Reconstruction of clone- and haplotype-specific cancer genome karyotypes from bulk tumor samples
出版年份 2020 全文链接
标题
Reconstruction of clone- and haplotype-specific cancer genome karyotypes from bulk tumor samples
作者
关键词
-
出版物
GENOME RESEARCH
Volume 30, Issue 9, Pages 1274-1290
出版商
Cold Spring Harbor Laboratory
发表日期
2020-09-05
DOI
10.1101/gr.256701.119
参考文献
相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。- The evolutionary history of 2,658 cancers
- (2020) Moritz Gerstung et al. NATURE
- Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing
- (2020) Isidro Cortés-Ciriano et al. NATURE GENETICS
- Inferring structural variant cancer cell fraction
- (2020) Marek Cmero et al. Nature Communications
- Genomic footprints of activated telomere maintenance mechanisms in cancer
- (2020) Lina Sieverling et al. Nature Communications
- Comprehensive analysis of structural variants in breast cancer genomes using single-molecule sequencing
- (2020) Sergey Aganezov et al. GENOME RESEARCH
- Sex differences in oncogenic mutational processes
- (2020) Constance H. Li et al. Nature Communications
- CALDER: Inferring Phylogenetic Trees from Longitudinal Tumor Samples
- (2019) Matthew A. Myers et al. Cell Systems
- Deconvolution and phylogeny inference of structural variations in tumor genomic samples
- (2018) Jesse Eaton et al. BIOINFORMATICS
- SvABA: genome-wide detection of structural variants and indels by local assembly
- (2018) Jeremiah A. Wala et al. GENOME RESEARCH
- Complex rearrangements and oncogene amplifications revealed by long-read DNA and RNA sequencing of a breast cancer cell line
- (2018) Maria Nattestad et al. GENOME RESEARCH
- Chromothripsis in acute myeloid leukemia: biological features and impact on survival
- (2018) Maria Chiara Fontana et al. LEUKEMIA
- Inferring parsimonious migration histories for metastatic cancers
- (2018) Mohammed El-Kebir et al. NATURE GENETICS
- Accurate detection of complex structural variations using single-molecule sequencing
- (2018) Fritz J. Sedlazeck et al. NATURE METHODS
- Extrachromosomal oncogene amplification drives tumour evolution and genetic heterogeneity
- (2017) Kristen M. Turner et al. NATURE
- Genome-wide reconstruction of complex structural variants using read clouds
- (2017) Noah Spies et al. NATURE METHODS
- Representing and decomposing genomic structural variants as balanced integer flows on sequence graphs
- (2016) Daniel R. Zerbino et al. BMC BIOINFORMATICS
- Identification of complex genomic rearrangements in cancers using CouGaR
- (2016) Misko Dzamba et al. GENOME RESEARCH
- Discovery and genotyping of structural variation from long-read haploid genome sequence data
- (2016) John Huddleston et al. GENOME RESEARCH
- Reconstruction of Ancestral Genomes in Presence of Gene Gain and Loss
- (2016) Pavel Avdeyev et al. JOURNAL OF COMPUTATIONAL BIOLOGY
- Haplotyping germline and cancer genomes with high-throughput linked-read sequencing
- (2016) Grace X Y Zheng et al. NATURE BIOTECHNOLOGY
- COSMIC: somatic cancer genetics at high-resolution
- (2016) Simon A. Forbes et al. NUCLEIC ACIDS RESEARCH
- Allele-Specific Quantification of Structural Variations in Cancer Genomes
- (2016) Yang Li et al. Cell Systems
- Manta: rapid detection of structural variants and indels for germline and cancer sequencing applications
- (2015) Xiaoyu Chen et al. BIOINFORMATICS
- Biological and Therapeutic Impact of Intratumor Heterogeneity in Cancer Evolution
- (2015) Nicholas McGranahan et al. CANCER CELL
- The evolutionary history of lethal metastatic prostate cancer
- (2015) Gunes Gundem et al. NATURE
- Whole–genome characterization of chemoresistant ovarian cancer
- (2015) Ann-Marie Patch et al. NATURE
- An integrated map of structural variation in 2,504 human genomes
- (2015) Peter H. Sudmant et al. NATURE
- Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation
- (2015) Nuala A. O'Leary et al. NUCLEIC ACIDS RESEARCH
- Characterization of structural variants with single molecule and hybrid sequencing approaches
- (2014) Anna Ritz et al. BIOINFORMATICS
- Quantifying tumor heterogeneity in whole-genome and whole-exome sequencing data
- (2014) Layla Oesper et al. BIOINFORMATICS
- PBHoney: identifying genomic variants via long-read discordance and interrupted mapping
- (2014) Adam C English et al. BMC BIOINFORMATICS
- Next-generation sequencing reveals large connected networks of intra-host HCV variants
- (2014) David S Campo et al. BMC GENOMICS
- The Architecture and Evolution of Cancer Neochromosomes
- (2014) Dale W. Garsed et al. CANCER CELL
- TITAN: inference of copy number architectures in clonal cell populations from tumor whole-genome sequence data
- (2014) Gavin Ha et al. GENOME RESEARCH
- High-Definition Reconstruction of Clonal Composition in Cancer
- (2014) Andrej Fischer et al. Cell Reports
- Identifying driver mutations in sequenced cancer genomes: computational approaches to enable precision medicine
- (2014) Benjamin J Raphael et al. Genome Medicine
- LUMPY: a probabilistic framework for structural variant discovery
- (2014) Ryan M Layer et al. GENOME BIOLOGY
- Chromoplexy: A New Category of Complex Rearrangements in the Cancer Genome
- (2013) Michael M. Shen CANCER CELL
- Punctuated Evolution of Prostate Cancer Genomes
- (2013) Sylvan C. Baca et al. CELL
- Lessons from the Cancer Genome
- (2013) Levi A. Garraway et al. CELL
- The Implications of Clonal Genome Evolution for Cancer Medicine
- (2013) Samuel Aparicio et al. NEW ENGLAND JOURNAL OF MEDICINE
- An algorithmic approach for breakage-fusion-bridge detection in tumor genomes
- (2013) S. Zakov et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Cancer Genome Landscapes
- (2013) B. Vogelstein et al. SCIENCE
- DELLY: structural variant discovery by integrated paired-end and split-read analysis
- (2012) T. Rausch et al. BIOINFORMATICS
- Reconstructing cancer genomes from paired-end sequencing data
- (2012) Layla Oesper et al. BMC BIOINFORMATICS
- Chromothripsis and Focal Copy Number Alterations Determine Poor Outcome in Malignant Melanoma
- (2012) D. Hirsch et al. CANCER RESEARCH
- The Life History of 21 Breast Cancers
- (2012) Serena Nik-Zainal et al. CELL
- Absolute quantification of somatic DNA alterations in human cancer
- (2012) Scott L Carter et al. NATURE BIOTECHNOLOGY
- An integrative probabilistic model for identification of structural variation in sequencing data
- (2012) Suzanne S Sindi et al. GENOME BIOLOGY
- Control-FREEC: a tool for assessing copy number and allelic content using next-generation sequencing data
- (2011) Valentina Boeva et al. BIOINFORMATICS
- Massive Genomic Rearrangement Acquired in a Single Catastrophic Event during Cancer Development
- (2011) Philip J. Stephens et al. CELL
- Estimation of rearrangement phylogeny for cancer genomes
- (2011) C. D. Greenman et al. GENOME RESEARCH
- The genomic complexity of primary human prostate cancer
- (2011) Michael F. Berger et al. NATURE
- CREST maps somatic structural variation in cancer genomes with base-pair resolution
- (2011) Jianmin Wang et al. NATURE METHODS
- Genome-wide mapping and assembly of structural variant breakpoints in the mouse genome
- (2010) A. R. Quinlan et al. GENOME RESEARCH
- Detecting copy number variation with mated short reads
- (2010) P. Medvedev et al. GENOME RESEARCH
- Frequency of double minute chromosomes and combined cytogenetic abnormalities and their characteristics
- (2010) Yihui Fan et al. JOURNAL OF APPLIED GENETICS
- Allele-specific copy number analysis of tumors
- (2010) P. Van Loo et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Breakpoint graphs and ancestral genome reconstructions
- (2009) M. A. Alekseyev et al. GENOME RESEARCH
- The cancer genome
- (2009) Michael R. Stratton et al. NATURE
- BreakDancer: an algorithm for high-resolution mapping of genomic structural variation
- (2009) Ken Chen et al. NATURE METHODS
- The infinite sites model of genome evolution
- (2008) J. Ma et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
Add your recorded webinar
Do you already have a recorded webinar? Grow your audience and get more views by easily listing your recording on Peeref.
Upload NowBecome a Peeref-certified reviewer
The Peeref Institute provides free reviewer training that teaches the core competencies of the academic peer review process.
Get Started