Genomic Analysis of Circulating Tumor Cells at the Single-Cell Level

[1]  X. Xie,et al.  Inferring the Evolution and Progression of Small-Cell Lung Cancer by Single-Cell Sequencing of Circulating Tumor Cells , 2019, Clinical Cancer Research.

[2]  May M. Y. Liang-Chu,et al.  Low-pass Whole-genome Sequencing of Circulating Cell-free DNA Demonstrates Dynamic Changes in Genomic Copy Number in a Squamous Lung Cancer Clinical Cohort , 2019, Clinical Cancer Research.

[3]  J. Flowers,et al.  Origins and geographic diversification of African rice (Oryza glaberrima) , 2018, bioRxiv.

[4]  D. Deforce,et al.  Massively parallel sequencing of micro-manipulated cells targeting a comprehensive panel of disease-causing genes: A comparative evaluation of upstream whole-genome amplification methods , 2018, PloS one.

[5]  Ping Liu,et al.  Comparison of single cell sequencing data between two whole genome amplification methods on two sequencing platforms , 2018, Scientific Reports.

[6]  D. Deforce,et al.  Performance of four modern whole genome amplification methods for copy number variant detection in single cells , 2017, Scientific Reports.

[7]  Ning Zhang,et al.  Single-cell sequencing deciphers a convergent evolution of copy number alterations from primary to circulating tumor cells , 2017, Genome research.

[8]  Simak Ali,et al.  Mutation Analysis of Cell-Free DNA and Single Circulating Tumor Cells in Metastatic Breast Cancer Patients with High Circulating Tumor Cell Counts , 2016, Clinical Cancer Research.

[9]  A. Vannucchi,et al.  Mutational analysis of single circulating tumor cells by next generation sequencing in metastatic breast cancer , 2016, Oncotarget.

[10]  W. Koh,et al.  Single-cell genome sequencing: current state of the science , 2016, Nature Reviews Genetics.

[11]  H. Beltran,et al.  The Initial Detection and Partial Characterization of Circulating Tumor Cells in Neuroendocrine Prostate Cancer , 2015, Clinical Cancer Research.

[12]  Sijia Lu,et al.  Single-Cell Whole-Genome Amplification and Sequencing: Methodology and Applications. , 2015, Annual review of genomics and human genetics.

[13]  Ramesh Ramakrishnan,et al.  Single-Cell Genetic Analysis Using Automated Microfluidics to Resolve Somatic Mosaicism , 2015, PloS one.

[14]  Edwin Cuppen,et al.  Sambamba: fast processing of NGS alignment formats , 2015, Bioinform..

[15]  M. Landers,et al.  Analytical Validation and Capabilities of the Epic CTC Platform: Enrichment-Free Circulating Tumour Cell Detection and Characterization , 2015, Journal of circulating biomarkers.

[16]  Nicolò Manaresi,et al.  Molecular profiling of single circulating tumor cells with diagnostic intention , 2014, EMBO molecular medicine.

[17]  Charles Gawad,et al.  A Quantitative Comparison of Single-Cell Whole Genome Amplification Methods , 2014, PloS one.

[18]  N. Navin,et al.  Clonal Evolution in Breast Cancer Revealed by Single Nucleus Genome Sequencing , 2014, Nature.

[19]  Mahmood Ayub,et al.  Tumorigenicity and genetic profiling of circulating tumor cells in small-cell lung cancer , 2014, Nature Medicine.

[20]  Richard Bourgon,et al.  High-Throughput Detection of Clinically Relevant Mutations in Archived Tumor Samples by Multiplexed PCR and Next-Generation Sequencing , 2014, Clinical Cancer Research.

[21]  X. Xie,et al.  Reproducible copy number variation patterns among single circulating tumor cells of lung cancer patients , 2013, Proceedings of the National Academy of Sciences.

[22]  M. Speicher,et al.  Circulating tumor cells and DNA as liquid biopsies , 2013, Genome Medicine.

[23]  German Tischler,et al.  biobambam: tools for read pair collation based algorithms on BAM files , 2013, Source Code for Biology and Medicine.

[24]  Heng Li.  Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM , 2013, 1303.3997.

[25]  X. Xie,et al.  Genome-Wide Detection of Single-Nucleotide and Copy-Number Variations of a Single Human Cell , 2012, Science.

[26]  Sridhar Ramaswamy,et al.  Androgen receptor signaling in circulating tumor cells as a marker of hormonally responsive prostate cancer. , 2012, Cancer discovery.

[27]  Gabor T. Marth,et al.  Haplotype-based variant detection from short-read sequencing , 2012, 1207.3907.

[28]  Cesar M. Castro,et al.  Ultrasensitive Clinical Enumeration of Rare Cells ex Vivo Using a Micro-Hall Detector , 2012, Science Translational Medicine.

[29]  Huanming Yang,et al.  Single-Cell Exome Sequencing and Monoclonal Evolution of a JAK2-Negative Myeloproliferative Neoplasm , 2012, Cell.

[30]  Gemma K. Alderton.  Genomics: One cell at a time , 2011, Nature Reviews Cancer.

[31]  J. Troge,et al.  Tumour evolution inferred by single-cell sequencing , 2011, Nature.

[32]  Aaron R. Quinlan,et al.  Bioinformatics Applications Note Genome Analysis Bedtools: a Flexible Suite of Utilities for Comparing Genomic Features , 2022 .

[33]  Gonçalo R. Abecasis,et al.  The Sequence Alignment/Map format and SAMtools , 2009, Bioinform..

[34]  Mehmet Toner,et al.  Detection of mutations in EGFR in circulating lung-cancer cells. , 2008, The New England journal of medicine.

[35]  Kevin A. Pelphrey,et al.  Genome-Wide Detection of Single-Nucleotide and Copy-Number Variations of a Single Human Cell , 2012 .

[36]  Elizabeth M. Smigielski,et al.  dbSNP: the NCBI database of genetic variation , 2001, Nucleic Acids Res..