotation pipeline and expression analysis reveal potentially active elements in the microalga Tisochrysis lutea
por: Berthelier, Jérémy, et al.
Publicado: (2018)

A proposal for the reference-based annotation of de novo transposable element insertions
por: Bergman, Casey M.
Publicado: (2012)

A transposable element insertion in APOB causes cholesterol deficiency in Holstein cattle
por: Menzi, F., et al.
Publicado: (2016)

Maize Transposable Elements Ac/Ds as Insertion Mutagenesis Tools in Candida albicans
por: Mielich, Kevin, et al.
Publicado: (2018)

Double insertion of transposable elements provides a substrate for the evolution of satellite DNA
por: McGurk, Michael P., et al.
Publicado: (2018)

Genome-Wide Estimates of Transposable Element Insertion and Deletion Rates in Drosophila Melanogaster
por: Adrion, Jeffrey R., et al.
Publicado: (2017)

Whole-genome variation of transposable element insertions in a maize diversity panel
por: Qiu, Yinjie, et al.
Publicado: (2021)

Generating and manipulating transgenic animals using transposable elements
por: Largaespada, David A
Publicado: (2003)

T-lex: a program for fast and accurate assessment of transposable element presence using next-generation sequencing data
por: Fiston-Lavier, Anna-Sophie, et al.
Publicado: (2011)

Author Correction: Benchmarking transposable element annotation methods for creation of a streamlined, comprehensive pipeline
por: Ou, Shujun, et al.
Publicado: (2022)

ChimeraTE: a pipeline to detect chimeric transcripts derived from genes and transposable elements
por: Oliveira, Daniel S, et al.
Publicado: (2023)

Mobster: accurate detection of mobile element insertions in next generation sequencing data
por: Thung, Djie Tjwan, et al.
Publicado: (2014)

Large-scale discovery of insertion hotspots and preferential integration sites of human transposed elements
por: Levy, Asaf, et al.
Publicado: (2010)

Unusual misregulation of RNA splicing caused by insertion of a transposable element into the T (Brachyury) locus
por: Goldin, Sarah N, et al.
Publicado: (2003)

The Dominance Effect of the Adaptive Transposable Element Insertion Bari-Jheh Depends on the Genetic Background
por: Guio, Lain, et al.
Publicado: (2015)

Cannot write session to /tmp/vufind_sessions/sess_cii26i6a4r0nn37975j47nagtc