Zobrazeno 1 - 9
of 9
pro vyhledávání: '"Mikhail Alperovich"'
Biology-inspired data-driven quality control for scientific discovery in single-cell transcriptomics
Publikováno v:
Genome Biology, Vol 23, Iss 1, Pp 1-27 (2022)
Abstract Background Quality control (QC) of cells, a critical first step in single-cell RNA sequencing data analysis, has largely relied on arbitrarily fixed data-agnostic thresholds applied to QC metrics such as gene complexity and fraction of reads
Externí odkaz:
https://doaj.org/article/5377299066f14686b3917dab0700751a
Autor:
Miika J. Ahdesmäki, Brad A. Chapman, Pablo Cingolani, Oliver Hofmann, Aleksandr Sidoruk, Zhongwu Lai, Gennadii Zakharov, Mikhail Rodichenko, Mikhail Alperovich, David Jenkins, T. Hedley Carr, Daniel Stetson, Brian Dougherty, J. Carl Barrett, Justin H. Johnson
Publikováno v:
PeerJ, Vol 5, p e3166 (2017)
Sensitivity of short read DNA-sequencing for gene fusion detection is improving, but is hampered by the significant amount of noise composed of uninteresting or false positive hits in the data. In this paper we describe a tiered prioritisation approa
Externí odkaz:
https://doaj.org/article/c805a6e27ffa47ae840cea70b9209afb
Biology-inspired data-driven quality control for scientific discovery in single-cell transcriptomics
BackgroundQuality control (QC) of cells, a critical first step in single-cell RNA sequencing data analysis, has largely relied on arbitrarily fixed data-agnostic thresholds applied to QC metrics such as gene complexity and fraction of reads mapping t
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::171eb548314ee5211baa3222a925b6aa
https://doi.org/10.1101/2021.10.27.466176
https://doi.org/10.1101/2021.10.27.466176
Autor:
Valerie Zebrouck, Chandra Sekhar Pedamallu, Tengui Chen, Immanuel Gadaczek, Jeffrey Thompson, Joon Sang Lee, Quan Wan, Mariia Zueva, Shu Yan, Don V. Jackson, Yulia Kamyshova, Mark Magid, Jack Pollard, Alexei Protopopov, Brian McNatt, Adalis Maisonet, Aleksandr Sidoruk, Mikhail Alperovich
Publikováno v:
Cancer Research. 81:2280-2280
The successful application of Next Generation Sequencing (NGS) to drug discovery requires systems to manage and document each step of the sequencing process from sample receipt through data generation and data processing. We combined BenchlingTM, a s
Autor:
Oliver Hofmann, Aleksandr Sidoruk, Brian Dougherty, Zhongwu Lai, Mikhail Rodichenko, J. Carl Barrett, Daniel Stetson, T. Hedley Carr, Gennadii A. Zakharov, Mikhail Alperovich, Justin Johnson, Brad Chapman, Miika Ahdesmaki, Pablo E. Cingolani, David Jenkins
Publikováno v:
PeerJ
PeerJ, Vol 5, p e3166 (2017)
PeerJ, Vol 5, p e3166 (2017)
Sensitivity of short read DNA-sequencing for gene fusion detection is improving, but is hampered by the significant amount of noise composed of uninteresting or false positive hits in the data. In this paper we describe a tiered prioritisation approa
Publikováno v:
Genome Biology; 12/27/2022, Vol. 23 Issue 1, p1-27, 27p
Autor:
Zhongwu Lai, Markovets, Aleksandra, Ahdesmaki, Miika, Chapman, Brad, Hofmann, Oliver, McEwen, Robert, Johnson, Justin, Dougherty, Brian, Barrett, J. Carl, Dry, Jonathan R.
Publikováno v:
Nucleic Acids Research; 6/20/2016, Vol. 44 Issue 11, p1-11, 11p
Autor:
Kolbanovsky, Prof. V., Chernogubovskaya, Lyudmila, Tyapkin, B., Shevchenko, L., Nazarov, S., Nedosekina, A.
Publikováno v:
Soviet Studies; Oct1950, Vol. 2 Issue 2, p180-192, 13p
Autor:
Ahdesmäki MJ; Innovative Medicines and Early Development, Oncology, AstraZeneca , Cambridge , United Kingdom., Chapman BA; Harvard T.H. Chan School of Public Health, Harvard University , Boston , MA , United States., Cingolani P; Kew Inc. , Cambridge , MA , United States., Hofmann O; Centre for Cancer Research, University of Melbourne , Melbourne , Australia., Sidoruk A; EPAM Systems Inc., Newtown, PA, United States; Department of software engineering, St. Petersburg State University, St. Petersburg, Russia., Lai Z; Innovative Medicines and Early Development, Oncology, AstraZeneca , Waltham , MA , United States., Zakharov G; EPAM Systems Inc., Newtown, PA, United States; Pavlov Institute of Physiology, Russian Academy of Sciences, St. Petersburg, Russia., Rodichenko M; EPAM Systems Inc. , Newtown , PA , United States., Alperovich M; EPAM Systems Inc. , Newtown , PA , United States., Jenkins D; Boston University , Boston , MA , United States., Carr TH; Innovative Medicines and Early Development, Oncology, AstraZeneca , Cambridge , United Kingdom., Stetson D; Innovative Medicines and Early Development, Oncology, AstraZeneca , Waltham , MA , United States., Dougherty B; Innovative Medicines and Early Development, Oncology, AstraZeneca , Waltham , MA , United States., Barrett JC; Innovative Medicines and Early Development, Oncology, AstraZeneca , Waltham , MA , United States., Johnson JH; Innovative Medicines and Early Development, Oncology, AstraZeneca , Waltham , MA , United States.
Publikováno v:
PeerJ [PeerJ] 2017 Apr 04; Vol. 5, pp. e3166. Date of Electronic Publication: 2017 Apr 04 (Print Publication: 2017).