Secondary analysis of the NCI-60 whole exome sequencing data indicates significant presence of propionibacterium acnes genomic material in leukemia (RPMI-8226) and central nervous system (SF-295, SF-539, and SNB-19) cell lines

Mark Rojas, George Golovko, Kamil Khanipov, Levent Albayrak, Sergei Chumakov, Bernard Pettitt, Alex Y. Strongin, Yuriy Fofanov

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2 Citations (Scopus)

Abstract

The NCI-60 human tumor cell line panel has been used in a broad range of cancer research over the last two decades. A landmark 2013 whole exome sequencing study of this panel added an exceptional new resource for cancer biologists. The complementary analysis of the sequencing data produced by this study suggests the presence of Propionibacterium acnes genomic sequences in almost half of the datasets, with the highest abundance in the leukemia (RPMI-8226) and central nervous system (SF-295, SF-539, and SNB-19) cell lines. While the origin of these contaminating bacterial sequences remains to be determined, observed results suggest that computational control for the presence of microbial genomic material is a necessary step in the analysis of the high throughput sequencing (HTS) data.

Original languageEnglish (US)
Article numbere0127799
JournalPLoS One
Volume10
Issue number6
DOIs
StatePublished - Jun 3 2015

Fingerprint

Propionibacterium acnes
Exome
Neurology
leukemia
central nervous system
Leukemia
Central Nervous System
Cells
cell lines
genomics
Cell Line
neoplasms
Tumor Cell Line
biologists
Tumors
Neoplasms
Throughput
Research

ASJC Scopus subject areas

  • Agricultural and Biological Sciences(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Medicine(all)

Cite this

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title = "Secondary analysis of the NCI-60 whole exome sequencing data indicates significant presence of propionibacterium acnes genomic material in leukemia (RPMI-8226) and central nervous system (SF-295, SF-539, and SNB-19) cell lines",
abstract = "The NCI-60 human tumor cell line panel has been used in a broad range of cancer research over the last two decades. A landmark 2013 whole exome sequencing study of this panel added an exceptional new resource for cancer biologists. The complementary analysis of the sequencing data produced by this study suggests the presence of Propionibacterium acnes genomic sequences in almost half of the datasets, with the highest abundance in the leukemia (RPMI-8226) and central nervous system (SF-295, SF-539, and SNB-19) cell lines. While the origin of these contaminating bacterial sequences remains to be determined, observed results suggest that computational control for the presence of microbial genomic material is a necessary step in the analysis of the high throughput sequencing (HTS) data.",
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AU - Rojas, Mark

AU - Golovko, George

AU - Khanipov, Kamil

AU - Albayrak, Levent

AU - Chumakov, Sergei

AU - Pettitt, Bernard

AU - Strongin, Alex Y.

AU - Fofanov, Yuriy

PY - 2015/6/3

Y1 - 2015/6/3

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