SomatoSim: precision simulation of somatic single nucleotide variants

被引：0
|
作者：
Marwan A. Hawari
Celine S. Hong
Leslie G. Biesecker
机构：
[1] National Institutes of Health,Medical Genomics and Metabolic Genetics Branch, National Human Genome Research Institute
来源：
BMC Bioinformatics | / 22卷
关键词：
Single nucleotide variants; SNV; Simulation; Somatic variants; Mosaicism;
D O I：
暂无
中图分类号：
学科分类号：
摘要：
引用
收藏
相关论文
共 50 条
  • [1] SomatoSim: precision simulation of somatic single nucleotide variants
    Hawari, Marwan A.
    Hong, Celine S.
    Biesecker, Leslie G.
    BMC BIOINFORMATICS, 2021, 22 (01)
  • [2] Landscape of somatic single nucleotide variants and indels in colorectal cancer and impact on survival
    Syed H. Zaidi
    Tabitha A. Harrison
    Amanda I. Phipps
    Robert Steinfelder
    Quang M. Trinh
    Conghui Qu
    Barbara L. Banbury
    Peter Georgeson
    Catherine S. Grasso
    Marios Giannakis
    Jeremy B. Adams
    Elizabeth Alwers
    Efrat L. Amitay
    Richard T. Barfield
    Sonja I. Berndt
    Ivan Borozan
    Hermann Brenner
    Stefanie Brezina
    Daniel D. Buchanan
    Yin Cao
    Andrew T. Chan
    Jenny Chang-Claude
    Charles M. Connolly
    David A. Drew
    Alton Brad Farris
    Jane C. Figueiredo
    Amy J. French
    Charles S. Fuchs
    Levi A. Garraway
    Steve Gruber
    Mark A. Guinter
    Stanley R. Hamilton
    Sophia Harlid
    Lawrence E. Heisler
    Akihisa Hidaka
    John L. Hopper
    Wen-Yi Huang
    Jeroen R. Huyghe
    Mark A. Jenkins
    Paul M. Krzyzanowski
    Mathieu Lemire
    Yi Lin
    Xuemei Luo
    Elaine R. Mardis
    John D. McPherson
    Jessica K. Miller
    Victor Moreno
    Xinmeng Jasmine Mu
    Reiko Nishihara
    Nickolas Papadopoulos
    Nature Communications, 11
  • [3] Landscape of somatic single nucleotide variants and indels in colorectal cancer and impact on survival
    Zaidi, Syed H.
    Harrison, Tabitha A.
    Phipps, Amanda, I
    Steinfelder, Robert
    Trinh, Quang M.
    Qu, Conghui
    Banbury, Barbara L.
    Georgeson, Peter
    Grasso, Catherine S.
    Giannakis, Marios
    Adams, Jeremy B.
    Alwers, Elizabeth
    Amitay, Efrat L.
    Barfield, Richard T.
    Berndt, Sonja, I
    Borozan, Ivan
    Brenner, Hermann
    Brezina, Stefanie
    Buchanan, Daniel D.
    Cao, Yin
    Chan, Andrew T.
    Chang-Claude, Jenny
    Connolly, Charles M.
    Drew, David A.
    Farris, Alton Brad, III
    Figueiredo, Jane C.
    French, Amy J.
    Fuchs, Charles S.
    Garraway, Levi A.
    Gruber, Steve
    Guinter, Mark A.
    Hamilton, Stanley R.
    Harlid, Sophia
    Heisler, Lawrence E.
    Hidaka, Akihisa
    Hopper, John L.
    Huang, Wen-Yi
    Huyghe, Jeroen R.
    Jenkins, Mark A.
    Krzyzanowski, Paul M.
    Lemire, Mathieu
    Lin, Yi
    Luo, Xuemei
    Mardis, Elaine R.
    McPherson, John D.
    Miller, Jessica K.
    Moreno, Victor
    Mu, Xinmeng Jasmine
    Nishihara, Reiko
    Papadopoulos, Nickolas
    NATURE COMMUNICATIONS, 2020, 11 (01)
  • [4] Comparative evaluation of somatic mutations calls on single nucleotide variants and structural variants using breast cancer cell lines
    Hampton, Oliver A.
    Gibbs, Richard A.
    Wheeler, David A.
    CANCER RESEARCH, 2014, 74 (19)
  • [5] Quantification of rare somatic single nucleotide variants by droplet digital PCR using SuperSelective primers
    Pablo-Fontecha, Veronica
    Hernandez-Illan, Eva
    Reparaz, Andrea
    Asensio, Elena
    Morata, Jordi
    Tonda, Raul
    Lahoz, Sara
    Parra, Carolina
    Jose Lozano, Juan
    Garcia-Heredia, Anabel
    Martinez-Roca, Alejandro
    Beltran, Sergi
    Balaguer, Francesc
    Jover, Rodrigo
    Castells, Antoni
    Trullas, Ramon
    Podlesniy, Petar
    Camps, Jordi
    SCIENTIFIC REPORTS, 2023, 13 (01)
  • [6] LDSSNV: A Linkage Disequilibrium-Based Method for the Detection of Somatic Single-Nucleotide Variants
    Lan, Jingfen
    Chen, Wenxiang
    Yin, Ganggang
    Haque, A. K. Alvi
    Xie, Kun
    Yu, Qiang
    Yuan, Xiguo
    IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, 2023, 20 (05) : 3020 - 3032
  • [7] SINGLE NUCLEOTIDE SOMATIC VARIANTS OF Tp53 GENE IN WIDESPREAD NEOPLASMS OF CANIS FAMILIARIS
    Saif, R.
    Awan, A. R.
    Lyons, L.
    Gandolfi, B.
    Wasim, M.
    JOURNAL OF ANIMAL AND PLANT SCIENCES, 2018, 28 (05): : 1329 - 1338
  • [8] Single-nucleotide mosaicism in citrus: Estimations of somatic mutation rates and total number of variants
    Perez-Roman, Estela
    Borreda, Carles
    Lopez-Garcia Usach, Antoni
    Talon, Manuel
    PLANT GENOME, 2022, 15 (01):
  • [9] Quantification of rare somatic single nucleotide variants by droplet digital PCR using SuperSelective primers
    Verónica Pablo-Fontecha
    Eva Hernández-Illán
    Andrea Reparaz
    Elena Asensio
    Jordi Morata
    Raúl Tonda
    Sara Lahoz
    Carolina Parra
    Juan José Lozano
    Anabel García-Heredia
    Alejandro Martínez-Roca
    Sergi Beltran
    Francesc Balaguer
    Rodrigo Jover
    Antoni Castells
    Ramon Trullàs
    Petar Podlesniy
    Jordi Camps
    Scientific Reports, 13
  • [10] Comprehensive identification of somatic nucleotide variants in human brain tissue
    Yifan Wang
    Taejeong Bae
    Jeremy Thorpe
    Maxwell A. Sherman
    Attila G. Jones
    Sean Cho
    Kenneth Daily
    Yanmei Dou
    Javier Ganz
    Alon Galor
    Irene Lobon
    Reenal Pattni
    Chaggai Rosenbluh
    Simone Tomasi
    Livia Tomasini
    Xiaoxu Yang
    Bo Zhou
    Schahram Akbarian
    Laurel L. Ball
    Sara Bizzotto
    Sarah B. Emery
    Ryan Doan
    Liana Fasching
    Yeongjun Jang
    David Juan
    Esther Lizano
    Lovelace J. Luquette
    John B. Moldovan
    Rujuta Narurkar
    Matthew T. Oetjens
    Rachel E. Rodin
    Shobana Sekar
    Joo Heon Shin
    Eduardo Soriano
    Richard E. Straub
    Weichen Zhou
    Andrew Chess
    Joseph G. Gleeson
    Tomas Marquès-Bonet
    Peter J. Park
    Mette A. Peters
    Jonathan Pevsner
    Christopher A. Walsh
    Daniel R. Weinberger
    Flora M. Vaccarino
    John V. Moran
    Alexander E. Urban
    Jeffrey M. Kidd
    Ryan E. Mills
    Alexej Abyzov
    Genome Biology, 22
12345