How low can you go?: Methodologic considerations in clonal hematopoiesis variant calling
Published 2023 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
How low can you go?: Methodologic considerations in clonal hematopoiesis variant calling
Authors
Keywords
-
Journal
LEUKEMIA RESEARCH
Volume -, Issue -, Pages 107419
Publisher
Elsevier BV
Online
2023-11-02
DOI
10.1016/j.leukres.2023.107419
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- A practical approach to curate clonal hematopoiesis of indeterminate potential in human genetic datasets
- (2023) Caitlyn Vlasschaert et al. BLOOD
- The genetic determinants of recurrent somatic mutations in 43,693 blood genomes
- (2023) Joshua S. Weinstock et al. Science Advances
- Association of Clonal Hematopoiesis of Indeterminate Potential with Worse Kidney Function and Anemia in Two Cohorts of Patients with Advanced Chronic Kidney Disease
- (2022) Caitlyn Vlasschaert et al. JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY
- The longitudinal dynamics and natural history of clonal haematopoiesis
- (2022) Margarete A. Fabre et al. NATURE
- The Human Pangenome Project: a global resource to map genomic diversity
- (2022) Ting Wang et al. NATURE
- A complete reference genome improves analysis of human genetic variation
- (2022) Sergey Aganezov et al. SCIENCE
- TET2-mutant clonal hematopoiesis and risk of gout
- (2022) Mridul Agrawal et al. BLOOD
- Genome-wide analyses of 200,453 individuals yield new insights into the causes and consequences of clonal hematopoiesis
- (2022) Siddhartha P. Kar et al. NATURE GENETICS
- Common and rare variant associations with clonal haematopoiesis phenotypes
- (2022) Michael D. Kessler et al. NATURE
- Somatic Mutations in “Benign” Disease
- (2021) Satu Mustjoki et al. NEW ENGLAND JOURNAL OF MEDICINE
- Sensitive detection of tumor mutations from blood and its application to immunotherapy prognosis
- (2021) Shuo Li et al. Nature Communications
- Association of clonal hematopoiesis with chronic obstructive pulmonary disease
- (2021) Peter G. Miller et al. BLOOD
- Dnmt3a-mutated clonal hematopoiesis promotes osteoporosis
- (2021) Peter Geon Kim et al. JOURNAL OF EXPERIMENTAL MEDICINE
- Clonal hematopoiesis is associated with risk of severe Covid-19
- (2021) Kelly L. Bolton et al. Nature Communications
- Accurate detection of mosaic variants in sequencing data without matched controls
- (2020) Yanmei Dou et al. NATURE BIOTECHNOLOGY
- The mutational constraint spectrum quantified from variation in 141,456 humans
- (2020) Konrad J. Karczewski et al. NATURE
- The evolutionary dynamics and fitness landscape of clonal hematopoiesis
- (2020) Caroline J. Watson et al. SCIENCE
- Cancer therapy shapes the fitness landscape of clonal hematopoiesis
- (2020) Kelly L. Bolton et al. NATURE GENETICS
- Linked-read analysis identifies mutations in single-cell DNA-sequencing data
- (2019) Craig L. Bohrson et al. NATURE GENETICS
- Somatic Mutations Increase Hepatic Clonal Fitness and Regeneration in Chronic Liver Disease
- (2019) Min Zhu et al. CELL
- RNA sequence analysis reveals macroscopic somatic clonal expansion across normal tissues
- (2019) Keren Yizhak et al. SCIENCE
- eVIDENCE: a practical variant filtering for low-frequency variants detection in cell-free DNA
- (2019) Kei Mizuno et al. Scientific Reports
- Strelka2: fast and accurate calling of germline and somatic variants
- (2018) Sangtae Kim et al. NATURE METHODS
- ERASE-Seq: Leveraging replicate measurements to enhance ultralow frequency variant detection in NGS data
- (2018) Nick Kamps-Hughes et al. PLoS One
- A review of somatic single nucleotide variant calling algorithms for next-generation sequencing data
- (2018) Chang Xu Computational and Structural Biotechnology Journal
- Somatic mutant clones colonize the human esophagus with age
- (2018) Iñigo Martincorena et al. SCIENCE
- MosaicHunter: accurate detection of postzygotic single-nucleotide mosaicism through next-generation sequencing of unpaired, trio, and paired samples
- (2017) August Yue Huang et al. NUCLEIC ACIDS RESEARCH
- Intersect-then-combine approach: improving the performance of somatic variant calling in whole exome sequencing data using multiple aligners and callers
- (2017) Maurizio Callari et al. Genome Medicine
- SiNVICT: ultra-sensitive detection of single nucleotide variants and indels in circulating tumour DNA
- (2016) Can Kockan et al. BIOINFORMATICS
- Integrated digital error suppression for improved detection of circulating tumor DNA
- (2016) Aaron M Newman et al. NATURE BIOTECHNOLOGY
- VarDict: a novel and versatile variant caller for next-generation sequencing in cancer research
- (2016) Zhongwu Lai et al. NUCLEIC ACIDS RESEARCH
- Clonal haematopoiesis harbouring AML-associated mutations is ubiquitous in healthy adults
- (2016) Andrew L. Young et al. Nature Communications
- Quantifying ultra-rare pre-leukemic clones via targeted error-corrected sequencing
- (2015) A L Young et al. LEUKEMIA
- High burden and pervasive positive selection of somatic mutations in normal human skin
- (2015) I. Martincorena et al. SCIENCE
- Mutations in the DNA methyltransferase gene DNMT3A cause an overgrowth syndrome with intellectual disability
- (2014) Katrina Tatton-Brown et al. NATURE GENETICS
- Mosaic loss of chromosome Y in peripheral blood is associated with shorter survival and higher risk of cancer
- (2014) Lars A Forsberg et al. NATURE GENETICS
- Age-related mutations associated with clonal hematopoietic expansion and malignancies
- (2014) Mingchao Xie et al. NATURE MEDICINE
- Clonal Hematopoiesis and Blood-Cancer Risk Inferred from Blood DNA Sequence
- (2014) Giulio Genovese et al. NEW ENGLAND JOURNAL OF MEDICINE
- Age-Related Clonal Hematopoiesis Associated with Adverse Outcomes
- (2014) Siddhartha Jaiswal et al. NEW ENGLAND JOURNAL OF MEDICINE
- Quantifying single nucleotide variant detection sensitivity in exome sequencing
- (2013) Alison M Meynert et al. BMC BIOINFORMATICS
- Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples
- (2013) Kristian Cibulskis et al. NATURE BIOTECHNOLOGY
- Discovery and characterization of artifactual mutations in deep coverage targeted capture sequencing data due to oxidative DNA damage during sample preparation
- (2013) Maura Costello et al. NUCLEIC ACIDS RESEARCH
- The Origin and Evolution of Mutations in Acute Myeloid Leukemia
- (2012) John S. Welch et al. CELL
- VarScan 2: Somatic mutation and copy number alteration discovery in cancer by exome sequencing
- (2012) D. C. Koboldt et al. GENOME RESEARCH
- Detectable clonal mosaicism and its relationship to aging and cancer
- (2012) Kevin B Jacobs et al. NATURE GENETICS
- Detection of ultra-rare mutations by next-generation sequencing
- (2012) M. W. Schmitt et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Performance comparison of exome DNA sequencing technologies
- (2011) Michael J Clark et al. NATURE BIOTECHNOLOGY
- Integrative genomics viewer
- (2011) James T Robinson et al. NATURE BIOTECHNOLOGY
- Detection and quantification of rare mutations with massively parallel sequencing
- (2011) I. Kinde et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries
- (2011) Daniel Aird et al. GENOME BIOLOGY
- Next-generation DNA sequencing
- (2008) Jay Shendure et al. NATURE BIOTECHNOLOGY
Discover Peeref hubs
Discuss science. Find collaborators. Network.
Join a conversationAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started