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Results: 33
A single-copy Sleeping Beauty transposon mutagenesis screen identifies new PTEN-cooperating tumor suppressor genes.
Jorge de la Rosa, Julia Weber, Mathias Josef Friedrich, Yilong Li, Lena Rad, Hannes Ponstingl, Qi Liang, Sandra Bernaldo de Quirós, Imran Noorani, Emmanouil Metzakopian, Alexander Strong, Meng Amy Li, Aurora Astudillo, María Teresa Fernández-García, María Soledad Fernández-García, Gary J Hoffman, Rocío Fuente, George S Vassiliou, Roland Rad, Carlos López-Otín, Allan Bradley, Juan Cadiñanos
Oct 27, 2020
The overwhelming number of genetic alterations identified through cancer genome sequencing requires complementary approaches to interpret their significance and interactions. Here we developed a novel whole-body insertional...
Animals Cell Line Cell Movement DNA Transposable Elements Epithelial Cells Gene Dosage Genes Tumor Suppressor Genetic Predisposition to Disease Humans Kaplan-Meier Estimate Male Mice Knockout Mice Transgenic Mutagenesis Insertional Mutation PTEN Phosphohydrolase Prostate Prostatic Neoplasms RNA Interference Signal Transduction
Which microbial factors really are important in Pseudomonas aeruginosa infections?
Audrey Crousilles, Eve Maunders, Sean Bartlett, Catherine Fan, Emem-Fong Ukor, Yassmin Abdelhamid, Ysobel Baker, Andres Floto, David R Spring, Martin Welch
Aug 19, 2015
The transposable elements of the Drosophila melanogaster euchromatin
Joshua S Kaminker, Casey M Bergman, Brent Kronmiller, Joseph Carlson, Robert Svirskas, Sandeep Patel, Erwin Frise, David A Wheeler, Suzanna E Lewis, Gerald M Rubin, Michael Ashburner, Susan E Celniker
Jun 17, 2011
Genomic surveillance of Escherichia coli ST131 identifies local expansion and serial replacement of subclones.
Catherine Ludden, Arun Gonzales Decano, Dorota Jamrozy, Derek Pickard, Dearbhaile Morris, Julian Parkhill, Sharon J Peacock, Martin Cormican, Tim Downing
Mar 10, 2020
Escherichia coli sequence type 131 (ST131) is a pandemic clone that is evolving rapidly with increasing levels of antimicrobial resistance. Here, we investigated an outbreak of E. coli ST131 producing extended spectrum...
A recessive genetic screen for host factors required for retroviral infection in a library of insertionally mutated Blm-deficient embryonic stem cells.
BACKGROUND: Host factors required for retroviral infection are potential targets for the modulation of diseases caused by retroviruses. During the retroviral life cycle, numerous cellular factors interact with the virus and play...
PiggyBac mutagenesis and exome sequencing identify genetic driver landscapes and potential therapeutic targets of EGFR-mutant gliomas.
Imran Noorani, Jorge de la Rosa, Yoon Ha Choi, Alexander Strong, Hannes Ponstingl, MS Vijayabaskar, Jusung Lee, Eunmin Lee, Angela Richard-Londt, Mathias Friedrich, Federica Furlanetto, Rocio Fuente, Ruby Banerjee, Fengtang Yang, Frances Law, Colin Watts, Roland Rad, George Vassiliou, Jong Kyoung Kim, Thomas Santarius, Sebastian Brandner, Allan Bradley
Aug 14, 2020
Glioma is the most common intrinsic brain tumor and also occurs in the spinal cord. Activating EGFR mutations are common in IDH1 wild-type gliomas. However, the cooperative partners of EGFR driving gliomagenesis remain poorly...
O-Antigen-Dependent Colicin Insensitivity of Uropathogenic Escherichia coli.
Connor Sharp, Christine Boinett, Amy Cain, Nicholas G Housden, Sandip Kumar, Keith Turner, Julian Parkhill, Colin Kleanthous
Aug 20, 2019
The outer membrane of Gram-negative bacteria presents a significant barrier for molecules entering the cell. Nevertheless, colicins, which are antimicrobial proteins secreted by Escherichia coli, can target other E. coli cells...
bacteriocins cell envelope enteric bacteria outer membrane Anti-Bacterial Agents Colicins DNA Transposable Elements Drug Resistance Bacterial Gene Silencing metabolism Microarray Analysis Microbial Sensitivity Tests Mutagenesis Insertional O Antigens Phenotype Sequence Analysis DNA Uropathogenic Escherichia coli
A LINE-1 insertion situated in the promoter of IMPG2 is associated with autosomal recessive progressive retinal atrophy in Lhasa Apso dogs.
Rebekkah J Hitti-Malin, Louise M Burmeister, Sally L Ricketts, Thomas W Lewis, Louise Pettitt, Mike Boursnell, Ellen C Schofield, David Sargan, Cathryn S Mellersh
Sep 14, 2020
BACKGROUND: Canine progressive retinal atrophies are a group of hereditary retinal degenerations in dogs characterised by depletion of photoreceptor cells in the retina, which ultimately leads to blindness. PRA in the Lhasa Apso...
Canine Canine retinal degeneration Dog IMPG2 Inherited PRA Photoreceptor degeneration progressive retinal atrophy Animals Atrophy Breeding Dog Diseases Dogs Gene Frequency Genetic Association Studies Genotype High-Throughput Nucleotide Sequencing Long Interspersed Nucleotide Elements Mutagenesis Insertional Promoter Regions Genetic Proteoglycans Retina Retinal Degeneration Exome Sequencing
The evolutionary history of 2,658 cancers.
Moritz Gerstung, Clemency Jolly, Ignaty Leshchiner, Stefan C Dentro, Santiago Gonzalez, Daniel Rosebrock, Thomas J Mitchell, Yulia Rubanova, Pavana Anur, Kaixian Yu, Maxime Tarabichi, Amit Deshwar, Jeff Wintersinger, Kortine Kleinheinz, Ignacio Vázquez-García, Kerstin Haase, Lara Jerman, Subhajit Sengupta, Geoff Macintyre, Salem Malikic, Nilgun Donmez, Dimitri G Livitz, Marek Cmero, Jonas Demeulemeester, Steven Schumacher, Yu Fan, Xiaotong Yao, Juhee Lee, Matthias Schlesner, Paul C Boutros, David D Bowtell, Hongtu Zhu, Gad Getz, Marcin Imielinski, Rameen Beroukhim, S Cenk Sahinalp, Yuan Ji, Martin Peifer, Florian Markowetz, Ville Mustonen, Ke Yuan, Wenyi Wang, Quaid D Morris, PCAWG Evolution & Heterogeneity Working Group, Paul T Spellman, David C Wedge, Peter Van Loo, PCAWG Consortium
Feb 04, 2021
Cancer develops through a process of somatic evolution1,2. Sequencing data from a single biopsy represent a snapshot of this process that can reveal the timing of specific genomic aberrations and the changing influence of...
The Capsule Regulatory Network of Klebsiella pneumoniae Defined by density-TraDISort.
Matthew J Dorman, Theresa Feltwell, David A Goulding, Julian Parkhill, Francesca L Short
Aug 13, 2019
Klebsiella pneumoniae infections affect infants and the immunocompromised, and the recent emergence of hypervirulent and multidrug-resistant K. pneumoniae lineages is a critical health care concern. Hypervirulence in K....
Klebsiella TraDIS capsular polysaccharide capsule regulation pathogenesis Animals Bacterial Capsules Centrifugation Density Gradient DNA Transposable Elements Gene Expression Regulation Bacterial Gene Knockout Techniques Genome Bacterial Klebsiella Infections Klebsiella pneumoniae Larva Moths Mutagenesis Insertional Mutation Sequence Analysis DNA Virulence Factors
Genome-wide fitness analyses of the foodborne pathogen Campylobacter jejuni in in vitro and in vivo models.
SPWD Vries, S Gupta, A Baig, E Wright, A Wedley, AN Jensen, LL Lora, S Humphrey, H Skovgård, K Macleod, E Pont, DP Wolanska, J L'Heureux, FM Mobegi, DGE Smith, P Everest, A Zomer, N Williams, P Wigley, T Humphrey, DJ Maskell, AJ Grant
Jun 01, 2017
Analysis of Campylobacter jejuni infection in the gnotobiotic piglet and genome-wide identification of bacterial factors required for infection
SPW de Vries, A Linn, K Macleod, A MacCallum, SP Hardy, G Douce, E Watson, MP Dagleish, H Thompson, A Stevenson, D Kennedy, A Baig, C Coward, DJ Maskell, DGE Smith, AJ Grant, P Everest
Aug 17, 2017
Isolation of homozygous mutant mouse embryonic stem cells using a dual selection system.
Yue Huang, Stephen J Pettitt, Ge Guo, Guang Liu, Meng Amy Li, Fengtang Yang, Allan Bradley
Oct 14, 2020
Obtaining random homozygous mutants in mammalian cells for forward genetic studies has always been problematic due to the diploid genome. With one mutation per cell, only one allele of an autosomal gene can be disrupted, and the...
A small-cell lung cancer genome with complex signatures of tobacco exposure.
Erin D Pleasance, Philip J Stephens, Sarah O'Meara, David J McBride, Alison Meynert, David Jones, Meng-Lay Lin, David Beare, King Wai Lau, Chris Greenman, Ignacio Varela, Serena Nik-Zainal, Helen R Davies, Gonzalo R Ordoñez, Laura J Mudie, Calli Latimer, Sarah Edkins, Lucy Stebbings, Lina Chen, Mingming Jia, Catherine Leroy, John Marshall, Andrew Menzies, Adam Butler, Jon W Teague, Jonathon Mangion, Yongming A Sun, Stephen F McLaughlin, Heather E Peckham, Eric F Tsung, Gina L Costa, Clarence C Lee, John D Minna, Adi Gazdar, Ewan Birney, Michael D Rhodes, Kevin J McKernan, Michael R Stratton, P Andrew Futreal, Peter J Campbell
Sep 10, 2018
Cancer is driven by mutation. Worldwide, tobacco smoking is the principal lifestyle exposure that causes cancer, exerting carcinogenicity through >60 chemicals that bind and mutate DNA. Using massively parallel sequencing...
Carcinogens Cell Line Tumor DNA Copy Number Variations DNA Damage DNA Helicases DNA Mutational Analysis DNA Repair DNA-Binding Proteins Exons Gene Expression Regulation Neoplastic Genome Human Humans Lung Neoplasms Mutagenesis Insertional Mutation Promoter Regions Genetic Sequence Deletion Small Cell Lung Carcinoma Smoking Tobacco
Essential Genes for In Vitro Growth of the Endophyte Herbaspirillum seropedicae SmR1 as Revealed by Transposon Insertion Site Sequencing.
Public antibodies to malaria antigens generated by two LAIR1 insertion modalities.
Kathrin Pieper, Joshua Tan, Luca Piccoli, Mathilde Foglierini, Sonia Barbieri, Yiwei Chen, Chiara Silacci-Fregni, Tobias Wolf, David Jarrossay, Marica Anderle, Abdirahman Abdi, Francis M Ndungu, Ogobara K Doumbo, Boubacar Traore, Tuan M Tran, Said Jongo, Isabelle Zenklusen, Peter D Crompton, Claudia Daubenberger, Peter C Bull, Federica Sallusto, Antonio Lanzavecchia
Dec 13, 2017
In two previously described donors, the extracellular domain of LAIR1, a collagen-binding inhibitory receptor encoded on chromosome 19 (ref. 1), was inserted between the V and DJ segments of an antibody. This insertion...
Antibodies Protozoan Antigens Protozoan B-Lymphocytes Blood Donors Erythrocytes Europe Female Genes Immunoglobulin Heavy Chain Humans Immunoglobulin Heavy Chains Immunoglobulin Switch Region Immunologic Memory Introns Malaria Male Mutagenesis Insertional Plasmodium falciparum Protein Domains Receptors Immunologic Templates Genetic VDJ Exons
Characterisation of FUT4 and FUT6 α-(1 → 2)-fucosyltransferases reveals that absence of root arabinogalactan fucosylation increases Arabidopsis root growth salt sensitivity.
Theodora Tryfona, Tina E Theys, Tanya Wagner, Katherine Stott, Kenneth Keegstra, Paul Dupree
Jan 16, 2018
Plant type II arabinogalactan (AG) polysaccharides are attached to arabinogalactan proteins (AGPs) at hydroxyproline residues, and they are very diverse and heterogeneous structures. The AG consists of a β-(1 → 3)-linked...
Mobile element insertions are frequent in oesophageal adenocarcinomas and can mislead paired-end sequencing analysis.
Anna L Paterson, Jamie MJ Weaver, Matthew D Eldridge, Simon Tavaré, Rebecca C Fitzgerald, Paul AW Edwards, OCCAMS consortium
Sep 29, 2016
George Giotopoulos, Louise van der Weyden, Hikari Osaki, Alistair G Rust, Paolo Gallipoli, Eshwar Meduri, Sarah J Horton, Wai-In Chan, Donna Foster, Rab K Prinjha, John E Pimanda, Daniel G Tenen, George S Vassiliou, Steffen Koschmieder, David J Adams, Brian JP Huntly
Sep 08, 2015
Animals DNA Transposable Elements Fusion Proteins bcr-abl Gene Expression Regulation Leukemic Genes myb Hematopoietic Stem Cells Humans Leukemia Experimental Leukemia Myelogenous Chronic BCR-ABL Positive Mice Transgenic Molecular Targeted Therapy Mutagenesis Insertional Mutation Tumor Cells Cultured Vascular Endothelial Growth Factor C
The secondary resistome of multidrug-resistant Klebsiella pneumoniae.
Bimal Jana, Amy K Cain, William T Doerrler, Christine J Boinett, Maria C Fookes, Julian Parkhill, Luca Guardabassi
Sep 06, 2019
Klebsiella pneumoniae causes severe lung and bloodstream infections that are difficult to treat due to multidrug resistance. We hypothesized that antimicrobial resistance can be reversed by targeting chromosomal non-essential...
Anti-Bacterial Agents Chromosome Mapping DNA Transposable Elements Drug Resistance Multiple Bacterial Gene Expression Regulation Bacterial Gene Library Genes Bacterial Genome Bacterial Humans Klebsiella Infections Klebsiella pneumoniae Microbial Sensitivity Tests Mutagenesis Insertional Mutation whole genome sequencing
Fitness Landscape of the Fission Yeast Genome.
Leanne Grech, Daniel C Jeffares, Christoph Y Sadée, María Rodríguez-López, Danny A Bitton, Mimoza Hoti, Carolina Biagosch, Dimitra Aravani, Maarten Speekenbrink, Christopher JR Illingworth, Philipp H Schiffer, Alison L Pidoux, Pin Tong, Victor A Tallada, Robin Allshire, Henry L Levin, Jürg Bähler
May 24, 2019
The relationship between DNA sequence, biochemical function, and molecular evolution is relatively well-described for protein-coding regions of genomes, but far less clear in noncoding regions, particularly, in eukaryote...
Large scale genomic rearrangements in selected Arabidopsis thaliana T-DNA lines are caused by T-DNA insertion mutagenesis.
BACKGROUND: Experimental proof of gene function assignments in plants is based on mutant analyses. T-DNA insertion lines provided an invaluable resource of mutants and enabled systematic reverse genetics-based investigation of...
Mannosidase 2, alpha 1 deficiency is associated with ricin resistance in embryonic stem (ES) cells.
Wei Wang, Christine Hale, Dave Goulding, Stuart M Haslam, Bérangère Tissot, Christopher Lindsay, Stephen Michell, Rick Titball, Jun Yu, Ana Luisa Toribio, Raffaella Rossi, Anne Dell, Allan Bradley, Gordon Dougan
Oct 14, 2020
Host gene products required for mediating the action of toxins are potential targets for reversing or controlling their pathogenic impact following exposure. To identify such targets libraries of insertional gene-trap mutations...
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