MOTIVATION: Multimillion-probe microarrays allow detection of gains and losses of chromosomal material at unprecedented resolution. However, the data generated by these arrays are several-fold larger than data from earlier platforms, creating a need for efficient analysis tools that scale robustly with data size. RESULTS: We developed a new aberration caller, Ultrasome, that delineates genomic changes-of-interest with dramatically improved efficiency. Ultrasome shows near-linear computational complexity and processes latest generation copy number arrays about 10,000 times faster than standard methods with preserved analytic accuracy.
MOTIVATION: Multimillion-probe microarrays allow detection of gains and losses of chromosomal material at unprecedented resolution. However, the data generated by these arrays are several-fold larger than data from earlier platforms, creating a need for efficient analysis tools that scale robustly with data size. RESULTS: We developed a new aberration caller, Ultrasome, that delineates genomic changes-of-interest with dramatically improved efficiency. Ultrasome shows near-linear computational complexity and processes latest generation copy number arrays about 10,000 times faster than standard methods with preserved analytic accuracy.
Authors: Qunyuan Zhang; Li Ding; David E Larson; Daniel C Koboldt; Michael D McLellan; Ken Chen; Xiaoqi Shi; Aldi Kraja; Elaine R Mardis; Richard K Wilson; Ingrid B Borecki; Michael A Province Journal: Bioinformatics Date: 2009-12-23 Impact factor: 6.937
Authors: John R Lamb; Chunsheng Zhang; Tao Xie; Kai Wang; Bin Zhang; Ke Hao; Eugene Chudin; Hunter B Fraser; Joshua Millstein; Mark Ferguson; Christine Suver; Irena Ivanovska; Martin Scott; Ulrike Philippar; Dimple Bansal; Zhan Zhang; Julja Burchard; Ryan Smith; Danielle Greenawalt; Michele Cleary; Jonathan Derry; Andrey Loboda; James Watters; Ronnie T P Poon; Sheung T Fan; Chun Yeung; Nikki P Y Lee; Justin Guinney; Cliona Molony; Valur Emilsson; Carolyn Buser-Doepner; Jun Zhu; Stephen Friend; Mao Mao; Peter M Shaw; Hongyue Dai; John M Luk; Eric E Schadt Journal: PLoS One Date: 2011-07-05 Impact factor: 3.240
Authors: Craig H Mermel; Steven E Schumacher; Barbara Hill; Matthew L Meyerson; Rameen Beroukhim; Gad Getz Journal: Genome Biol Date: 2011-04-28 Impact factor: 13.583
Authors: Ram Ajore; David Raiser; Marie McConkey; Magnus Jöud; Bernd Boidol; Brenton Mar; Gordon Saksena; David M Weinstock; Scott Armstrong; Steven R Ellis; Benjamin L Ebert; Björn Nilsson Journal: EMBO Mol Med Date: 2017-04 Impact factor: 12.137
Authors: Senthil B Girimurugan; Yuhang Liu; Pei-Yau Lung; Daniel L Vera; Jonathan H Dennis; Hank W Bass; Jinfeng Zhang Journal: BMC Bioinformatics Date: 2018-04-11 Impact factor: 3.169