in silico Long-Read Sequencing from FFPE Solid Tumor Tissue for Structural Variation Detection and Phasing in Archival Specimens

被引:0
|
作者
Costa, H. A. [1 ]
Blanchette, M. [2 ]
Bustamante, C. D. [1 ]
Green, R. E. [3 ]
Hadley, P. D. [2 ]
Kunder, C. [1 ]
Putnam, N. [2 ]
Rice, B. [2 ]
Trolf, C. [2 ]
Zehnder, J. L. [1 ]
机构
[1] Stanford Univ, Stanford, CA 94305 USA
[2] Dovetail Genom LLC, Santa Cruz, CA USA
[3] Univ Calif Santa Cruz, Santa Cruz, CA 95064 USA
来源
JOURNAL OF MOLECULAR DIAGNOSTICS | 2017年 / 19卷 / 06期
关键词
D O I
暂无
中图分类号
R36 [病理学];
学科分类号
100104 ;
摘要
ST110
引用
收藏
页码:1034 / 1035
页数:2
相关论文
共 50 条
  • [31] Long-read sequencing and optical genome mapping enable full characterization of previously unresolved structural variation
    De Clercq, Griet
    Vantomme, Lies
    Callewaert, Bert
    Vergult, Sarah
    Dewaele, Barbara
    Vermeesch, Joris
    De Coster, Wouter
    Strazisar, Mojca
    De Pooter, Tim
    Dheedene, Annelies
    Menten, Bjorn
    EUROPEAN JOURNAL OF HUMAN GENETICS, 2024, 32 : 278 - 278
  • [32] Decoil: Reconstructing Extrachromosomal DNA Structural Heterogeneity from Long-Read Sequencing Data
    Giurgiu, Madalina
    Wittstruck, Nadine
    Rodriguez-Fos, Elias
    Gonzalez, Rocio Chamorro
    Brueckner, Lotte
    Krienelke-Szymansky, Annabell
    Helmsauer, Konstantin
    Hartebrodt, Anne
    Euskirchen, Philipp
    Koche, Richard P.
    Haase, Kerstin
    Reinert, Knut
    Henssen, Anton G.
    RESEARCH IN COMPUTATIONAL MOLECULAR BIOLOGY, RECOMB 2024, 2024, 14758 : 406 - 411
  • [33] Precise characterization of somatic complex structural variations from tumor/control paired long-read sequencing data with nanomonsv
    Shiraishi, Yuichi
    Koya, Junji
    Chiba, Kenichi
    Okada, Ai
    Arai, Yasuhito
    Saito, Yuki
    Shibata, Tatsuhiro
    Kataoka, Keisuke
    NUCLEIC ACIDS RESEARCH, 2023, 51 (14) : E74
  • [34] Discovery and genotyping of structural variation from long-read haploid genome sequence data
    Huddleston, John
    Chaisson, Mark J. P.
    Steinberg, Karyn Meltz
    Warren, Wes
    Hoekzema, Kendra
    Gordon, David
    Graves-Lindsay, Tina A.
    Munson, Katherine M.
    Kronenberg, Zev N.
    Vives, Laura
    Peluso, Paul
    Boitano, Matthew
    Chin, Chen-Shin
    Korlach, Jonas
    Wilson, Richard K.
    Eichler, Evan E.
    GENOME RESEARCH, 2017, 27 (05) : 677 - 685
  • [35] Genome-wide detection of structural variation in some sheep breeds using whole-genome long-read sequencing data
    Qiao, Guoyan
    Xu, Pan
    Guo, Tingting
    He, Xue
    Yue, Yaojing
    Yang, Bohui
    JOURNAL OF ANIMAL BREEDING AND GENETICS, 2024, 141 (04) : 403 - 414
  • [36] Tradeoffs in alignment and assembly-based methods for structural variant detection with long-read sequencing data
    Yichen Henry Liu
    Can Luo
    Staunton G. Golding
    Jacob B. Ioffe
    Xin Maizie Zhou
    Nature Communications, 15
  • [37] Tradeoffs in alignment and assembly-based methods for structural variant detection with long-read sequencing data
    Liu, Yichen Henry
    Luo, Can
    Golding, Staunton G.
    Ioffe, Jacob B.
    Zhou, Xin Maizie
    NATURE COMMUNICATIONS, 2024, 15 (01)
  • [38] Kled: an ultra-fast and sensitive structural variant detection tool for long-read sequencing data
    Zhang, Zhendong
    Jiang, Tao
    Li, Gaoyang
    Cao, Shuqi
    Liu, Yadong
    Liu, Bo
    Wang, Yadong
    BRIEFINGS IN BIOINFORMATICS, 2024, 25 (02)
  • [39] Structural variation and its potential impact on genome instability: Novel discoveries in the EGFR landscape by long-read sequencing
    Cook, George W.
    Benton, Michael G.
    Akerley, Wallace
    Mayhew, George F.
    Moehlenkamp, Cynthia
    Raterman, Denise
    Burgess, Daniel L.
    Rowell, William J.
    Lambert, Christine
    Eng, Kevin
    Gu, Jenny
    Baybayan, Primo
    Fussell, John T.
    Herboldl, Heath D.
    O'Shea, John M.
    Varghese, Thomas K.
    Emerson, Lyska L.
    PLOS ONE, 2020, 15 (01):
  • [40] Reconstructing extrachromosomal DNA structural heterogeneity from long-read sequencing data using Decoil
    Giurgiu, Madalina
    Wittstruck, Nadine
    Rodriguez-Fos, Elias
    Chamorro Gonzalez, Rocio
    Brueckner, Lotte
    Krienelke-Szymansky, Annabell
    Helmsauer, Konstantin
    Hartebrodt, Anne
    Euskirchen, Philipp
    Koche, Richard P.
    Haase, Kerstin
    Reinert, Knut
    Henssen, Anton G.
    GENOME RESEARCH, 2024, 34 (09) : 1355 - 1364