Cargando…

Unsupervised Learning Approach for Comparing Multiple Transposon Insertion Sequencing Studies

Transposon insertion sequencing (TIS) is a widely used technique for conducting genome-scale forward genetic screens in bacteria. However, few methods enable comparison of TIS data across multiple replicates of a screen or across independent screens, including screens performed in different organism...

Descripción completa

Detalles Bibliográficos
Autores principales:	Hubbard, Troy P., D’Gama, Jonathan D., Billings, Gabriel, Davis, Brigid M., Waldor, Matthew K.
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	American Society for Microbiology 2019
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6382967/ https://www.ncbi.nlm.nih.gov/pubmed/30787116 http://dx.doi.org/10.1128/mSphere.00031-19

Ejemplares similares

Time-Resolved Transposon Insertion Sequencing Reveals Genome-Wide Fitness Dynamics during Infection
por: Yang, Guanhua, et al.
Publicado: (2017)

The Nucleoid Binding Protein H-NS Biases Genome-Wide Transposon Insertion Landscapes
por: Kimura, Satoshi, et al.
Publicado: (2016)

Transposon-insertion sequencing screens unveil requirements for EHEC growth and intestinal colonization
por: Warr, Alyson R., et al.
Publicado: (2019)

ARTIST: High-Resolution Genome-Wide Assessment of Fitness Using Transposon-Insertion Sequencing
por: Pritchard, Justin R., et al.
Publicado: (2014)

High-resolution definition of the Vibrio cholerae essential gene set with hidden Markov model–based analyses of transposon-insertion sequencing data
por: Chao, Michael C., et al.
Publicado: (2013)

Comparative RNA-Seq based dissection of the regulatory networks and environmental stimuli underlying Vibrio parahaemolyticus gene expression during infection
por: Livny, Jonathan, et al.
Publicado: (2014)

An Oral Inoculation Infant Rabbit Model for Shigella Infection
por: Kuehl, Carole J., et al.
Publicado: (2020)

A decade of advances in transposon-insertion sequencing
por: Cain, Amy K., et al.
Publicado: (2020)

Application of Transposon Insertion Sequencing to Agricultural Science
por: Fabian, Belinda K., et al.
Publicado: (2020)

Approaches to querying bacterial genomes with transposon-insertion sequencing
por: Barquist, Lars, et al.
Publicado: (2013)

Transposon insertion profiling by sequencing (TIPseq) for mapping LINE-1 insertions in the human genome
por: Steranka, Jared P., et al.
Publicado: (2019)

Human transposon insertion profiling by sequencing (TIPseq) to map LINE-1 insertions in single cells
por: McKerrow, Wilson, et al.
Publicado: (2020)

Identifying transposon insertions and their effects from RNA-sequencing data
por: de Ruiter, Julian R., et al.
Publicado: (2017)

Expedited batch processing and analysis of transposon insertions
por: Smith, Jeremy D, et al.
Publicado: (2011)

A benchmark and an algorithm for detecting germline transposon insertions and measuring de novo transposon insertion frequencies
por: Yu, Tianxiong, et al.
Publicado: (2021)

Transposon insertion mapping with PIMMS – Pragmatic Insertional Mutation Mapping System
por: Blanchard, Adam M., et al.
Publicado: (2015)

High-throughput sequencing reveals suppressors of Vibrio cholerae rpoE mutations: one fewer porin is enough
por: Davis, Brigid M., et al.
Publicado: (2009)

Quantitative insertion-site sequencing (QIseq) for high throughput phenotyping of transposon mutants
por: Bronner, Iraad F., et al.
Publicado: (2016)

Selection or drift: The population biology underlying transposon insertion sequencing experiments
por: Mahmutovic, Anel, et al.
Publicado: (2020)

ESSENTIALS: Software for Rapid Analysis of High Throughput Transposon Insertion Sequencing Data
por: Zomer, Aldert, et al.
Publicado: (2012)

High-throughput discovery of phage receptors using transposon insertion sequencing of bacteria
por: Kortright, Kaitlyn E., et al.
Publicado: (2020)

Long-read sequencing for identification of insertion sites in large transposon mutant libraries
por: Yasir, Muhammad, et al.
Publicado: (2022)

Reproducible and accessible analysis of transposon insertion sequencing in Galaxy for qualitative essentiality analyses
por: Larivière, Delphine, et al.
Publicado: (2021)

Application of transposon insertion site sequencing method in the exploration of gene function in microalgae
por: Hu, Xiaobing, et al.
Publicado: (2023)

Somatic Mosaicism and Autism Spectrum Disorder
por: D’Gama, Alissa M.
Publicado: (2021)

Complete Nucleotide Sequence of CTX-M-15-Plasmids from Clinical Escherichia coli Isolates: Insertional Events of Transposons and Insertion Sequences
por: Smet, Annemieke, et al.
Publicado: (2010)

Genome-Wide Determination of Gene Essentiality by Transposon Insertion Sequencing in Yeast Pichia pastoris
por: Zhu, Jinxiang, et al.
Publicado: (2018)

CAFE: a software suite for analysis of paired-sample transposon insertion sequencing data
por: Abramova, Anna, et al.
Publicado: (2021)

A protocol for transposon insertion sequencing in Schizosaccharomyces pombe to identify factors that maintain heterochromatin
por: Li, Feng, et al.
Publicado: (2021)

Identification of putative essential protein domains from high-density transposon insertion sequencing
por: Rahman, A. S. M. Zisanur, et al.
Publicado: (2022)

Model-based identification of conditionally-essential genes from transposon-insertion sequencing data
por: Sarsani, Vishal, et al.
Publicado: (2022)

Shotgun Cloning of Transposon Insertions in the Genome of Caenorhabditis elegans
por: van der Linden, Alexander M., et al.
Publicado: (2004)

Random transposon insertion in the Mycoplasma hominis minimal genome
por: Rideau, Fabien, et al.
Publicado: (2019)

A case of paraneoplastic subacute cutaneous lupus erythematosus in a patient with metastatic melanoma
por: D'Gama, Jonathan D., et al.
Publicado: (2021)

Multiple homoplasious insertions and deletions of a Triticeae (Poaceae) DNA transposon: a phylogenetic perspective
por: Mason-Gamer, Roberta J
Publicado: (2007)

The Use of Transposon Insertion Sequencing to Interrogate the Core Functional Genome of the Legume Symbiont Rhizobium leguminosarum
por: Perry, Benjamin J., et al.
Publicado: (2016)

Structure-based prediction of insertion-site preferences of transposons into chromosomes
por: Geurts, Aron M., et al.
Publicado: (2006)

Retargeting transposon insertions by the adeno-associated virus Rep protein
por: Ammar, Ismahen, et al.
Publicado: (2012)

RTRIP: a comprehensive profile of transposon insertion polymorphisms in rice
por: Liu, Zhen, et al.
Publicado: (2020)

Polar Effects of Transposon Insertion into a Minimal Bacterial Genome
por: Hutchison, Clyde A., et al.
Publicado: (2019)

Cannot write session to /tmp/vufind_sessions/sess_4i51eu3i4c5tfmekp4ajqfup0f