Cargando…

qmotif: determination of telomere content from whole-genome sequence data

MOTIVATION: Changes in telomere length have been observed in cancer and can be indicative of mechanisms involved in carcinogenesis. Most methods used to estimate telomere length require laboratory analysis of DNA samples. Here, we present qmotif, a fast and easy tool that determines telomeric repeat...

Descripción completa

Detalles Bibliográficos
Autores principales:	Holmes, Oliver, Nones, Katia, Tang, Yue Hang, Loffler, Kelly A, Lee, Michael, Patch, Ann-Marie, Dagg, Rebecca A, Lau, Loretta M S, Leonard, Conrad, Wood, Scott, Xu, Qinying, Pickett, Hilda A, Reddel, Roger R, Barbour, Andrew P, Grimmond, Sean M, Waddell, Nicola, Pearson, John V
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2022
Materias:	Application Note
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9710677/ https://www.ncbi.nlm.nih.gov/pubmed/36699384 http://dx.doi.org/10.1093/bioadv/vbac005

Ejemplares similares

Telomere sequence content can be used to determine ALT activity in tumours
por: Lee, Michael, et al.
Publicado: (2018)

Telomere extension by telomerase and ALT generates variant repeats by mechanistically distinct processes
por: Lee, Michael, et al.
Publicado: (2014)

Detection of alternative lengthening of telomeres by telomere quantitative PCR
por: Lau, Loretta M. S., et al.
Publicado: (2013)

X-MATE: a flexible system for mapping short read data
por: Wood, David L. A., et al.
Publicado: (2011)

Alternative lengthening of telomeres: remodeling the telomere architecture
por: Conomos, Dimitri, et al.
Publicado: (2013)

Complex structural rearrangements are present in high-grade dysplastic Barrett’s oesophagus samples
por: Newell, Felicity, et al.
Publicado: (2019)

Loss of Wild-Type ATRX Expression in Somatic Cell Hybrids Segregates with Activation of Alternative Lengthening of Telomeres
por: Bower, Kylie, et al.
Publicado: (2012)

Control of telomere length by a trimming mechanism that involves generation of t-circles
por: Pickett, Hilda A, et al.
Publicado: (2009)

RNA-MATE: a recursive mapping strategy for high-throughput RNA-sequencing data
por: Cloonan, Nicole, et al.
Publicado: (2009)

Telomeric replication stress: the beginning and the end for alternative lengthening of telomeres cancers
por: Lu, Robert, et al.
Publicado: (2022)

Telomerase activity is associated with an increase in DNA methylation at the proximal subtelomere and a reduction in telomeric transcription
por: Ng, Laura J., et al.
Publicado: (2009)

Using whole-genome sequencing data to derive the homologous recombination deficiency scores
por: de Luca, Xavier M., et al.
Publicado: (2020)

Variant repeats are interspersed throughout the telomeres and recruit nuclear receptors in ALT cells
por: Conomos, Dimitri, et al.
Publicado: (2012)

The Impact of Next Generation Sequencing in Cancer Research
por: Nones, Katia, et al.
Publicado: (2020)

qpure: A Tool to Estimate Tumor Cellularity from Genome-Wide Single-Nucleotide Polymorphism Profiles
por: Song, Sarah, et al.
Publicado: (2012)

Extreme Telomere Length Dimorphism in the Tasmanian Devil and Related Marsupials Suggests Parental Control of Telomere Length
por: Bender, Hannah S., et al.
Publicado: (2012)

Comprehensive genomic and tumour immune profiling reveals potential therapeutic targets in malignant pleural mesothelioma
por: Creaney, Jenette, et al.
Publicado: (2022)

The C-Circle Biomarker Is Secreted by Alternative-Lengthening-of-Telomeres Positive Cancer Cells inside Exosomes and Provides a Blood-Based Diagnostic for ALT Activity
por: Chen, Yuan-Yin, et al.
Publicado: (2021)

Germline and somatic variant identification using BGISEQ-500 and HiSeq X Ten whole genome sequencing
por: Patch, Ann-Marie, et al.
Publicado: (2018)

streammd: fast low-memory duplicate marking using a Bloom filter
por: Leonard, Conrad
Publicado: (2023)

The uniqueome: a mappability resource for short-tag sequencing
por: Koehler, Ryan, et al.
Publicado: (2011)

Genomic catastrophes frequently arise in esophageal adenocarcinoma and drive tumorigenesis
por: Nones, Katia, et al.
Publicado: (2014)

The FANCM-BLM-TOP3A-RMI complex suppresses alternative lengthening of telomeres (ALT)
por: Lu, Robert, et al.
Publicado: (2019)

Lost in translation: returning germline genetic results in genome-scale cancer research
por: Johns, Amber L., et al.
Publicado: (2017)

Telomeres and Stress: Promising Avenues for Research in Psycho-Oncology
por: Law, Eleanor, et al.
Publicado: (2016)

Author Correction: The FANCM-BLM-TOP3A-RMI complex suppresses alternative lengthening of telomeres (ALT)
por: Lu, Robert, et al.
Publicado: (2019)

Advancing the quantitative characterization of farm animal welfare
por: Bartlett, Harriet, et al.
Publicado: (2023)

Somatic Point Mutation Calling in Low Cellularity Tumors
por: Kassahn, Karin S., et al.
Publicado: (2013)

Telomere Length Measurement by Molecular Combing
por: Kahl, Vivian F. S., et al.
Publicado: (2020)

A DNA-fiber protocol for single molecule analysis of telomere (SMAT) length and extension events in cancer cells
por: Lu, Robert, et al.
Publicado: (2022)

Telomere elongation involves intra-molecular DNA replication in cells utilizing alternative lengthening of telomeres
por: Muntoni, Alessandra, et al.
Publicado: (2009)

Telomere Maintenance Mechanisms in Cancer: Clinical Implications
por: Reddel, Roger R
Publicado: (2014)

Identification of the CIMP-like subtype and aberrant methylation of members of the chromosomal segregation and spindle assembly pathways in esophageal adenocarcinoma
por: Krause, Lutz, et al.
Publicado: (2016)

RTEL1 contributes to DNA replication and repair and telomere maintenance
por: Uringa, Evert-Jan, et al.
Publicado: (2012)

Intratumoural Heterogeneity Underlies Distinct Therapy Responses and Treatment Resistance in Glioblastoma
por: Akgül, Seçkin, et al.
Publicado: (2019)

A dashboard for exploring clinical trials sponsorship and potential virtual monopolies
por: Graham, S Scott, et al.
Publicado: (2021)

Alternative lengthening of telomeres is not synonymous with mutations in ATRX/DAXX
por: de Nonneville, Alexandre, et al.
Publicado: (2021)

Recommendations for Accurate Resolution of Gene and Isoform Allele-Specific Expression in RNA-Seq Data
por: Wood, David L. A., et al.
Publicado: (2015)

A plugin for the Ensembl Variant Effect Predictor that uses MaxEntScan to predict variant spliceogenicity
por: Shamsani, Jannah, et al.
Publicado: (2019)

Pathogenic germline variants are associated with poor survival in stage III/IV melanoma patients
por: Aoude, Lauren G., et al.
Publicado: (2020)

Cannot write session to /tmp/vufind_sessions/sess_4i1u6n9811f341ds7pvlfhc123